Opened 10 years ago

Closed 10 years ago

Last modified 10 years ago

#25102 closed defect (worksforme)

Building "afni" failed

Reported by: frenchja@… Owned by: nerdling (Jeremy Lavergne)
Priority: Normal Milestone:
Component: ports Version: 1.8.2
Keywords: Cc:
Port: afni


After the previous ticket was closed, I ran a sudo port sync && sudo port clean && sudo port install afni.

sudo port install afni
Portfile changed since last build; discarding previous state.
--->  Computing dependencies for afni
--->  Fetching afni
--->  Verifying checksum(s) for afni
--->  Extracting afni
--->  Applying patches to afni
--->  Configuring afni
--->  Building afni
Error: Target returned: shell command " cd "/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_science_afni/work/AFNI_2009_12_31_1431" && /usr/bin/make -j2 all plugins " returned error 2
Command output: /usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_ratqr.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rebak.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rebakb.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_reduc.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_reduc2.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rg.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rgg.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rs.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rsb.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rsg.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rsgab.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rsgba.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rsm.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rsp.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rst.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_rt.c
/usr/bin/gcc-4.2 -m64 -O0 -no-cpp-precomp -DFUNCNAME=svd_slow_ -c eis_svd.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_svd.c
mv -f eis_svd.o eis_svd_slow.o
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_tinvit.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_tql1.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_tql2.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_tqlrat.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_trbak1.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_trbak3.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_tred1.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_tred2.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_tred3.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_tridib.c
/usr/bin/gcc-4.2 -O3 -ftree-vectorize -ffast-math -DDARWIN -m64 -Wcomment -Wformat -DUSE_TRACING -DHAVE_XDBE -no-cpp-precomp -DDONT_USE_MCW_MALLOC  -c eis_tsturm.c

Error: Status 1 encountered during processing.
Before reporting a bug, first run the command again with the -d flag to get complete output.

Attachments (1)

afni.log.bz2 (4.0 KB) - added by frenchja@… 10 years ago.
afni Debug Output

Download all attachments as: .zip

Change History (6)

comment:1 Changed 10 years ago by jmroot (Joshua Root)

Keywords: afni removed
Owner: changed from macports-tickets@… to snc@…
Summary: Installing "afni"Building "afni" failed

Please remember to cc the maintainer.

comment:2 in reply to:  description Changed 10 years ago by nerdling (Jeremy Lavergne)

Replying to frenchja@…:

Before reporting a bug, first run the command again with the -d flag to get complete output.

What you posted doesn't contain the error, I need you to rerun the build with the debug flag on. The code below will:

  • clean the old build
  • start a new debug build
  • copy the messages to a file in your home directory
  • compresses the file for easy uploading
sudo port clean afni
sudo port -d build afni 2>&1 | tee ~/afni.log
tar cjf ~/afni.log.bz2 ~/afni.log

Changed 10 years ago by frenchja@…

Attachment: afni.log.bz2 added

afni Debug Output

comment:3 Changed 10 years ago by nerdling (Jeremy Lavergne)

The output you attached says the checksum was incorrect on the distribution files. Looks like both your checksum and the portfile's checksums are out of date.

They're doing silent changes to the source files :( and apparently many of them.

You can override the checksum presently by putting the appropriate lines from sudo port -d checksum afni into the portfile with sudo port edit afni.

comment:4 Changed 10 years ago by nerdling (Jeremy Lavergne)

Resolution: worksforme
Status: newclosed

No update, and afni has sense been updated.

comment:5 Changed 10 years ago by nerdling (Jeremy Lavergne)

since, even.

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