Opened 3 years ago

Closed 3 years ago

Last modified 17 months ago

#45401 closed defect (fixed)

Pymol destroot fails

Reported by: josh.baraban@… Owned by: howarth.at.macports@…
Priority: Normal Milestone:
Component: ports Version: 2.3.1
Keywords: Cc: mamoll (Mark Moll), michelle.lynn.gill@…, matteo.tiberti@…, iaindhay@…, SickTeddyBear, teige-mp@…, itamar.kass@…, petrrr, p-bro, ryandesign (Ryan Schmidt)
Port: pymol

Description (last modified by ryandesign (Ryan Schmidt))

The pymol destroot stage fails, apparently because it creates a file in the destroot directory and then attempts to copy over it.

Error: org.macports.destroot for port pymol returned: error copying "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup/pymol_macports" to "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol": file already exists

I tried cleaning, and also deleting the offending file manually, but the destroot stage of the port, which I ran individually, creates it and then throws an error because of it.

Attachments (4)

main.log (592.2 KB) - added by josh.baraban@… 3 years ago.
main.log
Portfile (3.9 KB) - added by josh.baraban@… 3 years ago.
Modified Portfile
main.log.bz2 (23.8 KB) - added by ryandesign (Ryan Schmidt) 3 years ago.
itamar.kass's main.log file
main.2.log (559.2 KB) - added by Lenuci@… 3 years ago.
Same problem :-((

Download all attachments as: .zip

Change History (27)

Changed 3 years ago by josh.baraban@…

main.log

comment:1 Changed 3 years ago by ryandesign (Ryan Schmidt)

  • Description modified (diff)
  • Owner changed from macports-tickets@… to howarth@…

It looks like you're running trace mode? Does the problem go away if you don't use trace mode?

comment:2 Changed 3 years ago by josh.baraban@…

No, I tried trace mode because the macports website recommended trying that before submitting a ticket. Same problem without trace mode. Thanks, Josh

comment:3 follow-up: Changed 3 years ago by itamar.kass@…

I have the same problem in the last few days.

IK

port install pymol

main.log:

