From ale.notc at gmail.com Wed Dec 2 10:35:48 2015 From: ale.notc at gmail.com (Alessandro Bellini) Date: Wed, 2 Dec 2015 16:35:48 +0100 Subject: [MINC-users] Error while trying to use nu_correct Message-ID: Dear all, I've installed N3 in order to use nu_correct, but I have the following error: Can't locate MNI/Startup.pm in @INC (you may need to install the MNI::Startup module) (@INC contains: /etc/perl /usr/local/lib/perl/5.18.2 /usr/local/share/perl/5.18.2 /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.18 /usr/share/perl/5.18 /usr/local/lib/site_perl .) at /usr/local/bic/bin/nu_correct line 37. BEGIN failed--compilation aborted at /usr/local/bic/bin/nu_correct line 37. I need the MNI::Startup module but I'm not able find and install it! Thanks a lot Alessandro From a.janke at gmail.com Wed Dec 2 10:41:45 2015 From: a.janke at gmail.com (Andrew Janke) Date: Thu, 3 Dec 2015 01:41:45 +1000 Subject: [MINC-users] Error while trying to use nu_correct In-Reply-To: References: Message-ID: Hi Alessandro, You will need to install mni-perllib, you can find it here: https://github.com/BIC-MNI/mni-perllib a On 3 December 2015 at 01:35, Alessandro Bellini wrote: > Dear all, > I've installed N3 in order to use nu_correct, but I have the following > error: > > Can't locate MNI/Startup.pm in @INC (you may need to install the > MNI::Startup module) (@INC contains: /etc/perl /usr/local/lib/perl/5.18.2 > /usr/local/share/perl/5.18.2 /usr/lib/perl5 /usr/share/perl5 > /usr/lib/perl/5.18 /usr/share/perl/5.18 /usr/local/lib/site_perl .) at > /usr/local/bic/bin/nu_correct line 37. > BEGIN failed--compilation aborted at /usr/local/bic/bin/nu_correct line 37. > > I need the MNI::Startup module but I'm not able find and install it! > > Thanks a lot > > Alessandro > _______________________________________________ > MINC-users at bic.mni.mcgill.ca > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users From sorench at gmail.com Wed Dec 2 23:05:10 2015 From: sorench at gmail.com (Soren Christensen) Date: Wed, 2 Dec 2015 20:05:10 -0800 Subject: [MINC-users] building ITK with minc from release branch Message-ID: Hi, When configuring the ITK release branch for build I get the following message: * CMake Error at Modules/ThirdParty/MINC/src/libminc/CMakeLists.txt:344* * (EXPORT):* * export called with target "itkminc2" which requires target "itkhdf5_cpp"* * that is not in the export list.* * If the required target is not easy to reference in this call, consider* * using the APPEND option with multiple separate calls.* Does anyone know what the issue is here? Thanks! Soren From sean at rogue-research.com Thu Dec 3 12:31:40 2015 From: sean at rogue-research.com (Sean McBride) Date: Thu, 3 Dec 2015 12:31:40 -0500 Subject: [MINC-users] building ITK with minc from release branch In-Reply-To: References: Message-ID: <20151203173140.228980356@mail.rogue-research.com> On Wed, 2 Dec 2015 20:05:10 -0800, Soren Christensen said: > When configuring the ITK release branch for build I get the following >message: >* CMake Error at Modules/ThirdParty/MINC/src/libminc/CMakeLists.txt:344* >* (EXPORT):* >* export called with target "itkminc2" which requires target >"itkhdf5_cpp"* >* that is not in the export list.* > >* If the required target is not easy to reference in this call, consider* >* using the APPEND option with multiple separate calls.