apbs: fatal error: 'Eigen/Core' file not found

[summers@…]

Attempted to upgrade apbs; El Capitan 10.11.2 Beta (15C31f); MacBook Pro Late 2013

--->  Building apbs
Error: org.macports.build for port apbs returned: command execution failed
Please see the log file for port apbs for details:
    /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_tarballs_ports_science_apbs/apbs/main.log
Error: Unable to upgrade port: 1

[summers@…]

main.log

[howarth.at.macports@…]

The previous commit to update apbs to 1.4.1 should be reverted until this is fixed.

[dstrubbe (David Strubbe)]

Fixed by disabling parallel build, r142365. See also ticket #49058.

[howarth.at.macports@…]

The build still fails here with...

[  1%] Building CXX object src/geoflow/CMakeFiles/apbs_geoflow.dir/cpbconcz2.cpp.o
cd /opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work/apbs-pdb2pqr-d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow && /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang++    -fpermissive -DNDEBUG -arch x86_64 -mmacosx-version-min=10.11 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work/apbs-pdb2pqr-d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src    -std=c++0x -o CMakeFiles/apbs_geoflow.dir/cpbconcz2.cpp.o -c /opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work/apbs-pdb2pqr-d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow/cpbconcz2.cpp
In file included from /opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work/apbs-pdb2pqr-d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow/cpbconcz2.cpp:65:
In file included from /opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work/apbs-pdb2pqr-d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow/modules.h:60:
/opt/local/var/macports/build/_opt_local_var_macports_sources_svn.macports.org_trunk_dports_science_apbs/apbs/work/apbs-pdb2pqr-d4e78c62e6a07f92c26924318d83a159fa6af063/apbs/src/geoflow/Mat.h:60:10: fatal error: 'Eigen/Core' file not found
#include <Eigen/Core>
         ^
1 error generated.
make[2]: *** [src/geoflow/CMakeFiles/apbs_geoflow.dir/cpbconcz2.cpp.o] Error 1

The following change...

--- Portfile.orig       2015-11-10 13:00:50.000000000 -0500
+++ Portfile    2015-11-10 13:02:17.000000000 -0500
@@ -43,7 +43,9 @@
 #  get_filename_component called with incorrect number of arguments
 # To enable, need not only to fix that check, but also fix configure in tapipb directory to use chosen FC compiler.
 configure.args-append   -DENABLE_OPENMP:BOOL=OFF \
-                        -DENABLE_BEM=OFF
+                        -DENABLE_BEM=OFF \
+                        -DCMAKE_C_COMPILER_ARG1:STRING="-I${worksrcpath}/include" \
+                        -DCMAKE_CXX_COMPILER_ARG1:STRING="-I${worksrcpath}/include"
 
 test.run  yes
 test {

[howarth.at.macports@…]

Portfile diff to help build find bundled headers

[raimue (Rainer Müller)]

Patch committed in r142371.

[dstrubbe (David Strubbe)]

Cc Me!