version:1 :debug:main Found Dependency: path: /usr/bin filename: svn regex: svn$ :debug:main epoch: in tree: 2 installed: 2 :debug:main python27 2.7.8_3 exists in the ports tree :debug:main python27 2.7.8_3 is the latest installed :debug:main python27 2.7.8_3 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/lang/python27 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! python27 2.7.8_3 >= python27 2.7.8_3 :debug:main epoch: in tree: 2 installed: 2 :debug:main gettext 0.19.3_0 exists in the ports tree :debug:main gettext 0.19.3_0 is the latest installed :debug:main gettext 0.19.3_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/gettext :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup compiler_blacklist_versions 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/compiler_blacklist_versions-1.0.tcl :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main compiler clang 600.0.51 not blacklisted because it doesn't match {clang < 211.10.1} :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! gettext 0.19.3_0 >= gettext 0.19.3_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main expat 2.1.0_0 exists in the ports tree :debug:main expat 2.1.0_0 is the latest installed :debug:main expat 2.1.0_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/textproc/expat :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! expat 2.1.0_0 >= expat 2.1.0_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main libiconv 1.14_0 exists in the ports tree :debug:main libiconv 1.14_0 is the latest installed :debug:main libiconv 1.14_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/textproc/libiconv :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! libiconv 1.14_0 >= libiconv 1.14_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main ncurses 5.9_2 exists in the ports tree :debug:main ncurses 5.9_2 is the latest installed :debug:main ncurses 5.9_2 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/ncurses :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! ncurses 5.9_2 >= ncurses 5.9_2 :debug:main epoch: in tree: 0 installed: 0 :debug:main zlib 1.2.8_0 exists in the ports tree :debug:main zlib 1.2.8_0 is the latest installed :debug:main zlib 1.2.8_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/archivers/zlib :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup xcodeversion 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/xcodeversion-1.0.tcl :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! zlib 1.2.8_0 >= zlib 1.2.8_0 :debug:main epoch: in tree: 1 installed: 1 :debug:main openssl 1.0.1j_0 exists in the ports tree :debug:main openssl 1.0.1j_0 is the latest installed :debug:main openssl 1.0.1j_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/openssl :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! openssl 1.0.1j_0 >= openssl 1.0.1j_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main sqlite3 3.8.7_0 exists in the ports tree :debug:main sqlite3 3.8.7_0 is the latest installed :debug:main sqlite3 3.8.7_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/databases/sqlite3 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! sqlite3 3.8.7_0 >= sqlite3 3.8.7_0 :debug:main epoch: in tree: 20090923 installed: 20090923 :debug:main libedit 20121213-3.0_0 exists in the ports tree :debug:main libedit 20121213-3.0_0 is the latest installed :debug:main libedit 20121213-3.0_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/libedit :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! libedit 20121213-3.0_0 >= libedit 20121213-3.0_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main db48 4.8.30_3 exists in the ports tree :debug:main db48 4.8.30_3 is the latest installed :debug:main db48 4.8.30_3 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/databases/db48 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! db48 4.8.30_3 >= db48 4.8.30_3 :debug:main epoch: in tree: 0 installed: 0 :debug:main db_select 0.1_2 exists in the ports tree :debug:main db_select 0.1_2 is the latest installed :debug:main db_select 0.1_2 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/sysutils/db_select :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main universal_variant is false, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! db_select 0.1_2 >= db_select 0.1_2 :debug:main epoch: in tree: 0 installed: 0 :debug:main bzip2 1.0.6_0 exists in the ports tree :debug:main bzip2 1.0.6_0 is the latest installed :debug:main bzip2 1.0.6_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/archivers/bzip2 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! bzip2 1.0.6_0 >= bzip2 1.0.6_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main python_select 0.3_3 exists in the ports tree :debug:main python_select 0.3_3 is the latest installed :debug:main python_select 0.3_3 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/sysutils/python_select :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main universal_variant is false, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! python_select 0.3_3 >= python_select 0.3_3 :debug:main epoch: in tree: 0 installed: 0 :debug:main freeglut 2.8.1_0 exists in the ports tree :debug:main freeglut 2.8.1_0 is the latest installed :debug:main freeglut 2.8.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/freeglut :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! freeglut 2.8.1_0 >= freeglut 2.8.1_0 :debug:main epoch: in tree: 1 installed: 1 :debug:main mesa 8.0.5_3 exists in the ports tree :debug:main mesa 8.0.5_3 +python27 is the latest installed :debug:main mesa 8.0.5_3 +python27 is active :debug:main Merging existing variants '+python27' into variants :debug:main new fully merged portvariants: python27 + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/mesa :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Executing variant python27 provides python27 :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! mesa 8.0.5_3 >= mesa 8.0.5_3 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-glproto 1.4.17_0 exists in the ports tree :debug:main xorg-glproto 1.4.17_0 is the latest installed :debug:main xorg-glproto 1.4.17_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-glproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-glproto 1.4.17_0 >= xorg-glproto 1.4.17_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-dri2proto 2.8_0 exists in the ports tree :debug:main xorg-dri2proto 2.8_0 is the latest installed :debug:main xorg-dri2proto 2.8_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-dri2proto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-dri2proto 2.8_0 >= xorg-dri2proto 2.8_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXfixes 5.0.1_0 exists in the ports tree :debug:main xorg-libXfixes 5.0.1_0 is the latest installed :debug:main xorg-libXfixes 5.0.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXfixes :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXfixes 5.0.1_0 >= xorg-libXfixes 5.0.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libX11 1.6.2_0 exists in the ports tree :debug:main xorg-libX11 1.6.2_0 is the latest installed :debug:main xorg-libX11 1.6.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libX11 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libX11 1.6.2_0 >= xorg-libX11 1.6.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXdmcp 1.1.1_0 exists in the ports tree :debug:main xorg-libXdmcp 1.1.1_0 is the latest installed :debug:main xorg-libXdmcp 1.1.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXdmcp :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXdmcp 1.1.1_0 >= xorg-libXdmcp 1.1.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXau 1.0.8_0 exists in the ports tree :debug:main xorg-libXau 1.0.8_0 is the latest installed :debug:main xorg-libXau 1.0.8_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXau :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXau 1.0.8_0 >= xorg-libXau 1.0.8_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-xproto 7.0.26_0 exists in the ports tree :debug:main xorg-xproto 7.0.26_0 is the latest installed :debug:main xorg-xproto 7.0.26_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-xproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-xproto 7.0.26_0 >= xorg-xproto 7.0.26_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libxcb 1.11_0 exists in the ports tree :debug:main xorg-libxcb 1.11_0 +python27 is the latest installed :debug:main xorg-libxcb 1.11_0 +python27 is active :debug:main Merging existing variants '+python27' into variants :debug:main new fully merged portvariants: python27 + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libxcb :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Executing variant python27 provides python27 :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libxcb 1.11_0 >= xorg-libxcb 1.11_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-xcb-proto 1.11_0 exists in the ports tree :debug:main xorg-xcb-proto 1.11_0 +python27 is the latest installed :debug:main xorg-xcb-proto 1.11_0 +python27 is active :debug:main Merging existing variants '+python27' into variants :debug:main new fully merged portvariants: python27 + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-xcb-proto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Executing variant python27 provides python27 :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-xcb-proto 1.11_0 >= xorg-xcb-proto 1.11_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main libxml2 2.9.1_0 exists in the ports tree :debug:main libxml2 2.9.1_0 is the latest installed :debug:main libxml2 2.9.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/textproc/libxml2 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! libxml2 2.9.1_0 >= libxml2 2.9.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xz 5.0.7_0 exists in the ports tree :debug:main xz 5.0.7_0 is the latest installed :debug:main xz 5.0.7_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/archivers/xz :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xz 5.0.7_0 >= xz 5.0.7_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libpthread-stubs 0.3_0 exists in the ports tree :debug:main xorg-libpthread-stubs 0.3_0 is the latest installed :debug:main xorg-libpthread-stubs 0.3_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libpthread-stubs :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libpthread-stubs 0.3_0 >= xorg-libpthread-stubs 0.3_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-kbproto 1.0.6_0 exists in the ports tree :debug:main xorg-kbproto 1.0.6_0 is the latest installed :debug:main xorg-kbproto 1.0.6_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-kbproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-kbproto 1.0.6_0 >= xorg-kbproto 1.0.6_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-fixesproto 5.0_0 exists in the ports tree :debug:main xorg-fixesproto 5.0_0 is the latest installed :debug:main xorg-fixesproto 5.0_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-fixesproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-fixesproto 5.0_0 >= xorg-fixesproto 5.0_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-xextproto 7.3.0_0 exists in the ports tree :debug:main xorg-xextproto 7.3.0_0 is the latest installed :debug:main xorg-xextproto 7.3.0_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-xextproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-xextproto 7.3.0_0 >= xorg-xextproto 7.3.0_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXi 1.7.4_0 exists in the ports tree :debug:main xorg-libXi 1.7.4_0 is the latest installed :debug:main xorg-libXi 1.7.4_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXi :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXi 1.7.4_0 >= xorg-libXi 1.7.4_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXext 1.3.3_0 exists in the ports tree :debug:main xorg-libXext 1.3.3_0 is the latest installed :debug:main xorg-libXext 1.3.3_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXext :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXext 1.3.3_0 >= xorg-libXext 1.3.3_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-inputproto 2.3.1_0 exists in the ports tree :debug:main xorg-inputproto 2.3.1_0 is the latest installed :debug:main xorg-inputproto 2.3.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-inputproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-inputproto 2.3.1_0 >= xorg-inputproto 2.3.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXmu 1.1.2_0 exists in the ports tree :debug:main xorg-libXmu 1.1.2_0 is the latest installed :debug:main xorg-libXmu 1.1.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXmu :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXmu 1.1.2_0 >= xorg-libXmu 1.1.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXt 1.1.4_0 exists in the ports tree :debug:main xorg-libXt 1.1.4_0 is the latest installed :debug:main xorg-libXt 1.1.4_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXt :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXt 1.1.4_0 >= xorg-libXt 1.1.4_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libsm 1.2.1_0 exists in the ports tree :debug:main xorg-libsm 1.2.1_0 is the latest installed :debug:main xorg-libsm 1.2.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libsm :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libsm 1.2.1_0 >= xorg-libsm 1.2.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libice 1.0.8_0 exists in the ports tree :debug:main xorg-libice 1.0.8_0 is the latest installed :debug:main xorg-libice 1.0.8_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libice :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libice 1.0.8_0 >= xorg-libice 1.0.8_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXrandr 1.4.2_0 exists in the ports tree :debug:main xorg-libXrandr 1.4.2_0 is the latest installed :debug:main xorg-libXrandr 1.4.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXrandr :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXrandr 1.4.2_0 >= xorg-libXrandr 1.4.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xrender 0.9.8_0 exists in the ports tree :debug:main xrender 0.9.8_0 is the latest installed :debug:main xrender 0.9.8_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xrender :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xrender 0.9.8_0 >= xrender 0.9.8_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-renderproto 0.11.1_0 exists in the ports tree :debug:main xorg-renderproto 0.11.1_0 is the latest installed :debug:main xorg-renderproto 0.11.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-renderproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-renderproto 0.11.1_0 >= xorg-renderproto 0.11.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-randrproto 1.4.0_0 exists in the ports tree :debug:main xorg-randrproto 1.4.0_0 is the latest installed :debug:main xorg-randrproto 1.4.0_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-randrproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-randrproto 1.4.0_0 >= xorg-randrproto 1.4.0_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXxf86vm 1.1.3_0 exists in the ports tree :debug:main xorg-libXxf86vm 1.1.3_0 is the latest installed :debug:main xorg-libXxf86vm 1.1.3_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXxf86vm :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXxf86vm 1.1.3_0 >= xorg-libXxf86vm 1.1.3_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-xf86vidmodeproto 2.3.1_0 exists in the ports tree :debug:main xorg-xf86vidmodeproto 2.3.1_0 is the latest installed :debug:main xorg-xf86vidmodeproto 2.3.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-xf86vidmodeproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-xf86vidmodeproto 2.3.1_0 >= xorg-xf86vidmodeproto 2.3.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main freetype 2.5.3_1 exists in the ports tree :debug:main freetype 2.5.3_1 is the latest installed :debug:main freetype 2.5.3_1 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/print/freetype :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! freetype 2.5.3_1 >= freetype 2.5.3_1 :debug:main epoch: in tree: 0 installed: 0 :debug:main libpng 1.6.13_0 exists in the ports tree :debug:main libpng 1.6.13_0 is the latest installed :debug:main libpng 1.6.13_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/graphics/libpng :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! libpng 1.6.13_0 >= libpng 1.6.13_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main glew 1.11.0_0 exists in the ports tree :debug:main glew 1.11.0_0 is the latest installed :debug:main glew 1.11.0_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/graphics/glew :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! glew 1.11.0_0 >= glew 1.11.0_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main py27-numpy 1.9.0_0 exists in the ports tree :debug:main py27-numpy 1.9.0_0 is the latest installed :debug:main py27-numpy 1.9.0_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/python/py-numpy :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Re-registering default for build.cmd :debug:main Re-registering default for destroot.cmd :debug:main Re-registering default for destroot.destdir :debug:main Sourcing PortGroup python 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/python-1.0.tcl :debug:main Sourcing PortGroup github 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/github-1.0.tcl :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! py27-numpy 1.9.0_0 >= py27-numpy 1.9.0_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main fftw-3 3.3.4_0 exists in the ports tree :debug:main fftw-3 3.3.4_0 +gcc48+mpich is the latest installed :debug:main fftw-3 3.3.4_0 +gcc48+mpich is active :debug:main Merging existing variants '+gcc48+mpich' into variants :debug:main new fully merged portvariants: mpich + gcc48 + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/math/fftw-3 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main Sourcing PortGroup compiler_blacklist_versions 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/compiler_blacklist_versions-1.0.tcl :debug:main Sourcing PortGroup active_variants 1.1 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/active_variants-1.1.tcl :debug:main Sourcing PortGroup compilers 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/compilers-1.0.tcl :debug:main Sourcing PortGroup mpi 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/mpi-1.0.tcl :debug:main compiler clang 600.0.51 not blacklisted because it doesn't match {clang <= 211.10.1} :debug:main universal variant already exists, so not adding the default one :debug:main Executing variant gcc48 provides gcc48 :debug:main Executing variant mpich provides mpich :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! fftw-3 3.3.4_0 >= fftw-3 3.3.4_0 :debug:main epoch: in tree: 2 installed: 2 :debug:main libgcc 4.9.1_0 exists in the ports tree :debug:main libgcc 4.9.1_0 is the latest installed :debug:main libgcc 4.9.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/lang/gcc49 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main Sourcing PortGroup compiler_blacklist_versions 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/compiler_blacklist_versions-1.0.tcl :debug:main Sourcing PortGroup conflicts_build 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/conflicts_build-1.0.tcl :debug:main compiler llvm-gcc-4.2 2336.11.00 not blacklisted because it doesn't match {llvm-gcc-4.2 < 2336.1} :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! libgcc 4.9.1_0 >= libgcc 4.9.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main gmp 6.0.0_1 exists in the ports tree :debug:main gmp 6.0.0_1 is the latest installed :debug:main gmp 6.0.0_1 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/gmp :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! gmp 6.0.0_1 >= gmp 6.0.0_1 :debug:main epoch: in tree: 0 installed: 0 :debug:main mpfr 3.1.2-p10_3 exists in the ports tree :debug:main mpfr 3.1.2-p10_3 is the latest installed :debug:main mpfr 3.1.2-p10_3 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/mpfr :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main Sourcing PortGroup compiler_blacklist_versions 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/compiler_blacklist_versions-1.0.tcl :debug:main compiler clang 600.0.51 not blacklisted because it doesn't match {clang == 211.10.1} :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! mpfr 3.1.2-p10_3 >= mpfr 3.1.2-p10_3 :debug:main epoch: in tree: 0 installed: 0 :debug:main libmpc 1.0.2_0 exists in the ports tree :debug:main libmpc 1.0.2_0 is the latest installed :debug:main libmpc 1.0.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/libmpc :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! libmpc 1.0.2_0 >= libmpc 1.0.2_0 :debug:main epoch: in tree: 1 installed: 1 :debug:main cloog 0.18.2_0 exists in the ports tree :debug:main cloog 0.18.2_0 is the latest installed :debug:main cloog 0.18.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/cloog :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! cloog 0.18.2_0 >= cloog 0.18.2_0 :debug:main epoch: in tree: 2 installed: 2 :debug:main isl 0.13_0 exists in the ports tree :debug:main isl 0.13_0 is the latest installed :debug:main isl 0.13_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/isl :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! isl 0.13_0 >= isl 0.13_0 :debug:main epoch: in tree: 1 installed: 1 :debug:main ld64 236.3_1 exists in the ports tree :debug:main ld64 236.3_1 +llvm35 is the latest installed :debug:main ld64 236.3_1 +llvm35 is active :debug:main Merging existing variants '+llvm35' into variants :debug:main new fully merged portvariants: llvm35 + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/ld64 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Executing variant llvm35 provides llvm35 :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! ld64 236.3_1 >= ld64 236.3_1 :debug:main epoch: in tree: 0 installed: 0 :debug:main llvm-3.5 3.5-r216817_0 exists in the ports tree :debug:main llvm-3.5 3.5-r216817_0 +assertions is the latest installed :debug:main llvm-3.5 3.5-r216817_0 +assertions is active :debug:main Merging existing variants '+assertions' into variants :debug:main new fully merged portvariants: assertions + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/lang/llvm-3.5 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main Sourcing PortGroup compiler_blacklist_versions 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/compiler_blacklist_versions-1.0.tcl :debug:main compiler clang 600.0.51 not blacklisted because it doesn't match {clang < 421} :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Executing variant assertions provides assertions :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! llvm-3.5 3.5-r216817_0 >= llvm-3.5 3.5-r216817_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main libffi 3.1_4 exists in the ports tree :debug:main libffi 3.1_4 is the latest installed :debug:main libffi 3.1_4 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/libffi :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! libffi 3.1_4 >= libffi 3.1_4 :debug:main epoch: in tree: 0 installed: 0 :debug:main libcxx 183506_1 exists in the ports tree :debug:main libcxx 183506_1 is the latest installed :debug:main libcxx 183506_1 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/lang/libcxx :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! libcxx 183506_1 >= libcxx 183506_1 :debug:main epoch: in tree: 0 installed: 0 :debug:main perl5 5.12.4_0 exists in the ports tree :debug:main perl5 5.12.4_0 +perl5_16 is the latest installed :debug:main perl5 5.12.4_0 +perl5_16 is active :debug:main Merging existing variants '+perl5_16' into variants :debug:main new fully merged portvariants: perl5_16 + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/lang/perl5 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main universal_variant is false, so not adding the default universal variant :debug:main Executing variant perl5_16 provides perl5_16 :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! perl5 5.12.4_0 >= perl5 5.12.4_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main perl5.16 5.16.3_0 exists in the ports tree :debug:main perl5.16 5.16.3_0 is the latest installed :debug:main perl5.16 5.16.3_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/lang/perl5.16 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! perl5.16 5.16.3_0 >= perl5.16 5.16.3_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main gdbm 1.11_0 exists in the ports tree :debug:main gdbm 1.11_0 is the latest installed :debug:main gdbm 1.11_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/databases/gdbm :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! gdbm 1.11_0 >= gdbm 1.11_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main llvm_select 1.0_0 exists in the ports tree :debug:main llvm_select 1.0_0 is the latest installed :debug:main llvm_select 1.0_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/sysutils/llvm_select :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main universal_variant is false, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! llvm_select 1.0_0 >= llvm_select 1.0_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main cctools 855_1 exists in the ports tree :debug:main cctools 855_1 +llvm35 is the latest installed :debug:main cctools 855_1 +llvm35 is active :debug:main Merging existing variants '+llvm35' into variants :debug:main new fully merged portvariants: llvm35 + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/cctools :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Executing variant llvm35 provides llvm35 :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! cctools 855_1 >= cctools 855_1 :debug:main epoch: in tree: 0 installed: 0 :debug:main cctools-headers 855_0 exists in the ports tree :debug:main cctools-headers 855_0 is the latest installed :debug:main cctools-headers 855_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/cctools-headers :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main universal_variant is false, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! cctools-headers 855_0 >= cctools-headers 855_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main gcc_select 0.1_8 exists in the ports tree :debug:main gcc_select 0.1_8 is the latest installed :debug:main gcc_select 0.1_8 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/sysutils/gcc_select :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main universal_variant is false, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! gcc_select 0.1_8 >= gcc_select 0.1_8 :debug:main epoch: in tree: 0 installed: 0 :debug:main mpich-gcc48 3.1.3_0 exists in the ports tree :debug:main mpich-gcc48 3.1.3_0 +fortran is the latest installed :debug:main mpich-gcc48 3.1.3_0 +fortran is active :debug:main Merging existing variants '+fortran' into variants :debug:main new fully merged portvariants: fortran + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/mpich :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup compiler_blacklist_versions 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/compiler_blacklist_versions-1.0.tcl :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main compiler clang 600.0.51 not blacklisted because it doesn't match {clang >= 421.11.66 < 425.0.24} :debug:main universal_variant is false, so not adding the default universal variant :debug:main Executing variant fortran provides fortran :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Chosen compiler macports-gcc-4.8 is provided by a port, adding dependency :debug:main Adding depends_lib port:gcc48 :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! mpich-gcc48 3.1.3_0 >= mpich-gcc48 3.1.3_0 :debug:main epoch: in tree: 2 installed: 2 :debug:main gcc48 4.8.3_0 exists in the ports tree :debug:main gcc48 4.8.3_0 is the latest installed :debug:main gcc48 4.8.3_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/lang/gcc48 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main Sourcing PortGroup compiler_blacklist_versions 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/compiler_blacklist_versions-1.0.tcl :debug:main Sourcing PortGroup conflicts_build 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/conflicts_build-1.0.tcl :debug:main compiler llvm-gcc-4.2 2336.11.00 not blacklisted because it doesn't match {llvm-gcc-4.2 < 2336.1} :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! gcc48 4.8.3_0 >= gcc48 4.8.3_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main mpi_select 0.0_3 exists in the ports tree :debug:main mpi_select 0.0_3 is the latest installed :debug:main mpi_select 0.0_3 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/sysutils/mpi_select :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main universal_variant is false, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! mpi_select 0.0_3 >= mpi_select 0.0_3 :debug:main epoch: in tree: 0 installed: 0 :debug:main mpi-doc 3.1.3_0 exists in the ports tree :debug:main mpi-doc 3.1.3_0 is the latest installed :debug:main mpi-doc 3.1.3_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/mpi-doc :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main universal_variant is false, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! mpi-doc 3.1.3_0 >= mpi-doc 3.1.3_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main py27-nose 1.3.1_0 exists in the ports tree :debug:main py27-nose 1.3.1_0 is the latest installed :debug:main py27-nose 1.3.