* > >Does anyone know what the issue is here? Not sure if it's your issue, but some ITK+MINC issues were recently fixed in ITK git master. You may be better working off the ITK master branch. Cheers, -- ____________________________________________________________ Sean McBride, B. Eng sean at rogue-research.com Rogue Research www.rogue-research.com Mac Software Developer Montr?al, Qu?bec, Canada From gdevenyi at gmail.com Thu Dec 3 17:59:54 2015 From: gdevenyi at gmail.com (Gabriel A. Devenyi) Date: Thu, 3 Dec 2015 17:59:54 -0500 Subject: [MINC-users] PyQC - Quality Control Helper Tool Message-ID: Hi minc-users, Just thought I'd share a small QC tool I built for use at CoBrA Lab at the CIC. It's a simple image viewer written in python/Qt5 which takes in a list of images and allows rating on a {1,0.5,0} quality control scale quickly using the numpad {1,2,3} keys. It produces a CSV with the filename and the rating upon save. We use it on the verify images produced by CIVET, QC images produced from MaGeTbrain segmentations and QC images from our preprocessing pipeline. Hopefully someone can find it useful! https://github.com/CobraLab/PyQC/releases/tag/1.0 -- Gabriel A. Devenyi B.Eng. Ph.D. Research Computing Associate Computational Brain Anatomy Laboratory Cerebral Imaging Center Douglas Mental Health University Institute McGill University t: 514.761.6131x4781 e: gdevenyi at gmail.com From ale.notc at gmail.com Fri Dec 4 03:16:01 2015 From: ale.notc at gmail.com (Alessandro Bellini) Date: Fri, 4 Dec 2015 09:16:01 +0100 Subject: [MINC-users] Error while trying to use nu_correct In-Reply-To: References: Message-ID: Thanks a lot! I have the following error while trying to instal mni.perlib [2]analisi at analisi-linux1 ~/Scaricati/mni-perllib-master $ make test PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM" "-e" "test_harness(0, 'blib/lib', 'blib/arch')" t/*.t t/checkdirs.t .... ok t/checkfiles.t ... ok t/datadir.t ...... ok t/mincutil.t ..... ok t/miscutil.t ..... Use of uninitialized value $host in regexp compilation at t/miscutil.t line 21. Use of uninitialized value $dir in regexp compilation at t/miscutil.t line 21. Use of uninitialized value $user in regexp compilation at t/miscutil.t line 22. Use of uninitialized value $dir in regexp compilation at t/miscutil.t line 22. Use of uninitialized value $user in regexp compilation at t/miscutil.t line 23. Use of uninitialized value $host in regexp compilation at t/miscutil.t line 23. t/miscutil.t ..... Failed 4/28 subtests t/numutil.t ...... ok t/pathutil.t ..... ok t/searchfiles.t .. ok t/spawn.t ........ Failed 10/56 subtests t/startup.t ...... Failed 6/26 subtests t/tag.t .......... ok t/tagset.t ....... ok Test Summary Report ------------------- t/miscutil.t (Wstat: 0 Tests: 28 Failed: 4) Failed tests: 3-6 t/spawn.t (Wstat: 0 Tests: 56 Failed: 10) Failed tests: 13-15, 19-25 t/startup.t (Wstat: 0 Tests: 26 Failed: 6) Failed tests: 18-20, 22-24 Files=12, Tests=346, 1 wallclock secs ( 0.08 usr 0.01 sys + 1.02 cusr 0.14 csys = 1.25 CPU) Result: FAIL Failed 3/12 test programs. 20/346 subtests failed. make: *** [test_dynamic] Error 255 Any suggestion? Thanks a lot! Alessandro 2015-12-02 16:41 GMT+01:00 Andrew Janke : > Hi Alessandro, > > You will need to install mni-perllib, you can find it here: > > https://github.com/BIC-MNI/mni-perllib > > > a > > > On 3 December 2015 at 01:35, Alessandro Bellini > wrote: > > Dear all, > > I've installed N3 in order to use nu_correct, but I have the following > > error: > > > > Can't locate MNI/Startup.pm in @INC (you may need to install the > > MNI::Startup module) (@INC contains: /etc/perl /usr/local/lib/perl/5.18.2 > > /usr/local/share/perl/5.18.2 /usr/lib/perl5 /usr/share/perl5 > > /usr/lib/perl/5.18 /usr/share/perl/5.18 /usr/local/lib/site_perl .) at > > /usr/local/bic/bin/nu_correct line 37. > > BEGIN failed--compilation aborted at /usr/local/bic/bin/nu_correct line > 37. > > > > I need the MNI::Startup module but I'm not able find and install it! > > > > Thanks a lot > > > > Alessandro > > _______________________________________________ > > MINC-users at bic.mni.mcgill.ca > > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > _______________________________________________ > MINC-users at bic.mni.mcgill.ca > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > From a.janke at gmail.com Fri Dec 4 05:16:20 2015 From: a.janke at gmail.com (Andrew Janke) Date: Fri, 4 Dec 2015 20:16:20 +1000 Subject: [MINC-users] Error while trying to use nu_correct In-Reply-To: References: Message-ID: Hi Alessandro, mni_perllib is very much a historical perl library that is not used in any new code. The tests in it depend on all sorts of interesting things like hostnames of old SGI machines from the BIC at the MNI in order to test job submission. I'm not up with the current version of the library on github as at one stage I put some effort into removing all such things. So, my suggestion would be to just install it as is and ignore the test failures. Did you use this process? $ perl Makefile.PL $ make $ make install Let us know if N3 won't run for you after it installs but my guess is the warnings can be ignored. a On 4 December 2015 at 18:16, Alessandro Bellini wrote: > Thanks a lot! > I have the following error while trying to instal mni.perlib > > [2]analisi at analisi-linux1 ~/Scaricati/mni-perllib-master $ make test > PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM" "-e" > "test_harness(0, 'blib/lib', 'blib/arch')" t/*.t > t/checkdirs.t .... ok > t/checkfiles.t ... ok > t/datadir.t ...... ok > t/mincutil.t ..... ok > t/miscutil.t ..... Use of uninitialized value $host in regexp compilation > at t/miscutil.t line 21. > Use of uninitialized value $dir in regexp compilation at t/miscutil.t line > 21. > Use of uninitialized value $user in regexp compilation at t/miscutil.t line > 22. > Use of uninitialized value $dir in regexp compilation at t/miscutil.t line > 22. > Use of uninitialized value $user in regexp compilation at t/miscutil.t line > 23. > Use of uninitialized value $host in regexp compilation at t/miscutil.t line > 23. > t/miscutil.t ..... Failed 4/28 subtests > t/numutil.t ...... ok > t/pathutil.t ..... ok > t/searchfiles.t .. ok > t/spawn.t ........ Failed 10/56 subtests > t/startup.t ...... Failed 6/26 subtests > t/tag.t .......... ok > t/tagset.t ....... ok > > Test Summary Report > ------------------- > t/miscutil.t (Wstat: 0 Tests: 28 Failed: 4) > Failed tests: 3-6 > t/spawn.t (Wstat: 0 Tests: 56 Failed: 10) > Failed tests: 13-15, 19-25 > t/startup.t (Wstat: 0 Tests: 26 Failed: 6) > Failed tests: 18-20, 22-24 > Files=12, Tests=346, 1 wallclock secs ( 0.08 usr 0.01 sys + 1.02 cusr > 0.14 csys = 1.25 CPU) > Result: FAIL > Failed 3/12 test programs. 20/346 subtests failed. > make: *** [test_dynamic] Error 255 > > Any suggestion? > Thanks a lot! > Alessandro > > 2015-12-02 16:41 GMT+01:00 Andrew Janke : > >> Hi Alessandro, >> >> You will need to install mni-perllib, you can find it here: >> >> https://github.com/BIC-MNI/mni-perllib >> >> >> a >> >> >> On 3 December 2015 at 01:35, Alessandro Bellini >> wrote: >> > Dear all, >> > I've installed N3 in order to use nu_correct, but I have the following >> > error: >> > >> > Can't locate MNI/Startup.pm in @INC (you may need to install the >> > MNI::Startup module) (@INC contains: /etc/perl /usr/local/lib/perl/5.18.2 >> > /usr/local/share/perl/5.18.2 /usr/lib/perl5 /usr/share/perl5 >> > /usr/lib/perl/5.18 /usr/share/perl/5.18 /usr/local/lib/site_perl .) at >> > /usr/local/bic/bin/nu_correct line 37. >> > BEGIN failed--compilation aborted at /usr/local/bic/bin/nu_correct line >> 37. >> > >> > I need the MNI::Startup module but I'm not able find and install it! >> > >> > Thanks a lot >> > >> > Alessandro >> > _______________________________________________ >> > MINC-users at bic.mni.mcgill.ca >> > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users >> _______________________________________________ >> MINC-users at bic.mni.mcgill.ca >> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users >> > _______________________________________________ > MINC-users at bic.mni.mcgill.ca > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users From sorench at gmail.com Thu Dec 10 15:00:58 2015 From: sorench at gmail.com (Soren Christensen) Date: Thu, 10 Dec 2015 12:00:58 -0800 Subject: [MINC-users] building ITK with minc from release branch In-Reply-To: <20151203173140.228980356@mail.rogue-research.com> References: <20151203173140.228980356@mail.rogue-research.com> Message-ID: Thanks for the suggestion. Same issue here unfortunately. Soren On Thu, Dec 3, 2015 at 9:31 AM, Sean McBride wrote: > On Wed, 2 Dec 2015 20:05:10 -0800, Soren Christensen said: > > > When configuring the ITK release branch for build I get the following > >message: > >* CMake Error at Modules/ThirdParty/MINC/src/libminc/CMakeLists.txt:344* > >* (EXPORT):* > >* export called with target "itkminc2" which requires target > >"itkhdf5_cpp"* > >* that is not in the export list.* > > > >* If the required target is not easy to reference in this call, > consider* > >* using the APPEND option with multiple separate calls.* > > > >Does anyone know what the issue is here? > > Not sure if it's your issue, but some ITK+MINC issues were recently fixed > in ITK git master. You may be better working off the ITK master branch. > > Cheers, > > -- > ____________________________________________________________ > Sean McBride, B. Eng sean at rogue-research.com > Rogue Research www.rogue-research.com > Mac Software Developer Montr?al, Qu?bec, Canada > > > From zijdenbos at gmail.com Tue Dec 15 14:32:20 2015 From: zijdenbos at gmail.com (Alex Zijdenbos) Date: Tue, 15 Dec 2015 14:32:20 -0500 Subject: [MINC-users] ANTs/NifTI spatial transforms Message-ID: Hi all, I walked into a bunch of spatial transforms generated by ANTs (.mat/.nii pairs). Any chance that somebody has a conversion routine lying around that can convert these to .xfm/grid.mnc? Thanks, -- A From andrew at biospective.com Fri Dec 18 19:04:55 2015 From: andrew at biospective.com (Andrew Wood) Date: Fri, 18 Dec 2015 19:04:55 -0500 Subject: [MINC-users] Building minc-toolkit-v2 Message-ID: Hi all, I've been having trouble getting the master branch of minc-toolkit-v2 to build. Here's my output: $ make ... [ 9%] Built target minc_image_proc make[5]: *** No rule to make target `/data/RnD/Andrew/Src/minc-toolkit-v2/build_prod/external/usr/local/lib/libgsl.a', needed by `mincnlm/minc_anlm'. Stop. make[4]: *** [mincnlm/CMakeFiles/minc_anlm.dir/all] Error 2 make[3]: *** [all] Error 2 make[2]: *** [EZMINC-prefix/src/EZMINC-stamp/EZMINC-build] Error 2 make[1]: *** [CMakeFiles/EZMINC.dir/all] Error 2 make: *** [all] Error 2 I guess it's crashing when it goes looking for libgsl. It looks a little suspicious that my GSL build directory is empty: $ ls GSL/ # nothing I'm on Ubuntu 12.04. Does anyone have any idea about what I need to fix the build? Thanks, Andrew From robert.d.vincent at mcgill.ca Fri Dec 18 20:55:51 2015 From: robert.d.vincent at mcgill.ca (Robert D. Vincent) Date: Fri, 18 Dec 2015 20:55:51 -0500 Subject: [MINC-users] Building minc-toolkit-v2 In-Reply-To: References: Message-ID: Hi Andrew, I just checked out and built the master branch on Ubuntu 12.04, so there must be something in particular about your options or setup. Were you working from a clean build directory? -bert On Fri, Dec 18, 2015 at 7:04 PM, Andrew Wood wrote: > Hi all, > > I've been having