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/python/py-nose :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Re-registering default for build.cmd :debug:main Re-registering default for destroot.cmd :debug:main Re-registering default for destroot.destdir :debug:main Sourcing PortGroup python 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/python-1.0.tcl :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! py27-nose 1.3.1_0 >= py27-nose 1.3.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main py27-setuptools 6.1_0 exists in the ports tree :debug:main py27-setuptools 6.1_0 is the latest installed :debug:main py27-setuptools 6.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/python/py-setuptools :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Re-registering default for build.cmd :debug:main Re-registering default for destroot.cmd :debug:main Re-registering default for destroot.destdir :debug:main Sourcing PortGroup python 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/python-1.0.tcl :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! py27-setuptools 6.1_0 >= py27-setuptools 6.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main nosetests_select 0.1_0 exists in the ports tree :debug:main nosetests_select 0.1_0 is the latest installed :debug:main nosetests_select 0.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/python/nosetests_select :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main universal_variant is false, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! nosetests_select 0.1_0 >= nosetests_select 0.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main py27-cython 0.21.1_0 exists in the ports tree :debug:main py27-cython 0.21.1_0 is the latest installed :debug:main py27-cython 0.21.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/python/py-cython :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Re-registering default for build.cmd :debug:main Re-registering default for destroot.cmd :debug:main Re-registering default for destroot.destdir :debug:main Sourcing PortGroup python 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/python-1.0.tcl :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! py27-cython 0.21.1_0 >= py27-cython 0.21.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main cython_select 0.1_0 exists in the ports tree :debug:main cython_select 0.1_0 is the latest installed :debug:main cython_select 0.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/python/cython_select :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup select 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/select-1.0.tcl :debug:main universal_variant is false, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! cython_select 0.1_0 >= cython_select 0.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main py27-pmw 1.3.3a_0 exists in the ports tree :debug:main py27-pmw 1.3.3a_0 is the latest installed :debug:main py27-pmw 1.3.3a_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/python/py-pmw :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Re-registering default for build.cmd :debug:main Re-registering default for destroot.cmd :debug:main Re-registering default for destroot.destdir :debug:main Sourcing PortGroup python 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/python-1.0.tcl :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! py27-pmw 1.3.3a_0 >= py27-pmw 1.3.3a_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main py27-tkinter 2.7.8_2 exists in the ports tree :debug:main py27-tkinter 2.7.8_2 is the latest installed :debug:main py27-tkinter 2.7.8_2 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/python/py-tkinter :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Re-registering default for build.cmd :debug:main Re-registering default for destroot.cmd :debug:main Re-registering default for destroot.destdir :debug:main Sourcing PortGroup python 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/python-1.0.tcl :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! py27-tkinter 2.7.8_2 >= py27-tkinter 2.7.8_2 :debug:main epoch: in tree: 0 installed: 0 :debug:main tk 8.6.1_1 exists in the ports tree :debug:main tk 8.6.1_1 is the latest installed :debug:main tk 8.6.1_1 is active :debug:main Merging existing variants '-quartz' into variants :debug:main new fully merged portvariants: quartz - :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/tk :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! tk 8.6.1_1 >= tk 8.6.1_1 :debug:main epoch: in tree: 0 installed: 0 :debug:main tcl 8.6.1_0 exists in the ports tree :debug:main tcl 8.6.1_0 +threads is the latest installed :debug:main tcl 8.6.1_0 +threads is active :debug:main Merging existing variants '+threads-corefoundation' into variants :debug:main new fully merged portvariants: corefoundation - threads + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/lang/tcl :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Executing variant threads provides threads :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! tcl 8.6.1_0 >= tcl 8.6.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main Xft2 2.3.2_0 exists in the ports tree :debug:main Xft2 2.3.2_0 is the latest installed :debug:main Xft2 2.3.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/Xft2 :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! Xft2 2.3.2_0 >= Xft2 2.3.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main fontconfig 2.11.1_0 exists in the ports tree :debug:main fontconfig 2.11.1_0 is the latest installed :debug:main fontconfig 2.11.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/graphics/fontconfig :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Sourcing PortGroup muniversal 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/muniversal-1.0.tcl :debug:main universal variant already exists, so not adding the default one :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! fontconfig 2.11.1_0 >= fontconfig 2.11.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXScrnSaver 1.2.2_0 exists in the ports tree :debug:main xorg-libXScrnSaver 1.2.2_0 is the latest installed :debug:main xorg-libXScrnSaver 1.2.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXScrnSaver :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXScrnSaver 1.2.2_0 >= xorg-libXScrnSaver 1.2.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-scrnsaverproto 1.2.2_0 exists in the ports tree :debug:main xorg-scrnsaverproto 1.2.2_0 is the latest installed :debug:main xorg-scrnsaverproto 1.2.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-scrnsaverproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-scrnsaverproto 1.2.2_0 >= xorg-scrnsaverproto 1.2.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main py27-scipy 0.14.0_0 exists in the ports tree :debug:main py27-scipy 0.14.0_0 +gcc48 is the latest installed :debug:main py27-scipy 0.14.0_0 +gcc48 is active :debug:main Merging existing variants '+gcc48' into variants :debug:main new fully merged portvariants: gcc48 + :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/python/py-scipy :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Re-registering default for build.cmd :debug:main Re-registering default for destroot.cmd :debug:main Re-registering default for destroot.destdir :debug:main Sourcing PortGroup python 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/python-1.0.tcl :debug:main Sourcing PortGroup active_variants 1.1 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/active_variants-1.1.tcl :debug:main universal_variant is false, so not adding the default universal variant :debug:main Executing variant gcc48 provides gcc48 :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! py27-scipy 0.14.0_0 >= py27-scipy 0.14.0_0 :debug:main epoch: in tree: 20120107 installed: 20120107 :debug:main SuiteSparse 4.2.1_3 exists in the ports tree :debug:main SuiteSparse 4.2.1_3 is the latest installed :debug:main SuiteSparse 4.2.1_3 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/math/SuiteSparse :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main Sourcing PortGroup active_variants 1.1 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/active_variants-1.1.tcl :debug:main Sourcing PortGroup compilers 1.0 from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/group/compilers-1.0.tcl :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! SuiteSparse 4.2.1_3 >= SuiteSparse 4.2.1_3 :debug:main epoch: in tree: 0 installed: 0 :debug:main swig-python 3.0.2_0 exists in the ports tree :debug:main swig-python 3.0.2_0 is the latest installed :debug:main swig-python 3.0.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/swig :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! swig-python 3.0.2_0 >= swig-python 3.0.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main swig 3.0.2_0 exists in the ports tree :debug:main swig 3.0.2_0 is the latest installed :debug:main swig 3.0.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/swig :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! swig 3.0.2_0 >= swig 3.0.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main pcre 8.35_0 exists in the ports tree :debug:main pcre 8.35_0 is the latest installed :debug:main pcre 8.35_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/devel/pcre :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! pcre 8.35_0 >= pcre 8.35_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xdpyinfo 1.3.1_0 exists in the ports tree :debug:main xdpyinfo 1.3.1_0 is the latest installed :debug:main xdpyinfo 1.3.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xdpyinfo :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xdpyinfo 1.3.1_0 >= xdpyinfo 1.3.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXinerama 1.1.3_0 exists in the ports tree :debug:main xorg-libXinerama 1.1.3_0 is the latest installed :debug:main xorg-libXinerama 1.1.3_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXinerama :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXinerama 1.1.3_0 >= xorg-libXinerama 1.1.3_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-xineramaproto 1.2.1_0 exists in the ports tree :debug:main xorg-xineramaproto 1.2.1_0 is the latest installed :debug:main xorg-xineramaproto 1.2.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-xineramaproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-xineramaproto 1.2.1_0 >= xorg-xineramaproto 1.2.1_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libXtst 1.2.2_0 exists in the ports tree :debug:main xorg-libXtst 1.2.2_0 is the latest installed :debug:main xorg-libXtst 1.2.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libXtst :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libXtst 1.2.2_0 >= xorg-libXtst 1.2.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-recordproto 1.14.2_0 exists in the ports tree :debug:main xorg-recordproto 1.14.2_0 is the latest installed :debug:main xorg-recordproto 1.14.2_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-recordproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-recordproto 1.14.2_0 >= xorg-recordproto 1.14.2_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-libdmx 1.1.3_0 exists in the ports tree :debug:main xorg-libdmx 1.1.3_0 is the latest installed :debug:main xorg-libdmx 1.1.3_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-libdmx :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main adding the default universal variant :debug:main Reading variant descriptions from /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/_resources/port1.0/variant_descriptions.conf :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-libdmx 1.1.3_0 >= xorg-libdmx 1.1.3_0 :debug:main epoch: in tree: 0 installed: 0 :debug:main xorg-dmxproto 2.3.1_0 exists in the ports tree :debug:main xorg-dmxproto 2.3.1_0 is the latest installed :debug:main xorg-dmxproto 2.3.1_0 is active :debug:main Merging existing variants into variants :debug:main new fully merged portvariants: :debug:main Changing to port directory: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/x11/xorg-dmxproto :debug:main OS darwin/13.4.0 (Mac OS X 10.9) arch i386 :debug:main only one arch supported, so not adding the default universal variant :debug:main Running callback portconfigure::add_automatic_compiler_dependencies :debug:main Finished running callback portconfigure::add_automatic_compiler_dependencies :debug:main Running callback portbuild::add_automatic_buildsystem_dependencies :debug:main Finished running callback portbuild::add_automatic_buildsystem_dependencies :debug:main No need to upgrade! xorg-dmxproto 2.3.1_0 >= xorg-dmxproto 2.3.1_0 :msg:main ---> Computing dependencies for pymol:info:main .:debug:main pymol has no conflicts :debug:main Found Dependency: path: /usr/bin filename: svn regex: svn$ :debug:main Searching for dependency: subversion :debug:main Didn't find receipt, going to depspec regex for: subversion :debug:main Found Dependency: path: /usr/bin filename: svn regex: svn$ :debug:main Searching for dependency: python27 :debug:main Found Dependency: receipt exists for python27 :debug:main Searching for dependency: freeglut :debug:main Found Dependency: receipt exists for freeglut :debug:main Searching for dependency: freetype :debug:main Found Dependency: receipt exists for freetype :debug:main Searching for dependency: glew :debug:main Found Dependency: receipt exists for glew :debug:main Searching for dependency: libpng :debug:main Found Dependency: receipt exists for libpng :debug:main Searching for dependency: mesa :debug:main Found Dependency: receipt exists for mesa :debug:main Searching for dependency: py27-numpy :debug:main Found Dependency: receipt exists for py27-numpy :debug:main Searching for dependency: py27-pmw :debug:main Found Dependency: receipt exists for py27-pmw :debug:main Searching for dependency: py27-scipy :debug:main Found Dependency: receipt exists for py27-scipy :debug:main Searching for dependency: py27-tkinter :debug:main Found Dependency: receipt exists for py27-tkinter :debug:main Searching for dependency: xdpyinfo :debug:main Found Dependency: receipt exists for xdpyinfo :msg:main :debug:main Executing org.macports.main (pymol) :debug:main changing euid/egid - current euid: 0 - current egid: 0 :debug:main egid changed to: 501 :debug:main euid changed to: 502 :debug:archivefetch archivefetch phase started at Sun Oct 19 16:54:37 AEDT 2014 :msg:archivefetch ---> Fetching archive for pymol :debug:archivefetch Executing proc-pre-org.macports.archivefetch-archivefetch-0 :debug:archivefetch Active variants check for archivefetch-type install considers depends_lib depends_run: python27 freeglut freetype glew libpng mesa py27-numpy py27-pmw py27-scipy py27-tkinter xdpyinfo :debug:archivefetch Ignoring active_variants requirement for tcl because archivefetch-type install only considers depends_lib depends_run and those do not contain tcl :debug:archivefetch Ignoring active_variants requirement for tk because archivefetch-type install only considers depends_lib depends_run and those do not contain tk :debug:archivefetch Executing org.macports.archivefetch (pymol) :debug:archivefetch euid/egid changed to: 0/0 :debug:archivefetch chowned /opt/local/var/macports/incoming to macports :debug:archivefetch euid/egid changed to: 502/501 :info:archivefetch ---> pymol-1.7.1.1_1.darwin_13.x86_64.tbz2 doesn't seem to exist in /opt/local/var/macports/incoming/verified :msg:archivefetch ---> Attempting to fetch pymol-1.7.1.1_1.darwin_13.x86_64.tbz2 from http://packages.macports.org/pymol :debug:archivefetch Fetching archive failed:: The requested URL returned error: 404 Not Found :msg:archivefetch ---> Attempting to fetch pymol-1.7.1.1_1.darwin_13.x86_64.tbz2 from http://jog.id.packages.macports.org/macports/packages/pymol :debug:archivefetch Fetching archive failed:: The requested URL returned error: 404 Not Found :msg:archivefetch ---> Attempting to fetch pymol-1.7.1.1_1.darwin_13.x86_64.tbz2 from http://mse.uk.packages.macports.org/sites/packages.macports.org/pymol :debug:archivefetch Fetching archive failed:: The requested URL returned error: 404 Not Found :debug:archivefetch Privilege de-escalation not attempted as not running as root. :debug:fetch fetch phase started at Sun Oct 19 16:54:39 AEDT 2014 :notice:fetch ---> Fetching distfiles for pymol :debug:fetch Can't run fetch on this port without elevated privileges. Escalating privileges back to root. :debug:fetch euid changed to: 0. egid changed to: 0. :debug:fetch changing euid/egid - current euid: 0 - current egid: 0 :debug:fetch egid changed to: 501 :debug:fetch euid changed to: 502 :debug:fetch Executing org.macports.fetch (pymol) :debug:fetch Environment: CC_PRINT_OPTIONS='YES' CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/.CC_PRINT_OPTIONS' CPATH='/opt/local/include' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.9' :debug:fetch Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work" && /usr/bin/svn --non-interactive --trust-server-cert export https://svn.code.sf.net/p/pymol/code/trunk/pymol@4074' :debug:fetch Executing command line: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work" && /usr/bin/svn --non-interactive --trust-server-cert export https://svn.code.sf.net/p/pymol/code/trunk/pymol@4074 2>&1 :info:fetch A pymol :info:fetch A pymol/test :info:fetch A pymol/test/headerTest.py :info:fetch A pymol/test/show :info:fetch A pymol/test/cyg :info:fetch A pymol/test/trim.py :info:fetch A pymol/test/run :info:fetch A pymol/test/win.py :info:fetch A pymol/test/inp :info:fetch A pymol/test/inp/B08.py :info:fetch A pymol/test/inp/C0200feedback.pml :info:fetch A pymol/test/inp/C0300session.pml :info:fetch A pymol/test/inp/M0010load.pml :info:fetch A pymol/test/inp/C0201extend.pml :info:fetch A pymol/test/inp/M0025view.pml :info:fetch A pymol/test/inp/C0740multipdb.pml :info:fetch A pymol/test/inp/C0050multi.pml :info:fetch A pymol/test/inp/L0010ccp4read.pml :info:fetch A pymol/test/inp/C1060controlling.py :info:fetch A pymol/test/inp/T02.py :info:fetch A pymol/test/inp/M0001new.pml :info:fetch A pymol/test/inp/C2000returns.py :info:fetch A pymol/test/inp/M0053session.pml :info:fetch A pymol/test/inp/C0170scene.pml :info:fetch A pymol/test/inp/C1020querying.pml :info:fetch A pymol/test/inp/M0020multi.pml :info:fetch A pymol/test/inp/C0060delete.pml :info:fetch A pymol/test/inp/C0105names.pml :info:fetch A pymol/test/inp/C1300extras.pml :info:fetch A pymol/test/inp/C0080create.pml :info:fetch A pymol/test/inp/C0150alter.pml :info:fetch A pymol/test/inp/C0800matrices.pml :info:fetch A pymol/test/inp/L0100isomisc.pml :info:fetch A pymol/test/inp/C0100select.pml :info:fetch A pymol/test/inp/B03.py :info:fetch A pymol/test/inp/C0600util.pml :info:fetch A pymol/test/inp/C1035wildcards.pml :info:fetch A pymol/test/inp/B07.py :info:fetch A pymol/test/inp/C0180embed.pml :info:fetch A pymol/test/inp/C1200matrix_maps.pml :info:fetch A pymol/test/inp/C0030pkl.pml :info:fetch A pymol/test/inp/T01.py :info:fetch A pymol/test/inp/C0021pdbstr.pml :info:fetch A pymol/test/inp/M0052session.pml :info:fetch A pymol/test/inp/L0040isomesh2.pml :info:fetch A pymol/test/inp/M0021multi.pml :info:fetch A pymol/test/inp/C0020pdb.pml :info:fetch A pymol/test/inp/L0200electro.pml :info:fetch A pymol/test/inp/C0550pseudo.pml :info:fetch A pymol/test/inp/C1090coulomb.pml :info:fetch A pymol/test/inp/L0020xplorread.pml :info:fetch A pymol/test/inp/B02.py :info:fetch A pymol/test/inp/M0041do.pml :info:fetch A pymol/test/inp/C1030selecting.pml :info:fetch A pymol/test/inp/C0027mol2.pml :info:fetch A pymol/test/inp/C0026sdf.pml :info:fetch A pymol/test/inp/B06.py :info:fetch A pymol/test/inp/C0181embed.pml :info:fetch A pymol/test/inp/C0160get.pml :info:fetch A pymol/test/inp/C1080isomore.pml :info:fetch A pymol/test/inp/C1070exporting.pml :info:fetch A pymol/test/inp/C1010helping.pml :info:fetch A pymol/test/inp/C0025mol.pml :info:fetch A pymol/test/inp/C0500misc.pml :info:fetch A pymol/test/inp/U01.pml :info:fetch A pymol/test/inp/C0140iterate.pml :info:fetch A pymol/test/inp/M0051session.pml :info:fetch A pymol/test/inp/T04.py :info:fetch A pymol/test/inp/C1100do.py :info:fetch A pymol/test/inp/C1050fitting.py :info:fetch A pymol/test/inp/C0700odd.pml :info:fetch A pymol/test/inp/C1095slice.pml :info:fetch A pymol/test/inp/B01.py :info:fetch A pymol/test/inp/B11.py :info:fetch A pymol/test/inp/C0106order.pml :info:fetch A pymol/test/inp/C0001quit.pml :info:fetch A pymol/test/inp/B05.py :info:fetch A pymol/test/inp/B09.py :info:fetch A pymol/test/inp/C1040editing.pml :info:fetch A pymol/test/inp/C0202help_python.pml :info:fetch A pymol/test/inp/C0070rep.pml :info:fetch A pymol/test/inp/M0050session.pml :info:fetch A pymol/test/inp/T03.py :info:fetch A pymol/test/inp/C0010hello.pml :info:fetch A pymol/test/inp/C1000viewing.pml :info:fetch A pymol/test/inp/M0002start.pml :info:fetch A pymol/test/inp/M0030scene.pml :info:fetch A pymol/test/inp/C1110matrix_mode.pml :info:fetch A pymol/test/inp/B10.py :info:fetch A pymol/test/inp/M0040do.pml :info:fetch A pymol/test/inp/B04.py :info:fetch A pymol/test/inp/L0030isomesh.pml :info:fetch A pymol/test/dat :info:fetch A pymol/test/dat/small03.mol2 :info:fetch A pymol/test/dat/helix_amber.pdb :info:fetch A pymol/test/dat/water.pdb :info:fetch A pymol/test/dat/tiny.pdb :info:fetch A pymol/test/dat/3al1.r3d :info:fetch A pymol/test/dat/il2.pdb :info:fetch A pymol/test/dat/pept.pkl :info:fetch A pymol/test/dat/small01.mol :info:fetch A pymol/test/dat/pept.r3d :info:fetch A pymol/test/dat/ligs3d.sdf :info:fetch A pymol/test/dat/3al1.pdb :info:fetch A pymol/test/dat/names.pdb :info:fetch A pymol/test/dat/embed01.p1m :info:fetch A pymol/test/dat/1tii.pdb :info:fetch A pymol/test/dat/embed02.p1m :info:fetch A pymol/test/dat/odd01.pdb :info:fetch A pymol/test/dat/embed03.p1m :info:fetch A pymol/test/dat/pept.pdb :info:fetch A pymol/test/dat/odd02.pdb :info:fetch A pymol/test/dat/embed04.p1m :info:fetch A 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:info:fetch A pymol/examples/devel :info:fetch A pymol/examples/devel/hole_vmd_tri.pym :info:fetch A pymol/examples/devel/cgo_axes.py :info:fetch A pymol/examples/devel/cgo_label_hack.py :info:fetch A pymol/examples/devel/sd_annotate.pml :info:fetch A pymol/examples/devel/count_molecules.py :info:fetch A pymol/examples/devel/particle01.py :info:fetch A pymol/examples/devel/gl02.py :info:fetch A pymol/examples/devel/cgo_3Dtext01.py :info:fetch A pymol/examples/devel/chempy_model02.py :info:fetch A pymol/examples/devel/xmlrpc02.py :info:fetch A pymol/examples/devel/importing.py :info:fetch A pymol/examples/devel/my_ext_gui.py :info:fetch A pymol/examples/devel/cgo01.py :info:fetch A pymol/examples/devel/cgo03.py :info:fetch A pymol/examples/devel/cgo05.py :info:fetch A pymol/examples/devel/pick_wiz.py :info:fetch A pymol/examples/devel/cgo07.py :info:fetch A pymol/examples/devel/sele_wiz.py :info:fetch A pymol/examples/devel/scenes_to_movie01.pml :info:fetch A pymol/examples/devel/webgui02.py :info:fetch A pymol/examples/devel/syncmol.py :info:fetch A pymol/examples/devel/cam2crd.pym :info:fetch A pymol/examples/devel/brick01.py :info:fetch A pymol/examples/devel/extend_demo01.py :info:fetch A pymol/examples/devel/mutate01.pml :info:fetch A pymol/examples/devel/link_demo.py :info:fetch A pymol/examples/devel/mutate02.py :info:fetch A pymol/examples/devel/gl01.py :info:fetch A pymol/examples/devel/particle02.py :info:fetch A pymol/examples/devel/gl03.py :info:fetch A pymol/examples/devel/tkwindow.py :info:fetch A pymol/examples/devel/chempy_model01.py :info:fetch A pymol/examples/devel/xmlrpc01.py :info:fetch A pymol/examples/devel/demo.sdf :info:fetch A pymol/examples/devel/chempy_model03.py :info:fetch A pymol/examples/devel/cgo02.py :info:fetch A pymol/examples/devel/cgo04.py :info:fetch A pymol/examples/devel/start_pymol.py :info:fetch A pymol/examples/devel/cgo06.py :info:fetch A pymol/examples/devel/cgo08.py :info:fetch A pymol/examples/devel/povray01.py :info:fetch A pymol/examples/devel/webgui01.py :info:fetch A pymol/examples/devel/click_ordered_list.py :info:fetch A pymol/examples/devel/membrane.py :info:fetch A pymol/examples/devel/cgo_plane.py :info:fetch A pymol/examples/chempy :info:fetch A pymol/examples/chempy/generate_mmff.py :info:fetch A pymol/examples/chempy/generate_amber.py :info:fetch A pymol/examples/cookbook :info:fetch A pymol/examples/cookbook/build_peptide.py :info:fetch A pymol/examples/cookbook/dali.py :info:fetch A pymol/examples/cookbook/ss_xfer.pml :info:fetch A pymol/examples/cookbook/contact.pml :info:fetch A pymol/examples/cookbook/packing.pml :info:fetch A pymol/examples/cookbook/seq_match_sele.pml :info:fetch A pymol/examples/cookbook/multiclip_ray.pml :info:fetch A pymol/examples/cookbook/packsurf.pml :info:fetch A pymol/examples/cookbook/density.pml :info:fetch A pymol/examples/cookbook/groel_es.pml :info:fetch A pymol/examples/cookbook/ribosome.pml :info:fetch A pymol/examples/cookbook/area_diff.pml :info:fetch A pymol/examples/cookbook/scenes2movie.pml :info:fetch A pymol/examples/cookbook/symsph.py :info:fetch A pymol/examples/cookbook/ref_frame.pml :info:fetch A pymol/examples/launching :info:fetch A pymol/examples/launching/launch.py :info:fetch A pymol/examples/launching/launch_viewer1.py :info:fetch A pymol/examples/launching/launch_viewer2.py :info:fetch A pymol/examples/launching/launch_demo.py :info:fetch A pymol/examples/launching/launch_no_tk.py :info:fetch A pymol/examples/launching/README :info:fetch A pymol/examples/package :info:fetch A pymol/examples/package/redhat :info:fetch A pymol/examples/package/redhat/pymol-0.96-1.rh70.py152.spec :info:fetch A pymol/examples/package/redhat/pymol-0.96-1.rh62.py152.spec :info:fetch A pymol/examples/package/redhat/pymol-0.93-1.rh72.py21.spec :info:fetch A pymol/examples/package/redhat/pymol-0.93-1.rh80.py22.spec :info:fetch A pymol/examples/package/redhat/pymol-0.93-1.rh90.py22.spec :info:fetch A pymol/examples/package/redhat/pymol-0.93-1.rh73.py22.spec :info:fetch A pymol/examples/package/redhat/pymol-0.93-1.rh70.py152.spec :info:fetch A pymol/examples/package/redhat/pymol-0.96-1.rh72.py21.spec :info:fetch A pymol/examples/package/redhat/pymol-0.96-1.rh80.py22.spec :info:fetch A pymol/examples/package/redhat/pymol-0.93-1.rh62.py152.spec :info:fetch A pymol/examples/package/redhat/pymol-0.96-1.rh90.py22.spec :info:fetch A pymol/examples/package/redhat/pymol-0.96-1.rh73.py22.spec :info:fetch Exported revision 4074. :debug:fetch Privilege de-escalation not attempted as not running as root. :debug:checksum checksum phase started at Sun Oct 19 16:56:23 AEDT 2014 :notice:checksum ---> Verifying checksums for pymol :debug:checksum Executing org.macports.checksum (pymol) :debug:checksum Privilege de-escalation not attempted as not running as root. :debug:extract extract phase started at Sun Oct 19 16:56:23 AEDT 2014 :notice:extract ---> Extracting pymol :debug:extract Executing org.macports.extract (pymol) :debug:extract Privilege de-escalation not attempted as not running as root. :debug:patch patch phase started at Sun Oct 19 16:56:23 AEDT 2014 :debug:patch Executing org.macports.patch (pymol) :notice:patch ---> Applying patches to pymol :info:patch ---> Applying setup_py.diff :debug:patch Environment: CC_PRINT_OPTIONS='YES' CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/.CC_PRINT_OPTIONS' CPATH='/opt/local/include' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.9' :debug:patch Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0' :debug:patch Executing command line: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0 < '/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol/files/setup_py.diff' :info:patch patching file setup.py :info:patch ---> Applying pymol_shell.diff :debug:patch Environment: CC_PRINT_OPTIONS='YES' CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/.CC_PRINT_OPTIONS' CPATH='/opt/local/include' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.9' :debug:patch Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0' :debug:patch Executing command line: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0 < '/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol/files/pymol_shell.diff' :info:patch patching file setup/pymol_macports :info:patch ---> Applying pmg_tk_platform.patch :debug:patch Environment: CC_PRINT_OPTIONS='YES' CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/.CC_PRINT_OPTIONS' CPATH='/opt/local/include' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.9' :debug:patch Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0' :debug:patch Executing command line: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0 < '/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol/files/pmg_tk_platform.patch' :info:patch patching file modules/pmg_tk/skins/normal/init.py :info:patch Hunk #1 succeeded at 259 (offset 23 lines). :info:patch Hunk #2 succeeded at 278 (offset 23 lines). :info:patch Hunk #3 succeeded at 305 (offset 23 lines). :info:patch patching file modules/pmg_tk/PMGApp.py :info:patch Hunk #1 succeeded at 203 (offset 19 lines). :info:patch Hunk #2 succeeded at 221 (offset 19 lines). :info:patch ---> Applying apbs-psize.patch :debug:patch Environment: CC_PRINT_OPTIONS='YES' CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/.CC_PRINT_OPTIONS' CPATH='/opt/local/include' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.9' :debug:patch Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0' :debug:patch Executing command line: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0 < '/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol/files/apbs-psize.patch' :info:patch patching file modules/pmg_tk/startup/apbs_tools.py :info:patch ---> Applying apbs_tkinter.patch :debug:patch Environment: CC_PRINT_OPTIONS='YES' CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/.CC_PRINT_OPTIONS' CPATH='/opt/local/include' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.9' :debug:patch Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0' :debug:patch Executing command line: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0 < '/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol/files/apbs_tkinter.patch' :info:patch patching file modules/pmg_tk/startup/apbs_tools.py :info:patch Hunk #12 succeeded at 2284 (offset 4 lines). :info:patch Hunk #13 succeeded at 2335 (offset 4 lines). :info:patch Hunk #14 succeeded at 2352 (offset 4 lines). :info:patch Hunk #15 succeeded at 2372 (offset 4 lines). :info:patch Hunk #16 succeeded at 2394 (offset 4 lines). :info:patch ---> Applying pymol-clang.diff :debug:patch Environment: CC_PRINT_OPTIONS='YES' CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/.CC_PRINT_OPTIONS' CPATH='/opt/local/include' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.9' :debug:patch Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0' :debug:patch Executing command line: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /usr/bin/patch -p0 < '/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol/files/pymol-clang.diff' :info:patch patching file layer0/ShaderMgr.c :info:patch patching file layer0/Map.c :info:patch patching file layer1/Basis.c :info:patch patching file layer1/CGO.c :info:patch patching file layer1/Ortho.c :info:patch patching file layer1/P.c :info:patch patching file layer1/Extrude.c :info:patch patching file layer1/Scene.c :info:patch patching file layer1/Control.c :info:patch patching file layer2/RepSphere.c :info:patch patching file layer2/ObjectMolecule2.c :info:patch patching file layer2/RepDot.c :info:patch patching file layer2/RepSurface.c :info:patch patching file layer2/RepCartoon.c :info:patch patching file layer2/ObjectMolecule.c :info:patch patching file layer3/Selector.c :info:patch patching file layer3/Executive.c :info:patch patching file layer3/PlugIOManager.c :info:patch patching file layer4/Cmd.c :info:patch patching file contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp :info:patch patching file contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp :info:patch patching file contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c :info:patch patching file contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c :info:patch patching file contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c :info:patch patching file contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp :info:patch patching file contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp :info:patch patching file modules/cealign/src/tnt/tnt_fortran_array1d.h :info:patch patching file modules/cealign/src/tnt/tnt_array1d.h :debug:patch Executing proc-post-org.macports.patch-patch-0 :info:patch ---> Patching setup.py: s|@PREFIX@|/opt/local|g :debug:patch Executing reinplace: /usr/bin/sed s|@PREFIX@|/opt/local|g < /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup.py >@ file10 2>@stderr :debug:patch euid/egid changed to: 0/0 :debug:patch chowned /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup.py to macports :debug:patch euid/egid changed to: 502/501 :debug:patch euid/egid changed to: 0/0 :debug:patch setting attributes on /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup.py :debug:patch euid/egid changed to: 502/501 :info:patch ---> Patching pymol_macports: s|@@PYTHON_PKGDIR@@|/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages|g :debug:patch Executing reinplace: /usr/bin/sed s|@@PYTHON_PKGDIR@@|/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages|g < /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup/pymol_macports >@ file10 2>@stderr :debug:patch euid/egid changed to: 0/0 :debug:patch chowned /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup/pymol_macports to macports :debug:patch euid/egid changed to: 502/501 :debug:patch euid/egid changed to: 0/0 :debug:patch setting attributes on /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup/pymol_macports :debug:patch euid/egid changed to: 502/501 :info:patch ---> Patching pymol_macports: s|@@PYTHON_BINARY@@|/opt/local/Library/Frameworks/Python.framework/Versions/2.7/bin/python2.7|g :debug:patch Executing reinplace: /usr/bin/sed s|@@PYTHON_BINARY@@|/opt/local/Library/Frameworks/Python.framework/Versions/2.7/bin/python2.7|g < /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup/pymol_macports >@ file10 2>@stderr :debug:patch euid/egid changed to: 0/0 :debug:patch chowned /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup/pymol_macports to macports :debug:patch euid/egid changed to: 502/501 :debug:patch euid/egid changed to: 0/0 :debug:patch setting attributes on /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup/pymol_macports :debug:patch euid/egid changed to: 502/501 :info:patch ---> Patching setup.py: s|"-O3",|"-O3", "-g",|g :debug:patch Executing reinplace: /usr/bin/sed {s|"-O3",|"-O3", "-g",|g} < /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup.py >@ file10 2>@stderr :debug:patch euid/egid changed to: 0/0 :debug:patch chowned /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup.py to macports :debug:patch euid/egid changed to: 502/501 :debug:patch euid/egid changed to: 0/0 :debug:patch setting attributes on /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup.py :debug:patch euid/egid changed to: 502/501 :debug:patch Privilege de-escalation not attempted as not running as root. :debug:configure configure phase started at Sun Oct 19 16:56:24 AEDT 2014 :notice:configure ---> Configuring pymol :debug:configure Using compiler 'Xcode Clang' :debug:configure Executing proc-pre-org.macports.configure-configure-0 :debug:configure Found Dependency: path: /usr/bin filename: svn regex: svn$ :debug:configure Active variants check for source-type install considers depends_fetch depends_extract depends_lib depends_build depends_run: python27 freeglut freetype glew libpng mesa py27-numpy py27-pmw py27-scipy py27-tkinter xdpyinfo :debug:configure Ignoring active_variants requirement for tcl because source-type install only considers depends_fetch depends_extract depends_lib depends_build depends_run and those do not contain tcl :debug:configure Ignoring active_variants requirement for tk because source-type install only considers depends_fetch depends_extract depends_lib depends_build depends_run and those do not contain tk :debug:configure Executing org.macports.configure (pymol) :debug:configure Privilege de-escalation not attempted as not running as root. :debug:build build phase started at Sun Oct 19 16:56:24 AEDT 2014 :notice:build ---> Building pymol :debug:build Executing proc-pre-org.macports.build-build-0 :debug:build Executing org.macports.build (pymol) :debug:build Privilege de-escalation not attempted as not running as root. :debug:destroot destroot phase started at Sun Oct 19 16:56:24 AEDT 2014 :notice:destroot ---> Staging pymol into destroot :debug:destroot Can't run destroot under sudo without elevated privileges (due to mtree). :debug:destroot Run destroot without sudo to avoid root privileges. :debug:destroot Going to escalate privileges back to root. :debug:destroot euid changed to: 0. egid changed to: 0. :info:destroot ./usr missing (created) :info:destroot . missing (directory not created: File exists) :info:destroot ./Applications missing (created) :info:destroot ./Developer missing (created) :info:destroot ./Library missing (created) :info:destroot ./bin missing (created) :info:destroot ./etc missing (created) :info:destroot ./include missing (created) :info:destroot ./lib missing (created) :info:destroot ./lib/pkgconfig missing (created) :info:destroot ./libexec missing (created) :info:destroot ./sbin missing (created) :info:destroot ./share missing (created) :info:destroot ./share/info missing (created) :info:destroot ./share/man missing (created) :info:destroot ./share/man/cat1 missing (created) :info:destroot ./share/man/cat2 missing (created) :info:destroot ./share/man/cat3 missing (created) :info:destroot ./share/man/cat4 missing (created) :info:destroot ./share/man/cat5 missing (created) :info:destroot ./share/man/cat6 missing (created) :info:destroot ./share/man/cat7 missing (created) :info:destroot ./share/man/cat8 missing (created) :info:destroot ./share/man/cat9 missing (created) :info:destroot ./share/man/catl missing (created) :info:destroot ./share/man/catn missing (created) :info:destroot ./share/man/man1 missing (created) :info:destroot ./share/man/man2 missing (created) :info:destroot ./share/man/man3 missing (created) :info:destroot ./share/man/man4 missing (created) :info:destroot ./share/man/man5 missing (created) :info:destroot ./share/man/man6 missing (created) :info:destroot ./share/man/man7 missing (created) :info:destroot ./share/man/man8 missing (created) :info:destroot ./share/man/man9 missing (created) :info:destroot ./share/man/manl missing (created) :info:destroot ./share/man/mann missing (created) :info:destroot ./share/nls missing (created) :info:destroot ./share/nls/C missing (created) :info:destroot ./share/nls/af_ZA.ISO8859-1 missing (created) :info:destroot ./share/nls/af_ZA.ISO8859-15 missing (created) :info:destroot ./share/nls/bg_BG.CP1251 missing (created) :info:destroot ./share/nls/cs_CZ.ISO8859-2 missing (created) :info:destroot ./share/nls/da_DK.ISO8859-1 missing (created) :info:destroot ./share/nls/da_DK.ISO8859-15 missing (created) :info:destroot ./share/nls/de_AT.ISO8859-1 missing (created) :info:destroot ./share/nls/de_AT.ISO8859-15 missing (created) :info:destroot ./share/nls/de_CH.ISO8859-1 missing (created) :info:destroot ./share/nls/de_CH.ISO8859-15 missing (created) :info:destroot ./share/nls/de_DE.ISO8859-1 missing (created) :info:destroot ./share/nls/de_DE.ISO8859-15 missing (created) :info:destroot ./share/nls/el_GR.ISO8859-7 missing (created) :info:destroot ./share/nls/en_AU.ISO8859-1 missing (created) :info:destroot ./share/nls/en_AU.ISO8859-15 missing (created) :info:destroot ./share/nls/en_AU.US-ASCII missing (created) :info:destroot ./share/nls/en_CA.ISO8859-1 missing (created) :info:destroot ./share/nls/en_CA.ISO8859-15 missing (created) :info:destroot ./share/nls/en_CA.US-ASCII missing (created) :info:destroot ./share/nls/en_GB.ISO8859-1 missing (created) :info:destroot ./share/nls/en_GB.ISO8859-15 missing (created) :info:destroot ./share/nls/en_GB.US-ASCII missing (created) :info:destroot ./share/nls/en_NZ.ISO8859-1 missing (created) :info:destroot ./share/nls/en_NZ.ISO8859-15 missing (created) :info:destroot ./share/nls/en_NZ.US-ASCII missing (created) :info:destroot ./share/nls/en_US.ISO8859-1 missing (created) :info:destroot ./share/nls/en_US.ISO8859-15 missing (created) :info:destroot ./share/nls/es_ES.ISO8859-1 missing (created) :info:destroot ./share/nls/es_ES.ISO8859-15 missing (created) :info:destroot ./share/nls/et_EE.ISO8859-15 missing (created) :info:destroot ./share/nls/fi_FI.ISO8859-1 missing (created) :info:destroot ./share/nls/fi_FI.ISO8859-15 missing (created) :info:destroot ./share/nls/fr_BE.ISO8859-1 missing (created) :info:destroot ./share/nls/fr_BE.ISO8859-15 missing (created) :info:destroot ./share/nls/fr_CA.ISO8859-1 missing (created) :info:destroot ./share/nls/fr_CA.ISO8859-15 missing (created) :info:destroot ./share/nls/fr_CH.ISO8859-1 missing (created) :info:destroot ./share/nls/fr_CH.ISO8859-15 missing (created) :info:destroot ./share/nls/fr_FR.ISO8859-1 missing (created) :info:destroot ./share/nls/fr_FR.ISO8859-15 missing (created) :info:destroot ./share/nls/hi_IN.ISCII-DEV missing (created) :info:destroot ./share/nls/hr_HR.ISO8859-2 missing (created) :info:destroot ./share/nls/hu_HU.ISO8859-2 missing (created) :info:destroot ./share/nls/is_IS.ISO8859-1 missing (created) :info:destroot ./share/nls/is_IS.ISO8859-15 missing (created) :info:destroot ./share/nls/it_CH.ISO8859-1 missing (created) :info:destroot ./share/nls/it_CH.ISO8859-15 missing (created) :info:destroot ./share/nls/it_IT.ISO8859-1 missing (created) :info:destroot ./share/nls/it_IT.ISO8859-15 missing (created) :info:destroot ./share/nls/ja_JP.SJIS missing (created) :info:destroot ./share/nls/ja_JP.eucJP missing (created) :info:destroot ./share/nls/ko_KR.eucKR missing (created) :info:destroot ./share/nls/la_LN.ISO8859-1 missing (created) :info:destroot ./share/nls/la_LN.ISO8859-15 missing (created) :info:destroot ./share/nls/la_LN.ISO8859-2 missing (created) :info:destroot ./share/nls/la_LN.ISO8859-4 missing (created) :info:destroot ./share/nls/la_LN.US-ASCII missing (created) :info:destroot ./share/nls/lt_LT.ISO8859-4 missing (created) :info:destroot ./share/nls/nl_BE.ISO8859-1 missing (created) :info:destroot ./share/nls/nl_BE.ISO8859-15 missing (created) :info:destroot ./share/nls/nl_NL.ISO8859-1 missing (created) :info:destroot ./share/nls/nl_NL.ISO8859-15 missing (created) :info:destroot ./share/nls/no_NO.ISO8859-1 missing (created) :info:destroot ./share/nls/no_NO.ISO8859-15 missing (created) :info:destroot ./share/nls/pl_PL.ISO8859-2 missing (created) :info:destroot ./share/nls/pt_BR.ISO8859-1 missing (created) :info:destroot ./share/nls/pt_PT.ISO8859-1 missing (created) :info:destroot ./share/nls/pt_PT.ISO8859-15 missing (created) :info:destroot ./share/nls/ro_RO.ISO8859-2 missing (created) :info:destroot ./share/nls/ru_RU.CP866 missing (created) :info:destroot ./share/nls/ru_RU.ISO8859-5 missing (created) :info:destroot ./share/nls/ru_RU.KOI8-R missing (created) :info:destroot ./share/nls/sk_SK.ISO8859-2 missing (created) :info:destroot ./share/nls/sl_SI.ISO8859-2 missing (created) :info:destroot ./share/nls/sv_SE.ISO8859-1 missing (created) :info:destroot ./share/nls/sv_SE.ISO8859-15 missing (created) :info:destroot ./share/nls/tr_TR.ISO8859-9 missing (created) :info:destroot ./share/nls/uk_UA.ISO8859-5 missing (created) :info:destroot ./share/nls/uk_UA.KOI8-U missing (created) :info:destroot ./share/nls/zh_CN.eucCN missing (created) :info:destroot ./share/nls/zh_TW.Big5 missing (created) :info:destroot ./share/skel missing (created) :info:destroot ./src missing (created) :info:destroot ./var missing (created) :info:destroot ./www missing (created) :debug:destroot Executing proc-pre-org.macports.destroot-destroot-0 :info:destroot xinstall: mkdir /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/share/doc :info:destroot xinstall: mkdir /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/share/doc/pymol :info:destroot xinstall: mkdir /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/share/doc/pymol/examples :debug:destroot Executing proc-pre-org.macports.destroot-destroot-1 :debug:destroot Executing org.macports.destroot (pymol) :debug:destroot Environment: CC='/usr/bin/clang' CC_PRINT_OPTIONS='YES' CC_PRINT_OPTIONS_FILE='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/.CC_PRINT_OPTIONS' CPATH='/opt/local/include' CXX='/usr/bin/clang++' LIBRARY_PATH='/opt/local/lib' MACOSX_DEPLOYMENT_TARGET='10.9' :debug:destroot Assembled command: 'cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /opt/local/Library/Frameworks/Python.framework/Versions/2.7/bin/python2.7 setup.py --no-user-cfg install --prefix=/opt/local/Library/Frameworks/Python.framework/Versions/2.7 --root=/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot' :debug:destroot Executing command line: cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol" && /opt/local/Library/Frameworks/Python.framework/Versions/2.7/bin/python2.7 setup.py --no-user-cfg install --prefix=/opt/local/Library/Frameworks/Python.framework/Versions/2.7 --root=/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot :info:destroot fatal: Not a git repository (or any of the parent directories): .git :info:destroot svn: E155007: '/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol' is not a working copy :info:destroot running install :info:destroot running build :info:destroot running build_py :info:destroot creating build/lib.macosx-10.9-x86_64-2.7 :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/embed :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/embed/epymol :info:destroot copying modules/pymol/embed/epymol/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/embed/epymol :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/chempy/tinker :info:destroot copying modules/chempy/tinker/init.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/tinker :info:destroot copying modules/chempy/tinker/amber.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/tinker :info:destroot copying modules/chempy/tinker/keyword.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/tinker :info:destroot copying modules/chempy/tinker/realtime.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/tinker :info:destroot copying modules/chempy/tinker/state.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/tinker :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/demo :info:destroot copying modules/pmg_tk/skins/demo/init.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/demo :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pmg_tk/startup :info:destroot copying modules/pmg_tk/startup/init.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk/startup :info:destroot copying modules/pmg_tk/startup/apbs_tools.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk/startup :info:destroot copying modules/pmg_tk/startup/remote_pdb_load.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk/startup :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/opengl :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/glu :info:destroot copying modules/pymol/opengl/glu/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/glu :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pmg_wx :info:destroot copying modules/pmg_wx/init.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_wx :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/chempy/fast :info:destroot copying modules/chempy/fast/init.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/fast :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/chempy/fragments :info:destroot copying modules/chempy/fragments/init.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/fragments :info:destroot copying modules/pmg_tk/skins/init.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/web :info:destroot copying modules/web/init.py -> build/lib.macosx-10.9-x86_64-2.7/web :info:destroot copying modules/web/pymolhttpd.py -> build/lib.macosx-10.9-x86_64-2.7/web :info:destroot copying modules/pymol/embed/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/embed :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/contrib :info:destroot copying modules/pymol/contrib/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/contrib :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/glut :info:destroot copying modules/pymol/opengl/glut/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/glut :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol2 :info:destroot copying modules/pymol2/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol2 :info:destroot copying modules/pymol2/cmd2.py -> build/lib.macosx-10.9-x86_64-2.7/pymol2 :info:destroot copying modules/pymol2/make_cmd2.py -> build/lib.macosx-10.9-x86_64-2.7/pymol2 :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/web/examples :info:destroot copying modules/web/examples/init.py -> build/lib.macosx-10.9-x86_64-2.7/web/examples :info:destroot copying modules/web/examples/justhttpd.py -> build/lib.macosx-10.9-x86_64-2.7/web/examples :info:destroot copying modules/pmg_tk/init.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot copying modules/pmg_tk/ColorEditor.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot copying modules/pmg_tk/Demo.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot copying modules/pmg_tk/PMGApp.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot copying modules/pmg_tk/PyMOLMapLoad.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot copying modules/pmg_tk/SetEditor.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot copying modules/pmg_tk/Setting.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot copying modules/pmg_tk/TextEditor.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot copying modules/pmg_tk/volume.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/normal :info:destroot copying modules/pmg_tk/skins/normal/init.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/normal :info:destroot copying modules/pmg_tk/skins/normal/builder.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/normal :info:destroot copying modules/pmg_tk/skins/normal/ModalWindow.py -> build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/normal :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/chempy/champ :info:destroot copying modules/chempy/champ/init.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/champ :info:destroot copying modules/chempy/champ/amber99.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/champ :info:destroot copying modules/chempy/champ/assign.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/champ :info:destroot copying modules/chempy/champ/formal_charges.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/champ :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/embed/wxpymol :info:destroot copying modules/pymol/embed/wxpymol/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/embed/wxpymol :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/annotation.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/appearance.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/benchmark.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/box.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/charge.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/cleanup.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/demo.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/density.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/distance.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/dragging.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/fedora.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/filter.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/label.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/measurement.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/message.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/mutagenesis.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/pair_fit.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/pseudoatom.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/renaming.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/sculpting.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/security.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/stereodemo.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot copying modules/pymol/wizard/toggle.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/wizard :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/gl :info:destroot copying modules/pymol/opengl/gl/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/gl :info:destroot copying modules/pymol/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/api.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/callback.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/cgo.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/checking.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/cmd.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/colorramping.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/commanding.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/completing.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/computing.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/constants.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/constants_palette.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/controlling.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/creating.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/editing.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/editor.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/experimenting.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/exporting.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/externing.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/feedingback.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/fitting.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/gui.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/headering.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/helping.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/importing.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/internal.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/invocation.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/keyboard.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/keywords.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/locking.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/m4x.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/menu.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/monitoring.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/movie.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/moving.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/parser.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/parsing.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/povray.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/preset.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/querying.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/rpc.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/selecting.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/selector.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/setting.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/shortcut.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/util.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/vfont.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/viewing.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/wizarding.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/xray.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot copying modules/pymol/xwin.py -> build/lib.macosx-10.9-x86_64-2.7/pymol :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/chempy/bmin :info:destroot copying modules/chempy/bmin/init.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/bmin :info:destroot copying modules/chempy/bmin/commands.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/bmin :info:destroot copying modules/chempy/bmin/realtime.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/bmin :info:destroot copying modules/chempy/bmin/state.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/bmin :info:destroot copying modules/chempy/bmin/util.py -> build/lib.macosx-10.9-x86_64-2.7/chempy/bmin :info:destroot copying modules/chempy/init.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/arc.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/bond_amber.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/bond_mmff.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/bonds.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/brick.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/cc1.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/cex.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/charge.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/cif.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/cpv.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/dictdb.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/gamess1.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/gms.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/hetatm.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/io.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/lst.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/mae.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/map.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/mass.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/mmd.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/models.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/mol.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/mol2.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/neighbor.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/pdb.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/pkl.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/place.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/protein.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/protein_amber.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/protein_amber99.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/protein_mmff.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/protein_residues.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/sdf.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/solvate.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/water_amber.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/water_residues.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot copying modules/chempy/xyz.py -> build/lib.macosx-10.9-x86_64-2.7/chempy :info:destroot creating build/lib.macosx-10.9-x86_64-2.7/pymol/plugins :info:destroot copying modules/pymol/plugins/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/plugins :info:destroot copying modules/pymol/plugins/installation.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/plugins :info:destroot copying modules/pymol/plugins/legacysupport.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/plugins :info:destroot copying modules/pymol/plugins/managergui.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/plugins :info:destroot copying modules/pymol/plugins/repository.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/plugins :info:destroot copying modules/pymol/opengl/init.py -> build/lib.macosx-10.9-x86_64-2.7/pymol/opengl :info:destroot running build_ext :info:destroot building 'pymol._cmd' extension :info:destroot creating build/temp.macosx-10.9-x86_64-2.7 :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/ov :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/ov/src :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/layer0 :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/layer1 :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/layer2 :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/layer3 :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/layer4 :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/layer5 :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/modules :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/modules/cealign :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/modules/cealign/src :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/build :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/build/generated :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/contrib :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c ov/src/ov_utility.c -o build/temp.macosx-10.9-x86_64-2.7/ov/src/ov_utility.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Err.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Err.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Pixmap.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Pixmap.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Basis.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Basis.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/ButMode.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/ButMode.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c ov/src/OVContext.c -o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVContext.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c ov/src/OVHeap.c -o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVHeap.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Queue.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Queue.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c ov/src/OVHeapArray.c -o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVHeapArray.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Feedback.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Feedback.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Raw.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Raw.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c ov/src/OVLexicon.c -o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVLexicon.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c ov/src/OVOneToAny.c -o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVOneToAny.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/ShaderMgr.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/ShaderMgr.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c ov/src/OVOneToOne.c -o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVOneToOne.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Field.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Field.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c ov/src/OVRandom.c -o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVRandom.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Block.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Block.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer0/ShaderMgr.c:521:11: warning: using the result of an assignment as a condition without parentheses [-Wparentheses] :info:destroot if (err = glGetError()){ :info:destroot ~ :info:destroot layer0/ShaderMgr.c:521:11: note: place parentheses around the assignment to silence this warning :info:destroot if (err = glGetError()){ :info:destroot :info:destroot ( ) :info:destroot layer0/ShaderMgr.c:521:11: note: use '==' to turn this assignment into an equality comparison :info:destroot if (err = glGetError()){ :info:destroot :info:destroot == :info:destroot layer0/ShaderMgr.c:528:13: warning: using the result of an assignment as a condition without parentheses [-Wparentheses] :info:destroot if (err = glGetError()){ :info:destroot ~ :info:destroot layer0/ShaderMgr.c:528:13: note: place parentheses around the assignment to silence this warning :info:destroot if (err = glGetError()){ :info:destroot :info:destroot ( ) :info:destroot layer0/ShaderMgr.c:528:13: note: use '==' to turn this assignment into an equality comparison :info:destroot if (err = glGetError()){ :info:destroot :info:destroot == :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Isosurf.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Isosurf.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer0/ShaderMgr.c:827:14: warning: unused variable 'err' [-Wunused-variable] :info:destroot GLenum err ; :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/CGO.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/CGO.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Crystal.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Crystal.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer0/Isosurf.c:2211:1: warning: control reaches end of non-void function [-Wreturn-type] :info:destroot } :info:destroot :info:destroot layer1/CGO.c:1881:6: warning: unused variable 'ncolors' [-Wunused-variable] :info:destroot int ncolors = 0; :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Debug.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Debug.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Deferred.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Deferred.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/FontGLUTHel12.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUTHel12.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/FontGLUTHel18.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUTHel18.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/FontType.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/FontType.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Movie.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Movie.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 3 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Sphere.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Sphere.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer0/Sphere.c:34:20: warning: unused variable 'start_points' [-Wunused-const-variable] :info:destroot static const float start_points[13][3] = { :info:destroot :info:destroot layer0/Sphere.c:49:18: warning: unused variable 'icosahedron' [-Wunused-const-variable] :info:destroot static const int icosahedron[21][3] = { :info:destroot :info:destroot 2 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Tetsurf.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Tetsurf.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Map.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Map.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Ortho.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Ortho.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Match.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Match.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Texture.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Texture.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Matrix.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Matrix.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Tracker.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Tracker.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Triangle.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Triangle.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/P.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/P.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/MemoryCache.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/MemoryCache.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/MemoryDebug.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/MemoryDebug.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/PConv.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/PConv.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/MyPNG.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/MyPNG.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/os_gl.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/os_gl.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer0/os_gl.c:99:59: warning: 'gluErrorString' is deprecated: first deprecated in OS X 10.9 [-Wdeprecated-declarations] :info:destroot printf("OpenGL-Error: Where? %s: %s\n", pos, (char *) gluErrorString(glerr)); :info:destroot :info:destroot /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:260:24: note: 'gluErrorString' has been explicitly marked deprecated here :info:destroot extern const GLubyte * gluErrorString (GLenum error) OPENGL_DEPRECATED(10_0, 10_9); :info:destroot :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Parse.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Parse.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer0/Parse.c:173:10: warning: array subscript is of type 'char' [-Wchar-subscripts] :info:destroot buf[blen] = 0; :info:destroot :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/ScrollBar.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/ScrollBar.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Pop.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Pop.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Util.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Util.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/PyMOLObject.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/PyMOLObject.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Seq.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Seq.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Vector.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Vector.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Setting.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Setting.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Ray.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Ray.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer0/Word.c -o build/temp.macosx-10.9-x86_64-2.7/layer0/Word.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Character.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Character.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer1/Character.c:267:18: warning: unused variable 'vertexVals' [-Wunused-variable] :info:destroot const GLfloat vertexVals [] = { :info:destroot :info:destroot layer1/Character.c:273:18: warning: unused variable 'texVals' [-Wunused-variable] :info:destroot const GLfloat texVals [] = { :info:destroot :info:destroot 2 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Color.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Color.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/GadgetSet.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/GadgetSet.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer1/Color.c:3069:16: warning: unused variable 'result' [-Wunused-variable] :info:destroot unsigned int result; :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectAlignment.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectAlignment.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Shaker.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Shaker.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectCallback.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectCallback.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Control.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Control.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectCGO.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectCGO.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Symmetry.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Symmetry.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Extrude.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Extrude.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Text.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Text.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectDist.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectDist.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectGadget.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectGadget.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectGadgetRamp.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectGadgetRamp.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Font.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Font.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/FontGLUT.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUT.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/FontGLUT8x13.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUT8x13.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/FontGLUT9x15.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUT9x15.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/FontGLUTHel10.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUTHel10.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectSlice.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectSlice.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectGroup.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectGroup.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectMap.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectMap.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from layer2/ObjectMap.c:42: :info:destroot In file included from /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:17: :info:destroot In file included from /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include/numpy/ndarraytypes.h:1804: :info:destroot /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:15:2: warning: "Using deprecated NumPy API, disable it by " "#defining NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-W#warnings] :info:destroot #warning "Using deprecated NumPy API, disable it by " \ :info:destroot :info:destroot layer2/ObjectMap.c:2684:5: warning: implicit declaration of function 'UtilNCopy' is invalid in C99 [-Wimplicit-function-declaration] :info:destroot UtilNCopy(ms->Symmetry->SpaceGroup, space_group_numbers[ispg], WordLength); :info:destroot :info:destroot In file included from layer2/ObjectMap.c:42: :info:destroot In file included from /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include/numpy/ndarrayobject.h:26: :info:destroot /opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include/numpy/multiarray_api.h:1629:1: warning: unused function '_import_array' [-Wunused-function] :info:destroot _import_array(void) :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectSurface.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectSurface.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Rep.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Rep.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Scene.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Scene.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectVolume.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectVolume.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer2/ObjectVolume.c:73:19: warning: unused variable 'oms' [-Wunused-variable] :info:destroot ObjectMapState *oms = NULL; :info:destroot

:info:destroot layer2/ObjectVolume.c:471:9: warning: '&&' within '
' [-Wlogical-op-parentheses]

:info:destroot && vs->Ramp[5 * (vs->RampSize - 1)] == 359.f) { :info:destroot ~ :info:destroot layer2/ObjectVolume.c:471:9: note: place parentheses around the '&&' expression to silence this warning :info:destroot && vs->Ramp[5 * (vs->RampSize - 1)] == 359.f) { :info:destroot :info:destroot layer2/ObjectVolume.c:452:51: warning: expression result unused [-Wunused-value] :info:destroot a, vs->RefreshFlag, vs->ResurfaceFlag ENDFD(G); :info:destroot :info:destroot layer2/ObjectVolume.c:435:14: warning: unused variable 'map' [-Wunused-variable] :info:destroot ObjectMap *map = NULL; :info:destroot :info:destroot layer2/ObjectVolume.c:695:10: warning: unused variable 'j' [-Wunused-variable] :info:destroot int i, j, ci[] = { :info:destroot

:info:destroot layer2/ObjectVolume.c:891:89: warning: '&&' within ':info:destroot CShaderPrg_Set1f(shaderPrg, "fogIsSolidColor", bg_gradient
' [-Wlogical-op-parentheses]
bg_image_filename && bg_image_filename[0] ? 0.f : 1.f);

:info:destroot :info:destroot layer2/ObjectVolume.c:891:89: note: place parentheses around the '&&' expression to silence this warning

:info:destroot CShaderPrg_Set1f(shaderPrg, "fogIsSolidColor", bg_gradient
bg_image_filename && bg_image_filename[0] ? 0.f : 1.f);

:info:destroot :info:destroot ( ) :info:destroot layer2/ObjectVolume.c:726:8: warning: unused variable 'n' [-Wunused-variable] :info:destroot int *n = NULL; :info:destroot :info:destroot layer2/ObjectVolume.c:1330:9: warning: unused variable 'min_val' [-Wunused-variable] :info:destroot float min_val, max_val; :info:destroot :info:destroot layer2/ObjectVolume.c:1330:18: warning: unused variable 'max_val' [-Wunused-variable] :info:destroot float min_val, max_val; :info:destroot :info:destroot layer1/Scene.c:9193:7: warning: 'gluPerspective' is deprecated: first deprecated in OS X 10.9 - "Use GLKMatrix4MakePerspective" [-Wdeprecated-declarations] :info:destroot gluPerspective(fov, aspRat, I->FrontSafe, I->BackSafe); :info:destroot :info:destroot /System/Library/Frameworks/OpenGL.framework/Headers/glu.h:278:13: note: 'gluPerspective' has been explicitly marked deprecated here :info:destroot extern void gluPerspective (GLdouble fovy, GLdouble aspect, GLdouble zNear, GLdouble zFar) OPENGL_DEPRECATED_MSG(10_0, 10_9, "Use GLKMatrix4MakePerspective"); :info:destroot :info:destroot 9 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepAngle.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepAngle.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepCartoon.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepCartoon.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 3 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectMesh.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectMesh.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectMolecule.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectMolecule.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepMesh.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepMesh.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepCylBond.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepCylBond.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepNonbonded.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepNonbonded.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer2/RepCylBond.c:2361:13: warning: unused function 'subdivide' [-Wunused-function] :info:destroot static void subdivide(int n, float *x, float *y) :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepNonbondedSphere.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepNonbondedSphere.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepRibbon.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepRibbon.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepDihedral.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepDihedral.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepSphere.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepSphere.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepDistDash.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepDistDash.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepDistLabel.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepDistLabel.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepSurface.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepSurface.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepDot.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepDot.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer2/RepSurface.c:4281:31: warning: unused function 'SurfaceJobAtomInfoVLAFromPyTuple' [-Wunused-function] :info:destroot OV_INLINE SurfaceJobAtomInfo *SurfaceJobAtomInfoVLAFromPyTuple(PyObject * tuple) :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepEllipsoid.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepEllipsoid.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepLabel.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepLabel.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer3/PlugIOManager.c -o build/temp.macosx-10.9-x86_64-2.7/layer3/PlugIOManager.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer3/Seeker.c -o build/temp.macosx-10.9-x86_64-2.7/layer3/Seeker.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer3/Selector.c -o build/temp.macosx-10.9-x86_64-2.7/layer3/Selector.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/TypeFace.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/TypeFace.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/View.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/View.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer1/Wizard.c -o build/temp.macosx-10.9-x86_64-2.7/layer1/Wizard.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/AtomInfo.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/AtomInfo.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/RepWireBond.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/RepWireBond.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/CoordSet.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/CoordSet.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/ObjectMolecule2.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectMolecule2.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/Sculpt.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/Sculpt.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/DistSet.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/DistSet.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.c:43: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:706:12: warning: unused function 'symmetry_expand' [-Wunused-function] :info:destroot static int symmetry_expand(qm_atom_t atoms, int numunique, int natoms, :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:830:13: warning: unused function 'eatline' [-Wunused-function] :info:destroot static void eatline(FILE * fd, int n) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:841:13: warning: unused function 'eatwhitelines' [-Wunused-function] :info:destroot static void eatwhitelines(FILE *file) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:890:12: warning: unused function 'iswhiteline' [-Wunused-function] :info:destroot static int iswhiteline(char *s) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:896:14: warning: unused function 'strtoupper' [-Wunused-function] :info:destroot static char *strtoupper(char *s) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:957:12: warning: unused function 'goto_keyline' [-Wunused-function] :info:destroot static int goto_keyline(FILE *file, ...) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1001:12: warning: unused function 'have_keyline' [-Wunused-function] :info:destroot static int have_keyline(FILE *file, const char *keystring1, :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1072:13: warning: unused function 'thisline' [-Wunused-function] :info:destroot static void thisline(FILE *file) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1092:13: warning: unused function 'whereami' [-Wunused-function] :info:destroot static void whereami(FILE *file) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:433:18: warning: unused function 'init_qmdata' [-Wunused-function] :info:destroot static qmdata_t* init_qmdata(qmdata_t *data) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:466:27: warning: unused function 'add_wavefunction' [-Wunused-function] :info:destroot static qm_wavefunction_t* add_wavefunction(qm_timestep_t *ts) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:485:13: warning: unused function 'replace_wavefunction' [-Wunused-function] :info:destroot static void replace_wavefunction(qm_timestep_t *ts, int n) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:502:13: warning: unused function 'del_wavefunction' [-Wunused-function] :info:destroot static void del_wavefunction(qm_timestep_t *ts) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:535:13: warning: unused function 'angular_momentum_expon' [-Wunused-function] :info:destroot static void angular_momentum_expon(int *ang_mom_expon, :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:580:13: warning: unused function 'print_matrix4' [-Wunused-function] :info:destroot static void print_matrix4(const float mat[16]) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1023:12: warning: unused function 'fpexpftoc' [-Wunused-function] :info:destroot static int fpexpftoc(char *ftocstr) { :info:destroot :info:destroot 16 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/binposplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/carplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/corplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/SculptCache.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/SculptCache.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/crdplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:51: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fastio.h:468:12: warning: unused function 'fio_read_int32' [-Wunused-function] :info:destroot static int fio_read_int32(fio_fd fd, int *i) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fastio.h:472:12: warning: unused function 'fio_write_str' [-Wunused-function] :info:destroot static int fio_write_str(fio_fd fd, const char *str) { :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.c:60: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer2/VFont.c -o build/temp.macosx-10.9-x86_64-2.7/layer2/VFont.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 4 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer3/Editor.c -o build/temp.macosx-10.9-x86_64-2.7/layer3/Editor.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:160: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:890:12: warning: unused function 'iswhiteline' [-Wunused-function] :info:destroot static int iswhiteline(char *s) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:896:14: warning: unused function 'strtoupper' [-Wunused-function] :info:destroot static char *strtoupper(char *s) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1072:13: warning: unused function 'thisline' [-Wunused-function] :info:destroot static void thisline(FILE *file) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1092:13: warning: unused function 'whereami' [-Wunused-function] :info:destroot static void whereami(FILE *file) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:580:13: warning: unused function 'print_matrix4' [-Wunused-function] :info:destroot static void print_matrix4(const float mat[16]) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1023:12: warning: unused function 'fpexpftoc' [-Wunused-function] :info:destroot static int fpexpftoc(char *ftocstr) { :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:162: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] :info:destroot static const char *get_pte_label(const int idx) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: unused function 'get_pte_mass' [-Wunused-function] :info:destroot static float get_pte_mass(const int idx) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: unused function 'get_pte_vdw_radius' [-Wunused-function] :info:destroot static float get_pte_vdw_radius(const int idx) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] :info:destroot static int get_pte_idx(const char *label) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.c:997:13: warning: unused function 'print_input_data' [-Wunused-function] :info:destroot static void print_input_data(qmdata_t *data) { :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer3/Executive.c -o build/temp.macosx-10.9-x86_64-2.7/layer3/Executive.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer3/Executive.c:4495:50: warning: data argument not used by format string [-Wformat-extra-args] :info:destroot " GetHistogram-Error: wrong object type.", objName ENDFB(G); :info:destroot ~ :info:destroot layer3/Executive.c:5898:19: warning: incompatible pointer to integer conversion assigning to 'int' from 'CSymmetry *' [-Wint-conversion] :info:destroot ok_assert(1, ok = symmetry); :info:destroot :info:destroot layer0/Err.h:32:31: note: expanded from macro 'ok_assert' :info:destroot #define ok_assert(x, c) {if(!(c)) ok_raise(x);} :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.c:33: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] :info:destroot static int get_pte_idx(const char *label) :info:destroot :info:destroot 11 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/hash.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:403:16: warning: unused variable 'bszmask' [-Wunused-variable] :info:destroot fio_size_t bszmask; :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:87: :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/hash.h:37: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/hash.c:183:21: warning: unused function 'hash_delete' [-Wunused-function] :info:destroot VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/hash.c:270:24: warning: unused function 'hash_stats' [-Wunused-function] :info:destroot VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) { :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/jsplugin.c:88: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:29: :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/fortread.h:28: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/psfplugin.c:29: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: unused function 'fort_eat_recmark' [-Wunused-function] :info:destroot static int fort_eat_recmark(FILE *ifp, int recmarklen) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: unused function 'fort_get_endian_reclen' [-Wunused-function] :info:destroot static int fort_get_endian_reclen(int reclen, int word0, int word1, :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fortread.h:103:12: warning: unused function 'fortread_4' [-Wunused-function] :info:destroot static int fortread_4(void *dest, int n, int swap, FILE *fd) { :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer4/Cmd.c -o build/temp.macosx-10.9-x86_64-2.7/layer4/Cmd.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 8 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o -ffast-math -funroll-loops -O3 -g -fcommon

:info:destroot layer4/Cmd.c:5985:29: warning: '&&' within ':info:destroot if(ray
' [-Wlogical-op-parentheses]
!G->HaveGUI && (SceneGetCopyType(G) width height)) {

:info:destroot ~ :info:destroot layer4/Cmd.c:5985:29: note: place parentheses around the '&&' expression to silence this warning

:info:destroot if(ray
!G->HaveGUI && (SceneGetCopyType(G) width height)) {

:info:destroot :info:destroot ( ) :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 6 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.c:42: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: unused function 'vasp_timestep_unitcell' [-Wunused-function] :info:destroot static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:828:7: warning: unused variable 's_expon' [-Wunused-variable] :info:destroot char s_expon[128], s_coeff1[128], s_coeff2[128]; :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:828:21: warning: unused variable 's_coeff1' [-Wunused-variable] :info:destroot char s_expon[128], s_coeff1[128], s_coeff2[128]; :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:828:36: warning: unused variable 's_coeff2' [-Wunused-variable] :info:destroot char s_expon[128], s_coeff1[128], s_coeff2[128]; :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:37: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] :info:destroot static const char *get_pte_label(const int idx) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: unused function 'get_pte_mass' [-Wunused-function] :info:destroot static float get_pte_mass(const int idx) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: unused function 'get_pte_vdw_radius' [-Wunused-function] :info:destroot static float get_pte_vdw_radius(const int idx) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] :info:destroot static int get_pte_idx(const char *label) :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.c:38: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:706:12: warning: unused function 'symmetry_expand' [-Wunused-function] :info:destroot static int symmetry_expand(qm_atom_t atoms, int numunique, int natoms, :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1001:12: warning: unused function 'have_keyline' [-Wunused-function] :info:destroot static int have_keyline(FILE *file, const char *keystring1, :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1072:13: warning: unused function 'thisline' [-Wunused-function] :info:destroot static void thisline(FILE *file) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:1092:13: warning: unused function 'whereami' [-Wunused-function] :info:destroot static void whereami(FILE *file) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:485:13: warning: unused function 'replace_wavefunction' [-Wunused-function] :info:destroot static void replace_wavefunction(qm_timestep_t *ts, int n) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:502:13: warning: unused function 'del_wavefunction' [-Wunused-function] :info:destroot static void del_wavefunction(qm_timestep_t *ts) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/qmplugin.h:580:13: warning: unused function 'print_matrix4' [-Wunused-function] :info:destroot static void print_matrix4(const float mat[16]) { :info:destroot :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.c:41: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] :info:destroot static int get_pte_idx_from_string(const char *label) { :info:destroot :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.c:42: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/vaspplugin.h:111:13: warning: unused function 'vasp_timestep_unitcell' [-Wunused-function] :info:destroot static void vasp_timestep_unitcell(molfile_timestep_t *ts, vasp_plugindata_t *data) :info:destroot :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.c:41: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] :info:destroot static int get_pte_idx_from_string(const char *label) { :info:destroot :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.c:41: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] :info:destroot static int get_pte_idx_from_string(const char *label) { :info:destroot :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 14 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:82:23: warning: expression which evaluates to zero treated as a null pointer constant of type 'char *' [-Wnon-literal-null-conversion] :info:destroot if (end) end = '\0'; :info:destroot ~ :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.c:48: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] :info:destroot static int get_pte_idx_from_string(const char *label) { :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 2 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:47: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.cpp:48: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: unused function 'fort_eat_recmark' [-Wunused-function] :info:destroot static int fort_eat_recmark(FILE *ifp, int recmarklen) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: unused function 'fort_get_endian_reclen' [-Wunused-function] :info:destroot static int fort_get_endian_reclen(int reclen, int word0, int word1, :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: unused function 'strnwscpy' [-Wunused-function] :info:destroot static void strnwscpy(char *target, const char *source, const int len) { :info:destroot :info:destroot 8 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/graspplugin.cpp:40: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot 4 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/grdplugin.cpp:51: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 5 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.c:57: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] :info:destroot static int get_pte_idx_from_string(const char *label) { :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:59: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/gridplugin.cpp:60: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fortread.h:36:12: warning: unused function 'fort_eat_recmark' [-Wunused-function] :info:destroot static int fort_eat_recmark(FILE *ifp, int recmarklen) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fortread.h:55:12: warning: unused function 'fort_get_endian_reclen' [-Wunused-function] :info:destroot static int fort_get_endian_reclen(int reclen, int word0, int word1, :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/fortread.h:133:13: warning: unused function 'strnwscpy' [-Wunused-function] :info:destroot static void strnwscpy(char *target, const char *source, const int len) { :info:destroot :info:destroot 8 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/avsplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.cpp:30: :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/Gromacs.h:48: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/brixplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.cpp:44: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot 5 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.cpp:42: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] :info:destroot static int get_pte_idx(const char *label) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] :info:destroot static int get_pte_idx_from_string(const char *label) { :info:destroot :info:destroot 4 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 2 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.cpp:63: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: unused function 'swap4_aligned' [-Wunused-function] :info:destroot static void swap4_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot 4 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:680:44: warning: field 'eno' is uninitialized when used here [-Wuninitialized] :info:destroot : std::runtime_error(text + strerror(eno)), eno(_eno){} :info:destroot :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer4/Export.c -o build/temp.macosx-10.9-x86_64-2.7/layer4/Export.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.cpp:1883:9: warning: unused variable 'last_ctnumber' [-Wunused-variable] :info:destroot int last_ctnumber = -1; :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer4/Menu.c -o build/temp.macosx-10.9-x86_64-2.7/layer4/Menu.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:70: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/vmddir.h:137:12: warning: unused function 'vmd_file_is_executable' [-Wunused-function] :info:destroot static int vmd_file_is_executable(const char * filename) { :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.cpp:71: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:110:13: warning: unused function 'swap4_aligned' [-Wunused-function] :info:destroot static void swap4_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer4/PopUp.c -o build/temp.macosx-10.9-x86_64-2.7/layer4/PopUp.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer5/main.c -o build/temp.macosx-10.9-x86_64-2.7/layer5/main.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer5/PyMOL.c -o build/temp.macosx-10.9-x86_64-2.7/layer5/PyMOL.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 2 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parmplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot layer5/PyMOL.c:959:37: warning: unused function 'return_status' [-Wunused-function] :info:destroot CC_INLINE static PyMOLreturn_status return_status(int status) :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.cpp:53: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot 4 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/phiplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/pltplugin.cpp:42: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot 5 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/situsplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:13: warning: unused variable 'z' [-Wunused-variable] :info:destroot int x, y, z, xsize, ysize, zsize, xysize, total; :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:7: warning: unused variable 'x' [-Wunused-variable] :info:destroot int x, y, z, xsize, ysize, zsize, xysize, total; :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:277:10: warning: unused variable 'y' [-Wunused-variable] :info:destroot int x, y, z, xsize, ysize, zsize, xysize, total; :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.cpp:36: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:46:13: warning: unused function 'swap4_unaligned' [-Wunused-function] :info:destroot static void swap4_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot 8 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/stlplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.cpp:47: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:32:13: warning: unused function 'swap2_unaligned' [-Wunused-function] :info:destroot static void swap2_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:65:13: warning: unused function 'swap8_unaligned' [-Wunused-function] :info:destroot static void swap8_unaligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:96:13: warning: unused function 'swap2_aligned' [-Wunused-function] :info:destroot static void swap2_aligned(void *v, long ndata) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/endianswap.h:124:13: warning: unused function 'swap8_aligned' [-Wunused-function] :info:destroot static void swap8_aligned(void *v, long ndata) { :info:destroot :info:destroot 4 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.cpp:37: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] :info:destroot static int get_pte_idx_from_string(const char *label) { :info:destroot :info:destroot 1 warning generated. :info:destroot 6 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/dxplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c layer5/TestPyMOL.c -o build/temp.macosx-10.9-x86_64-2.7/layer5/TestPyMOL.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:207:10: warning: unused variable 'l' [-Wunused-variable] :info:destroot int z, l, sentinel, convcnt; :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/edmplugin.cpp:220:7: warning: unused variable 'leftover' [-Wunused-variable] :info:destroot int leftover = (nperslice - (nlines - 1) * 6); :info:destroot :info:destroot 2 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c modules/cealign/src/ccealignmodule.cpp -o build/temp.macosx-10.9-x86_64-2.7/modules/cealign/src/ccealignmodule.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mapplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:135:7: warning: unused variable 'retval' [-Wunused-variable] :info:destroot int retval; :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.cpp:45: :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/hash.h:37: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/hash.c:183:21: warning: unused function 'hash_delete' [-Wunused-function] :info:destroot VMDEXTERNSTATIC int hash_delete(hash_t *tptr, const char *key) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/hash.c:270:24: warning: unused function 'hash_stats' [-Wunused-function] :info:destroot VMDEXTERNSTATIC char * hash_stats(hash_t *tptr) { :info:destroot :info:destroot 3 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mmcif.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:85:14: warning: unused variable 'data' [-Wunused-variable] :info:destroot mmcifdata *data = (mmcifdata *)mydata; :info:destroot :info:destroot In file included from contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:64: :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:95:20: warning: unused function 'get_pte_label' [-Wunused-function] :info:destroot static const char *get_pte_label(const int idx) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:102:14: warning: unused function 'get_pte_mass' [-Wunused-function] :info:destroot static float get_pte_mass(const int idx) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:109:14: warning: unused function 'get_pte_vdw_radius' [-Wunused-function] :info:destroot static float get_pte_vdw_radius(const int idx) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:133:12: warning: unused function 'get_pte_idx' [-Wunused-function] :info:destroot static int get_pte_idx(const char *label) :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/periodic_table.h:160:12: warning: unused function 'get_pte_idx_from_string' [-Wunused-function] :info:destroot static int get_pte_idx_from_string(const char *label) { :info:destroot :info:destroot contrib/uiuc/plugins/molfile_plugin/src/mmcif.cpp:98:14: warning: unused function 'open_mmcif_write' [-Wunused-function] :info:destroot static void *open_mmcif_write(const char *filename, const char *filetype, :info:destroot :info:destroot 7 warnings generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot In file included from modules/cealign/src/ccealignmodule.cpp:32: :info:destroot In file included from modules/cealign/src/ccealignmodule.H:37: :info:destroot In file included from modules/cealign/src/tnt/tnt.h:43: :info:destroot modules/cealign/src/tnt/tnt_matrix.h:549:15: warning: unused variable 'N' [-Wunused-variable] :info:destroot Subscript N = A.num_cols(); :info:destroot :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.cpp -o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot 1 warning generated. :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -D_PYMOL_LIBPNG -D_PYMOL_INLINE -D_PYMOL_OPENGL_SHADERS -D_PYMOL_CGO_DRAWARRAYS -D_PYMOL_CGO_DRAWBUFFERS -D_PYMOL_GL_CALLLISTS -D_PYMOL_VMD_PLUGINS -D_PYMOL_FREETYPE -DNO_MMLIBS -D_CGO_DRAWARRAYS -DOPENGL_ES_2 -D_PYMOL_NUMPY -Iov/src -Ilayer0 -Ilayer1 -Ilayer2 -Ilayer3 -Ilayer4 -Ilayer5 -Imodules/cealign/src -Imodules/cealign/src/tnt -Ibuild/generated -Icontrib/uiuc/plugins/include -Icontrib/uiuc/plugins/molfile_plugin/src -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/numpy/core/include -I/opt/local/include -I/opt/local/include/freetype2 -I/usr/include -I/usr/X11/include -I/usr/X11/include/freetype2 -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c build/generated/ShaderText.c -o build/temp.macosx-10.9-x86_64-2.7/build/generated/ShaderText.o -ffast-math -funroll-loops -O3 -g -fcommon :info:destroot /usr/bin/clang++ -bundle -undefined dynamic_lookup -L/opt/local/lib -Wl,-headerpad_max_install_names -L/opt/local/lib/db48 build/temp.macosx-10.9-x86_64-2.7/ov/src/ov_utility.o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVContext.o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVHeap.o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVHeapArray.o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVLexicon.o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVOneToAny.o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVOneToOne.o build/temp.macosx-10.9-x86_64-2.7/ov/src/OVRandom.o build/temp.macosx-10.9-x86_64-2.7/layer0/Block.o build/temp.macosx-10.9-x86_64-2.7/layer0/Crystal.o build/temp.macosx-10.9-x86_64-2.7/layer0/Debug.o build/temp.macosx-10.9-x86_64-2.7/layer0/Deferred.o build/temp.macosx-10.9-x86_64-2.7/layer0/Err.o build/temp.macosx-10.9-x86_64-2.7/layer0/Feedback.o build/temp.macosx-10.9-x86_64-2.7/layer0/Field.o build/temp.macosx-10.9-x86_64-2.7/layer0/Isosurf.o build/temp.macosx-10.9-x86_64-2.7/layer0/Map.o build/temp.macosx-10.9-x86_64-2.7/layer0/Match.o build/temp.macosx-10.9-x86_64-2.7/layer0/Matrix.o build/temp.macosx-10.9-x86_64-2.7/layer0/MemoryCache.o build/temp.macosx-10.9-x86_64-2.7/layer0/MemoryDebug.o build/temp.macosx-10.9-x86_64-2.7/layer0/MyPNG.o build/temp.macosx-10.9-x86_64-2.7/layer0/os_gl.o build/temp.macosx-10.9-x86_64-2.7/layer0/Parse.o build/temp.macosx-10.9-x86_64-2.7/layer0/Pixmap.o build/temp.macosx-10.9-x86_64-2.7/layer0/Queue.o build/temp.macosx-10.9-x86_64-2.7/layer0/Raw.o build/temp.macosx-10.9-x86_64-2.7/layer0/ShaderMgr.o build/temp.macosx-10.9-x86_64-2.7/layer0/Sphere.o build/temp.macosx-10.9-x86_64-2.7/layer0/Tetsurf.o build/temp.macosx-10.9-x86_64-2.7/layer0/Texture.o build/temp.macosx-10.9-x86_64-2.7/layer0/Tracker.o build/temp.macosx-10.9-x86_64-2.7/layer0/Triangle.o build/temp.macosx-10.9-x86_64-2.7/layer0/Util.o build/temp.macosx-10.9-x86_64-2.7/layer0/Vector.o build/temp.macosx-10.9-x86_64-2.7/layer0/Word.o build/temp.macosx-10.9-x86_64-2.7/layer1/Basis.o build/temp.macosx-10.9-x86_64-2.7/layer1/ButMode.o build/temp.macosx-10.9-x86_64-2.7/layer1/CGO.o build/temp.macosx-10.9-x86_64-2.7/layer1/Character.o build/temp.macosx-10.9-x86_64-2.7/layer1/Color.o build/temp.macosx-10.9-x86_64-2.7/layer1/Control.o build/temp.macosx-10.9-x86_64-2.7/layer1/Extrude.o build/temp.macosx-10.9-x86_64-2.7/layer1/Font.o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUT.o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUT8x13.o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUT9x15.o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUTHel10.o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUTHel12.o build/temp.macosx-10.9-x86_64-2.7/layer1/FontGLUTHel18.o build/temp.macosx-10.9-x86_64-2.7/layer1/FontType.o build/temp.macosx-10.9-x86_64-2.7/layer1/Movie.o build/temp.macosx-10.9-x86_64-2.7/layer1/Ortho.o build/temp.macosx-10.9-x86_64-2.7/layer1/P.o build/temp.macosx-10.9-x86_64-2.7/layer1/PConv.o build/temp.macosx-10.9-x86_64-2.7/layer1/Pop.o build/temp.macosx-10.9-x86_64-2.7/layer1/PyMOLObject.o build/temp.macosx-10.9-x86_64-2.7/layer1/Ray.o build/temp.macosx-10.9-x86_64-2.7/layer1/Rep.o build/temp.macosx-10.9-x86_64-2.7/layer1/Scene.o build/temp.macosx-10.9-x86_64-2.7/layer1/ScrollBar.o build/temp.macosx-10.9-x86_64-2.7/layer1/Seq.o build/temp.macosx-10.9-x86_64-2.7/layer1/Setting.o build/temp.macosx-10.9-x86_64-2.7/layer1/Shaker.o build/temp.macosx-10.9-x86_64-2.7/layer1/Symmetry.o build/temp.macosx-10.9-x86_64-2.7/layer1/Text.o build/temp.macosx-10.9-x86_64-2.7/layer1/TypeFace.o build/temp.macosx-10.9-x86_64-2.7/layer1/View.o build/temp.macosx-10.9-x86_64-2.7/layer1/Wizard.o build/temp.macosx-10.9-x86_64-2.7/layer2/AtomInfo.o build/temp.macosx-10.9-x86_64-2.7/layer2/CoordSet.o build/temp.macosx-10.9-x86_64-2.7/layer2/DistSet.o build/temp.macosx-10.9-x86_64-2.7/layer2/GadgetSet.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectAlignment.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectCallback.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectCGO.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectDist.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectGadget.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectGadgetRamp.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectGroup.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectMap.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectMesh.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectMolecule.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectMolecule2.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectSlice.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectSurface.o build/temp.macosx-10.9-x86_64-2.7/layer2/ObjectVolume.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepAngle.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepCartoon.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepCylBond.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepDihedral.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepDistDash.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepDistLabel.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepDot.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepEllipsoid.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepLabel.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepMesh.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepNonbonded.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepNonbondedSphere.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepRibbon.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepSphere.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepSurface.o build/temp.macosx-10.9-x86_64-2.7/layer2/RepWireBond.o build/temp.macosx-10.9-x86_64-2.7/layer2/Sculpt.o build/temp.macosx-10.9-x86_64-2.7/layer2/SculptCache.o build/temp.macosx-10.9-x86_64-2.7/layer2/VFont.o build/temp.macosx-10.9-x86_64-2.7/layer3/Editor.o build/temp.macosx-10.9-x86_64-2.7/layer3/Executive.o build/temp.macosx-10.9-x86_64-2.7/layer3/PlugIOManager.o build/temp.macosx-10.9-x86_64-2.7/layer3/Seeker.o build/temp.macosx-10.9-x86_64-2.7/layer3/Selector.o build/temp.macosx-10.9-x86_64-2.7/layer4/Cmd.o build/temp.macosx-10.9-x86_64-2.7/layer4/Export.o build/temp.macosx-10.9-x86_64-2.7/layer4/Menu.o build/temp.macosx-10.9-x86_64-2.7/layer4/PopUp.o build/temp.macosx-10.9-x86_64-2.7/layer5/main.o build/temp.macosx-10.9-x86_64-2.7/layer5/PyMOL.o build/temp.macosx-10.9-x86_64-2.7/layer5/TestPyMOL.o build/temp.macosx-10.9-x86_64-2.7/modules/cealign/src/ccealignmodule.o build/temp.macosx-10.9-x86_64-2.7/build/generated/ShaderText.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/basissetplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/binposplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/carplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/corplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/crdplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dcdplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dlpolyplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gamessplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/hash.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/jsplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/moldenplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/namdbinplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pdbplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/PlugIOManagerInit.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pqrplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/psfplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/rst7plugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/tinkerplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspchgcarplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspoutcarplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspparchgplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspposcarplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxdatcarplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vaspxmlplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/vtfplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xyzplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/avsplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/bgfplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/biomoccaplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/brixplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/ccp4plugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/cubeplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dsn6plugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dtrplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/dxplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/edmplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/fs4plugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/graspplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/grdplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gridplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/gromacsplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/maeffplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mapplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mdfplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mmcif.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/mol2plugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/msmsplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/parm7plugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/parmplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pbeqplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/phiplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/pltplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/raster3dplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/situsplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/spiderplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/stlplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/uhbdplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xbgfplugin.o build/temp.macosx-10.9-x86_64-2.7/contrib/uiuc/plugins/molfile_plugin/src/xsfplugin.o -L/opt/local/lib -L/usr/lib -L/usr/X11/lib -lpng -lfreetype -lGLEW -lGL -lGLU -lglut -o build/lib.macosx-10.9-x86_64-2.7/pymol/_cmd.so :info:destroot building 'chempy.champ._champ' extension :info:destroot creating build/temp.macosx-10.9-x86_64-2.7/contrib/champ :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/champ_module.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/champ_module.o :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/champ.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/champ.o :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/chiral.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/chiral.o :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/err2.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/err2.o :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/feedback2.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/feedback2.o :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/list.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/list.o :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/os_memory.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/os_memory.o :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/sort.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/sort.o :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/strblock.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/strblock.o :info:destroot /usr/bin/clang -fno-strict-aliasing -fno-common -dynamic -pipe -Os -fwrapv -DNDEBUG -g -fwrapv -O3 -Wall -Wstrict-prototypes -Icontrib/champ -I/opt/local/Library/Frameworks/Python.framework/Versions/2.7/include/python2.7 -c contrib/champ/vla.c -o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/vla.o :info:destroot /usr/bin/clang -bundle -undefined dynamic_lookup -L/opt/local/lib -Wl,-headerpad_max_install_names -L/opt/local/lib/db48 build/temp.macosx-10.9-x86_64-2.7/contrib/champ/champ.o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/champ_module.o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/chiral.o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/err2.o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/feedback2.o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/list.o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/os_memory.o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/sort.o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/strblock.o build/temp.macosx-10.9-x86_64-2.7/contrib/champ/vla.o -o build/lib.macosx-10.9-x86_64-2.7/chempy/champ/_champ.so :info:destroot running install_lib :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7 :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7 :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/arc.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/bmin/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/bmin/commands.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/bmin/realtime.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/bmin/state.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/bmin/util.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/bond_amber.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/bond_mmff.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/bonds.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/brick.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/cc1.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/cex.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/champ :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/champ/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/champ :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/champ/_champ.so -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/champ :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/champ/amber99.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/champ :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/champ/assign.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/champ :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/champ/formal_charges.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/champ :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/charge.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/cif.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/cpv.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/dictdb.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/fast :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/fast/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/fast :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/fragments :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/fragments/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/fragments :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/gamess1.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/gms.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/hetatm.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/io.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/lst.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/mae.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/map.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/mass.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/mmd.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/models.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/mol.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/mol2.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/neighbor.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/pdb.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/pkl.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/place.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/protein.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/protein_amber.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/protein_amber99.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/protein_mmff.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/protein_residues.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/sdf.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/solvate.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/tinker :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/tinker/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/tinker :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/tinker/amber.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/tinker :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/tinker/keyword.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/tinker :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/tinker/realtime.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/tinker :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/tinker/state.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/tinker :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/water_amber.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/water_residues.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/chempy/xyz.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/ColorEditor.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/Demo.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/PMGApp.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/PyMOLMapLoad.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/SetEditor.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/Setting.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/skins :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/skins :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/skins/demo :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/demo/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/skins/demo :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/skins/normal :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/normal/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/skins/normal :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/normal/builder.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/skins/normal :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/skins/normal/ModalWindow.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/skins/normal :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/startup :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/startup/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/startup :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/startup/apbs_tools.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/startup :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/startup/remote_pdb_load.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk/startup :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/TextEditor.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_tk/volume.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_tk :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_wx :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pmg_wx/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pmg_wx :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/_cmd.so -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/api.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/callback.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/cgo.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/checking.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/cmd.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/colorramping.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/commanding.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/completing.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/computing.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/constants.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/constants_palette.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/contrib :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/contrib/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/contrib :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/controlling.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/creating.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/editing.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/editor.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/embed :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/embed/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/embed :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/embed/epymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/embed/epymol/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/embed/epymol :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/embed/wxpymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/embed/wxpymol/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/embed/wxpymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/experimenting.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/exporting.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/externing.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/feedingback.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/fitting.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/gui.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/headering.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/helping.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/importing.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/internal.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/invocation.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/keyboard.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/keywords.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/locking.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/m4x.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/menu.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/monitoring.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/movie.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/moving.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/opengl :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/opengl :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/opengl/gl :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/gl/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/opengl/gl :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/opengl/glu :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/glu/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/opengl/glu :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/opengl/glut :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/opengl/glut/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/opengl/glut :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/parser.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/parsing.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/plugins :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/plugins/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/plugins :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/plugins/installation.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/plugins :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/plugins/legacysupport.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/plugins :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/plugins/managergui.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/plugins :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/plugins/repository.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/plugins :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/povray.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/preset.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/querying.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/rpc.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/selecting.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/selector.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/setting.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/shortcut.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/util.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/vfont.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/viewing.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/annotation.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/appearance.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/benchmark.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/box.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/charge.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/cleanup.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/demo.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/density.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/distance.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/dragging.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/fedora.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/filter.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/label.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/measurement.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/message.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/mutagenesis.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/pair_fit.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/pseudoatom.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/renaming.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/sculpting.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/security.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/stereodemo.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizard/toggle.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/wizarding.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/xray.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol/xwin.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol2 :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol2/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol2 :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol2/cmd2.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol2 :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/pymol2/make_cmd2.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol2 :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/web/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web/examples :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/web/examples/init.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web/examples :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/web/examples/justhttpd.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web/examples :info:destroot copying build/lib.macosx-10.9-x86_64-2.7/web/pymolhttpd.py -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/init.py to init.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/arc.py to arc.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin/init.py to init.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin/commands.py to commands.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin/realtime.py to realtime.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin/state.py to state.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/chempy/bmin/util.py to util.pyc :info:destroot byte-compiling 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/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/cleanup.py to cleanup.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/demo.py to demo.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/density.py to density.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/distance.py to distance.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/dragging.py to dragging.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/fedora.py to fedora.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/filter.py to filter.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/label.py to label.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/measurement.py to measurement.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/message.py to message.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/mutagenesis.py to mutagenesis.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/pair_fit.py to pair_fit.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/pseudoatom.py to pseudoatom.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/renaming.py to renaming.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/sculpting.py to sculpting.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/security.py to security.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/stereodemo.py to stereodemo.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizard/toggle.py to toggle.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/wizarding.py to wizarding.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/xray.py to xray.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/xwin.py to xwin.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol2/init.py to init.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol2/cmd2.py to cmd2.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol2/make_cmd2.py to make_cmd2.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web/init.py to init.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web/examples/init.py to init.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web/examples/justhttpd.py to justhttpd.pyc :info:destroot byte-compiling /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/web/pymolhttpd.py to pymolhttpd.pyc :info:destroot running install_egg_info :info:destroot Writing /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol-1.7.1.1-py2.7.egg-info :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/pymol_path :info:destroot copying LICENSE -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/pymol_path :info:destroot copying data -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/pymol_path/data :info:destroot copying test -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/pymol_path/test :info:destroot copying scripts -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/pymol_path/scripts :info:destroot copying examples -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/pymol/pymol_path/examples :info:destroot creating /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/bin :info:destroot copying pymol -> /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/Library/Frameworks/Python.framework/Versions/2.7/bin :debug:destroot Executing proc-post-org.macports.destroot-destroot-0 :debug:destroot Executing proc-post-org.macports.destroot-destroot-1 :error:destroot org.macports.destroot for port pymol returned: error copying "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup/pymol_macports" to "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol": file already exists :debug:destroot Error code: NONE :debug:destroot Backtrace: error copying "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/pymol/setup/pymol_macports" to "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol": file already exists

while executing

"proc-post-org.macports.destroot-destroot-1 org.macports.destroot"

("eval" body line 1) invoked from within

"eval $post $targetname" :info:destroot Warning: targets not executed for pymol: org.macports.activate org.macports.destroot org.macports.install :notice:destroot Please see the log file for port pymol for details:

/opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_pymol/pymol/main.log

Version 1, edited 3 years ago by itamar.kass@… (previous) (next) (diff)

comment:4 Changed 3 years ago by mamoll (Mark Moll)

  • Cc mmoll@… added

Cc Me!

comment:5 Changed 3 years ago by michelle.lynn.gill@…

  • Cc michelle.lynn.gill@… added

Cc Me!

comment:6 follow-up: Changed 3 years ago by josh.baraban@…

So, I'm sure this is not an ideal solution, but commenting out the first two lines of the destroot section in the Portfile, e.g.:

#     file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
#     file attributes ${destroot}${prefix}/bin/pymol -permissions a+x

appears to fix the problem. pymol installs and runs normally, as far as I can tell.

comment:7 Changed 3 years ago by larryv (Lawrence Velázquez)

  • Cc matteo.tiberti@… iaindhay@… added

comment:8 in reply to: ↑ 6 ; follow-up: Changed 3 years ago by matteo.tiberti@…

Weirdly enough, that doesn't seem to be working for me; I have modified the portfile found in /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol as you suggested:

$ pwd
/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol

$ tail Portfile
}

post-destroot {}
post-destroot {
     # file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
     # file attributes ${destroot}${prefix}/bin/pymol -permissions a+x
     foreach d {data modules examples test scripts} {
        copy ${worksrcpath}/${d} ${destroot}${python.pkgd}/pymol
    }
 }

$ sudo port clean pymol; sudo port install pymol
--->  Cleaning pymol
--->  Computing dependencies for pymol
--->  Fetching archive for pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://nue.de.packages.macports.org/macports/packages/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://lil.fr.packages.macports.org/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://mse.uk.packages.macports.org/sites/packages.macports.org/pymol
--->  Fetching distfiles for pymol
--->  Verifying checksums for pymol
--->  Extracting pymol
--->  Applying patches to pymol
--->  Configuring pymol
--->  Building pymol
--->  Staging pymol into destroot
Error: org.macports.destroot for port pymol returned: error copying "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/pymol/setup/pymol_macports" to "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol": file already exists
Please see the log file for port pymol for details:
    /opt/local/var/macports/logs/_Users_matteotiberti_devel_ports_science_pymol/pymol/main.log
To report a bug, follow the instructions in the guide:
    http://guide.macports.org/#project.tickets
Error: Processing of port pymol failed

Replying to josh.baraban@…:

So, I'm sure this is not an ideal solution, but commenting out the first two lines of the destroot section in the Portfile, e.g.:

#     file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
#     file attributes ${destroot}${prefix}/bin/pymol -permissions a+x

appears to fix the problem. pymol installs and runs normally, as far as I can tell.

Last edited 3 years ago by matteo.tiberti@… (previous) (diff)

comment:9 in reply to: ↑ 8 ; follow-up: Changed 3 years ago by josh.baraban@…

Check the main.log - the destroot stage clearly is still (for some bizarre reason) executing those commands. I don't know if you need to do anything after modifying a Portfile to make the changes take effect. Looking at my command history, it doesn't look like I did.

Your Portfile is different than mine, by the way - I don't have the plain post-destroot{} line. Maybe selfupdate, and then modify the Portfile again?

Replying to matteo.tiberti@…:

Weirdly enough, that doesn't seem to be working for me; I have modified the portfile found in /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol as you suggested:

$ pwd
/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol

$ tail Portfile
}

post-destroot {}
post-destroot {
     # file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
     # file attributes ${destroot}${prefix}/bin/pymol -permissions a+x
     foreach d {data modules examples test scripts} {
        copy ${worksrcpath}/${d} ${destroot}${python.pkgd}/pymol
    }
 }

$ sudo port clean pymol; sudo port install pymol
--->  Cleaning pymol
--->  Computing dependencies for pymol
--->  Fetching archive for pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://nue.de.packages.macports.org/macports/packages/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://lil.fr.packages.macports.org/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://mse.uk.packages.macports.org/sites/packages.macports.org/pymol
--->  Fetching distfiles for pymol
--->  Verifying checksums for pymol
--->  Extracting pymol
--->  Applying patches to pymol
--->  Configuring pymol
--->  Building pymol
--->  Staging pymol into destroot
Error: org.macports.destroot for port pymol returned: error copying "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/pymol/setup/pymol_macports" to "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol": file already exists
Please see the log file for port pymol for details:
    /opt/local/var/macports/logs/_Users_matteotiberti_devel_ports_science_pymol/pymol/main.log
To report a bug, follow the instructions in the guide:
    http://guide.macports.org/#project.tickets
Error: Processing of port pymol failed

Replying to josh.baraban@…:

So, I'm sure this is not an ideal solution, but commenting out the first two lines of the destroot section in the Portfile, e.g.:

#     file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
#     file attributes ${destroot}${prefix}/bin/pymol -permissions a+x

appears to fix the problem. pymol installs and runs normally, as far as I can tell.

comment:10 in reply to: ↑ 9 ; follow-up: Changed 3 years ago by matteo.tiberti@…

Thanks I thought that was pretty strange. I tried selfupdating but nothing changed (I had also done so before modifying the portfile). Besides, would you mind attaching your modified Portfile and maybe where it is located in your file system? So I can test it as well. Thank you

Replying to josh.baraban@…:

Check the main.log - the destroot stage clearly is still (for some bizarre reason) executing those commands. I don't know if you need to do anything after modifying a Portfile to make the changes take effect. Looking at my command history, it doesn't look like I did.

Your Portfile is different than mine, by the way - I don't have the plain post-destroot{} line. Maybe selfupdate, and then modify the Portfile again?

Replying to matteo.tiberti@…:

Weirdly enough, that doesn't seem to be working for me; I have modified the portfile found in /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol as you suggested:

$ pwd
/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol

$ tail Portfile
}

post-destroot {}
post-destroot {
     # file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
     # file attributes ${destroot}${prefix}/bin/pymol -permissions a+x
     foreach d {data modules examples test scripts} {
        copy ${worksrcpath}/${d} ${destroot}${python.pkgd}/pymol
    }
 }

$ sudo port clean pymol; sudo port install pymol
--->  Cleaning pymol
--->  Computing dependencies for pymol
--->  Fetching archive for pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://nue.de.packages.macports.org/macports/packages/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://lil.fr.packages.macports.org/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://mse.uk.packages.macports.org/sites/packages.macports.org/pymol
--->  Fetching distfiles for pymol
--->  Verifying checksums for pymol
--->  Extracting pymol
--->  Applying patches to pymol
--->  Configuring pymol
--->  Building pymol
--->  Staging pymol into destroot
Error: org.macports.destroot for port pymol returned: error copying "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/pymol/setup/pymol_macports" to "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol": file already exists
Please see the log file for port pymol for details:
    /opt/local/var/macports/logs/_Users_matteotiberti_devel_ports_science_pymol/pymol/main.log
To report a bug, follow the instructions in the guide:
    http://guide.macports.org/#project.tickets
Error: Processing of port pymol failed

Replying to josh.baraban@…:

So, I'm sure this is not an ideal solution, but commenting out the first two lines of the destroot section in the Portfile, e.g.:

#     file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
#     file attributes ${destroot}${prefix}/bin/pymol -permissions a+x

appears to fix the problem. pymol installs and runs normally, as far as I can tell.

Changed 3 years ago by josh.baraban@…

Modified Portfile

comment:11 in reply to: ↑ 10 ; follow-up: Changed 3 years ago by josh.baraban@…

I just attached the modified Portfile, and it's in the usual place on my system: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol

Replying to matteo.tiberti@…:

Thanks I thought that was pretty strange. I tried selfupdating but nothing changed (I had also done so before modifying the portfile). Besides, would you mind attaching your modified Portfile and maybe where it is located in your file system? So I can test it as well. Thank you

Replying to josh.baraban@…:

Check the main.log - the destroot stage clearly is still (for some bizarre reason) executing those commands. I don't know if you need to do anything after modifying a Portfile to make the changes take effect. Looking at my command history, it doesn't look like I did.

Your Portfile is different than mine, by the way - I don't have the plain post-destroot{} line. Maybe selfupdate, and then modify the Portfile again?

Replying to matteo.tiberti@…:

Weirdly enough, that doesn't seem to be working for me; I have modified the portfile found in /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol as you suggested:

$ pwd
/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol

$ tail Portfile
}

post-destroot {}
post-destroot {
     # file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
     # file attributes ${destroot}${prefix}/bin/pymol -permissions a+x
     foreach d {data modules examples test scripts} {
        copy ${worksrcpath}/${d} ${destroot}${python.pkgd}/pymol
    }
 }

$ sudo port clean pymol; sudo port install pymol
--->  Cleaning pymol
--->  Computing dependencies for pymol
--->  Fetching archive for pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://nue.de.packages.macports.org/macports/packages/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://lil.fr.packages.macports.org/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://mse.uk.packages.macports.org/sites/packages.macports.org/pymol
--->  Fetching distfiles for pymol
--->  Verifying checksums for pymol
--->  Extracting pymol
--->  Applying patches to pymol
--->  Configuring pymol
--->  Building pymol
--->  Staging pymol into destroot
Error: org.macports.destroot for port pymol returned: error copying "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/pymol/setup/pymol_macports" to "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol": file already exists
Please see the log file for port pymol for details:
    /opt/local/var/macports/logs/_Users_matteotiberti_devel_ports_science_pymol/pymol/main.log
To report a bug, follow the instructions in the guide:
    http://guide.macports.org/#project.tickets
Error: Processing of port pymol failed

Replying to josh.baraban@…:

So, I'm sure this is not an ideal solution, but commenting out the first two lines of the destroot section in the Portfile, e.g.:

#     file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
#     file attributes ${destroot}${prefix}/bin/pymol -permissions a+x

appears to fix the problem. pymol installs and runs normally, as far as I can tell.

comment:12 in reply to: ↑ 11 Changed 3 years ago by matteo.tiberti@…

Thanks! It gives the same error nonetheless on my system... weird stuff. :(

Replying to josh.baraban@…:

I just attached the modified Portfile, and it's in the usual place on my system: /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol

Replying to matteo.tiberti@…:

Thanks I thought that was pretty strange. I tried selfupdating but nothing changed (I had also done so before modifying the portfile). Besides, would you mind attaching your modified Portfile and maybe where it is located in your file system? So I can test it as well. Thank you

Replying to josh.baraban@…:

Check the main.log - the destroot stage clearly is still (for some bizarre reason) executing those commands. I don't know if you need to do anything after modifying a Portfile to make the changes take effect. Looking at my command history, it doesn't look like I did.

Your Portfile is different than mine, by the way - I don't have the plain post-destroot{} line. Maybe selfupdate, and then modify the Portfile again?

Replying to matteo.tiberti@…:

Weirdly enough, that doesn't seem to be working for me; I have modified the portfile found in /opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol as you suggested:

$ pwd
/opt/local/var/macports/sources/rsync.macports.org/release/tarballs/ports/science/pymol

$ tail Portfile
}

post-destroot {}
post-destroot {
     # file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
     # file attributes ${destroot}${prefix}/bin/pymol -permissions a+x
     foreach d {data modules examples test scripts} {
        copy ${worksrcpath}/${d} ${destroot}${python.pkgd}/pymol
    }
 }

$ sudo port clean pymol; sudo port install pymol
--->  Cleaning pymol
--->  Computing dependencies for pymol
--->  Fetching archive for pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://nue.de.packages.macports.org/macports/packages/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://lil.fr.packages.macports.org/pymol
--->  Attempting to fetch pymol-1.7.1.0_0.darwin_14.x86_64.tbz2 from http://mse.uk.packages.macports.org/sites/packages.macports.org/pymol
--->  Fetching distfiles for pymol
--->  Verifying checksums for pymol
--->  Extracting pymol
--->  Applying patches to pymol
--->  Configuring pymol
--->  Building pymol
--->  Staging pymol into destroot
Error: org.macports.destroot for port pymol returned: error copying "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/pymol/setup/pymol_macports" to "/opt/local/var/macports/build/_Users_matteotiberti_devel_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol": file already exists
Please see the log file for port pymol for details:
    /opt/local/var/macports/logs/_Users_matteotiberti_devel_ports_science_pymol/pymol/main.log
To report a bug, follow the instructions in the guide:
    http://guide.macports.org/#project.tickets
Error: Processing of port pymol failed

Replying to josh.baraban@…:

So, I'm sure this is not an ideal solution, but commenting out the first two lines of the destroot section in the Portfile, e.g.:

#     file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
#     file attributes ${destroot}${prefix}/bin/pymol -permissions a+x

appears to fix the problem. pymol installs and runs normally, as far as I can tell.

comment:13 follow-up: Changed 3 years ago by jhowarth@…

For some reason port has regressed such that when it begins to execute the post-destroot the following symlink has already been errorenously created...

% ls -l "/opt/local/var/macports/build/_Users_howarth_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol"
lrwxr-xr-x  1 root  admin  69 Oct 31 16:02 /opt/local/var/macports/build/_Users_howarth_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol -> /opt/local/Library/Frameworks/Python.framework/Versions/2.7/bin/pymol

So apply the ugly hack below will purge it until we discover why port is misbehaving.

--- Portfile.orig	2014-10-31 16:25:18.000000000 -0400
+++ Portfile	2014-10-31 16:05:58.000000000 -0400
@@ -7,7 +7,7 @@
 
 name                pymol
 version             1.7.1.1
-revision            1
+revision            2
 categories          science chemistry
 license             GPL
 maintainers         bromo.med.uc.edu:howarth
@@ -103,6 +103,7 @@
 }
 
 post-destroot {
+     file delete ${destroot}${prefix}/bin/pymol
      file copy ${worksrcpath}/setup/pymol_macports ${destroot}${prefix}/bin/pymol
      file attributes ${destroot}${prefix}/bin/pymol -permissions a+x
      foreach d {data modules examples test scripts} {

Of course, the most annoying bug of all in pymol is how utterly useless the "require_active_variants" field is. From a clean install of MacPorts on Yosemite, with the first install being "sudo port -d install pymol", port totally ignores the lines...

require_active_variants tcl "" corefoundation
require_active_variants tk "" quartz

which should be preselecting the appropriate tcl and tk variants. You have to manually execute...

sudo port -d install tcl -corefoundation
sudo port -d install tk -quartz

to unbreak the installed pymol.

Last edited 3 years ago by ryandesign (Ryan Schmidt) (previous) (diff)

comment:14 Changed 3 years ago by SickTeddyBear

  • Cc amcgee@… added

Cc Me!

comment:15 Changed 3 years ago by teige-mp@…

  • Cc teige-mp@… added

Cc Me!

Changed 3 years ago by ryandesign (Ryan Schmidt)

itamar.kass's main.log file

comment:16 in reply to: ↑ 3 Changed 3 years ago by ryandesign (Ryan Schmidt)

  • Cc itamar.kass@… added

Replying to itamar.kass@…:

I have the same problem in the last few days.

Please don't paste enormous output into a ticket comment; attach it instead. I have removed the log from your comment and attached it as an attachment.

comment:17 Changed 3 years ago by petrrr

  • Cc petr@… added

Cc Me!

comment:18 Changed 3 years ago by petrrr

  • Owner changed from howarth@… to howarth.at.macports@…

comment:19 Changed 3 years ago by p-bro

  • Cc p.bro@… added

Cc Me!

Changed 3 years ago by Lenuci@…

Same problem :-((

comment:20 in reply to: ↑ 13 ; follow-up: Changed 3 years ago by ryandesign (Ryan Schmidt)

  • Cc ryandesign@… added
  • Resolution set to fixed
  • Status changed from new to closed

Replying to jhowarth@…:

For some reason port has regressed such that when it begins to execute the post-destroot the following symlink has already been errorenously created...

% ls -l "/opt/local/var/macports/build/_Users_howarth_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol"
lrwxr-xr-x  1 root  admin  69 Oct 31 16:02 /opt/local/var/macports/build/_Users_howarth_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol -> /opt/local/Library/Frameworks/Python.framework/Versions/2.7/bin/pymol

So apply the ugly hack below will purge it until we discover why port is misbehaving.

The reason for the destroot failure is a change that was made to the python 1.0 portgroup in r126798. That this change caused a destroot failure in pymol does not indicate a regression of the python 1.0 portgroup, but rather that pymol is not using a directive it should be using to disable this particular functionality of the python 1.0 portgroup. Pymol should probably have been using this directive all along, it just didn't result in a destroot failure until this change.

Ports using the python 1.0 portgroup install their files into deep directories within ${frameworks_dir}/Python.framework. This is inconvenient for users who want to run programs that those ports install. For this reason, when using python 2.6 or later, the python 1.0 portgroup by default creates symlinks to those programs and places them in ${prefix}/bin. Ports that do not want this behavior can set "python.link_binaries no".

Python module ports—those whose names begin with "py-", which install python modules that other programs written in python will use—usually have subports for multiple versions of python each, for example for 2.7 and 3.4. We want the user to be able to install these simultaneously, which would not be possible if they each installed the same files in the same locations. For this reason, when using python 2.6 or later, the python 1.0 portgroup by default appends a versioned suffix to the name of each symlink. Ports that do not want this behavior can set "python.link_binaries_suffix" to a different value, including the empty string if no suffix is desired.

Python application ports—those whose names do not begin with "py-", which install programs the user is expected to use directly, and which do not install modules usable by other python software—do not have subports and are only available for a specific version of python. Python application ports were previously expected to manually set "python.link_binaries_suffix" to the empty string. r126798 changes the python 1.0 portgroup to make that happen automatically.

Pymol is unusual in that it installs a wrapper script that users are expected to run. But the pymol port does not modify the default values of python.link_binaries or python.link_binaries_suffix. So prior to this change, an unwanted and unneeded symlink ${prefix}/bin/pymol-2.7 was being created which users were expected to ignore, and in addition the port was installing its own wrapper script at ${prefix}/bin/pymol which users were expected to use. After this change, the unwanted and unneeded symlink is being installed at ${prefix}/bin/pymol, thus preventing the pymol wrapper script from being installed there.

If the wrapper script is needed, then the solution is to instruct the python 1.0 portgroup to not create the symlink, by setting "python.link_binaries no". I have committed this change in r129465 because it matches the behavior of Jack's patch in comment:13 and #45721.

If the wrapper script is not needed, then the solution is to remove the wrapper script. Jack suggested this in #46218 so we can explore that option more there.

comment:21 in reply to: ↑ 20 Changed 3 years ago by josh.baraban@…

Thanks for tracking that down.

Replying to ryandesign@…:

Replying to jhowarth@…:

For some reason port has regressed such that when it begins to execute the post-destroot the following symlink has already been errorenously created...

% ls -l "/opt/local/var/macports/build/_Users_howarth_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol"
lrwxr-xr-x  1 root  admin  69 Oct 31 16:02 /opt/local/var/macports/build/_Users_howarth_ports_science_pymol/pymol/work/destroot/opt/local/bin/pymol -> /opt/local/Library/Frameworks/Python.framework/Versions/2.7/bin/pymol

So apply the ugly hack below will purge it until we discover why port is misbehaving.

The reason for the destroot failure is a change that was made to the python 1.0 portgroup in r126798. That this change caused a destroot failure in pymol does not indicate a regression of the python 1.0 portgroup, but rather that pymol is not using a directive it should be using to disable this particular functionality of the python 1.0 portgroup. Pymol should probably have been using this directive all along, it just didn't result in a destroot failure until this change.

Ports using the python 1.0 portgroup install their files into deep directories within ${frameworks_dir}/Python.framework. This is inconvenient for users who want to run programs that those ports install. For this reason, when using python 2.6 or later, the python 1.0 portgroup by default creates symlinks to those programs and places them in ${prefix}/bin. Ports that do not want this behavior can set "python.link_binaries no".

Python module ports—those whose names begin with "py-", which install python modules that other programs written in python will use—usually have subports for multiple versions of python each, for example for 2.7 and 3.4. We want the user to be able to install these simultaneously, which would not be possible if they each installed the same files in the same locations. For this reason, when using python 2.6 or later, the python 1.0 portgroup by default appends a versioned suffix to the name of each symlink. Ports that do not want this behavior can set "python.link_binaries_suffix" to a different value, including the empty string if no suffix is desired.

Python application ports—those whose names do not begin with "py-", which install programs the user is expected to use directly, and which do not install modules usable by other python software—do not have subports and are only available for a specific version of python. Python application ports were previously expected to manually set "python.link_binaries_suffix" to the empty string. r126798 changes the python 1.0 portgroup to make that happen automatically.

Pymol is unusual in that it installs a wrapper script that users are expected to run. But the pymol port does not modify the default values of python.link_binaries or python.link_binaries_suffix. So prior to this change, an unwanted and unneeded symlink ${prefix}/bin/pymol-2.7 was being created which users were expected to ignore, and in addition the port was installing its own wrapper script at ${prefix}/bin/pymol which users were expected to use. After this change, the unwanted and unneeded symlink is being installed at ${prefix}/bin/pymol, thus preventing the pymol wrapper script from being installed there.

If the wrapper script is needed, then the solution is to instruct the python 1.0 portgroup to not create the symlink, by setting "python.link_binaries no". I have committed this change in r129465 because it matches the behavior of Jack's patch in comment:13 and #45721.

If the wrapper script is not needed, then the solution is to remove the wrapper script. Jack suggested this in #46218 so we can explore that option more there.

comment:22 Changed 17 months ago by miguelr@…

  • Cc miguelr@… added

Cc Me!

comment:23 Changed 17 months ago by miguelr@…

  • Cc miguelr@… removed

Cc Me!

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