trouble getting the master branch of minc-toolkit-v2 to > build. Here's my output: > > $ make > ... > [ 9%] Built target minc_image_proc > make[5]: *** No rule to make target > > `/data/RnD/Andrew/Src/minc-toolkit-v2/build_prod/external/usr/local/lib/libgsl.a', > needed by `mincnlm/minc_anlm'. Stop. > make[4]: *** [mincnlm/CMakeFiles/minc_anlm.dir/all] Error 2 > make[3]: *** [all] Error 2 > make[2]: *** [EZMINC-prefix/src/EZMINC-stamp/EZMINC-build] Error 2 > make[1]: *** [CMakeFiles/EZMINC.dir/all] Error 2 > make: *** [all] Error 2 > > I guess it's crashing when it goes looking for libgsl. It looks a little > suspicious that my GSL build directory is empty: > > $ ls GSL/ > # nothing > > I'm on Ubuntu 12.04. Does anyone have any idea about what I need to fix the > build? > > Thanks, > Andrew > _______________________________________________ > MINC-users at bic.mni.mcgill.ca > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > From andrew at biospective.com Fri Dec 18 22:12:37 2015 From: andrew at biospective.com (Andrew Wood) Date: Fri, 18 Dec 2015 22:12:37 -0500 Subject: [MINC-users] Building minc-toolkit-v2 In-Reply-To: References: Message-ID: Hi Bert, Here's my cmake command in a fresh build directory (my cmake version 2.8.12.2 wasn't new enough, so I upgraded in /opt and called it directly - any chance that's a problem): $ /opt/cmake/cmake-3.3.2-Linux-i386/bin/cmake -DCMAKE_BUILD_TYPE:STRING=Release -DMT_BUILD_VISUAL_TOOLS:BOOL=ON -DMT_BUILD_ITK_TOOLS:BOOL=ON .. - Andrew On Fri, Dec 18, 2015 at 8:55 PM, Robert D. Vincent < robert.d.vincent at mcgill.ca> wrote: > Hi Andrew, > > I just checked out and built the master branch on Ubuntu 12.04, so there > must be something in particular about your options or setup. Were you > working from a clean build directory? > > -bert > > On Fri, Dec 18, 2015 at 7:04 PM, Andrew Wood > wrote: > > > Hi all, > > > > I've been having trouble getting the master branch of minc-toolkit-v2 to > > build. Here's my output: > > > > $ make > > ... > > [ 9%] Built target minc_image_proc > > make[5]: *** No rule to make target > > > > > `/data/RnD/Andrew/Src/minc-toolkit-v2/build_prod/external/usr/local/lib/libgsl.a', > > needed by `mincnlm/minc_anlm'. Stop. > > make[4]: *** [mincnlm/CMakeFiles/minc_anlm.dir/all] Error 2 > > make[3]: *** [all] Error 2 > > make[2]: *** [EZMINC-prefix/src/EZMINC-stamp/EZMINC-build] Error 2 > > make[1]: *** [CMakeFiles/EZMINC.dir/all] Error 2 > > make: *** [all] Error 2 > > > > I guess it's crashing when it goes looking for libgsl. It looks a little > > suspicious that my GSL build directory is empty: > > > > $ ls GSL/ > > # nothing > > > > I'm on Ubuntu 12.04. Does anyone have any idea about what I need to fix > the > > build? > > > > Thanks, > > Andrew > > _______________________________________________ > > MINC-users at bic.mni.mcgill.ca > > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > > > _______________________________________________ > MINC-users at bic.mni.mcgill.ca > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > From robert.d.vincent at mcgill.ca Sat Dec 19 08:31:08 2015 From: robert.d.vincent at mcgill.ca (Robert D. Vincent) Date: Sat, 19 Dec 2015 08:31:08 -0500 Subject: [MINC-users] Building minc-toolkit-v2 In-Reply-To: References: Message-ID: Hi Andrew, I encounter errors similar to yours when I enable MT_BUILD_ITK_TOOLS. It works fine if just enable the visual tools. -bert On Fri, Dec 18, 2015 at 10:12 PM, Andrew Wood wrote: > Hi Bert, > > Here's my cmake command in a fresh build directory (my cmake version > 2.8.12.2 wasn't new enough, so I upgraded in /opt and called it directly - > any chance that's a problem): > > $ /opt/cmake/cmake-3.3.2-Linux-i386/bin/cmake > -DCMAKE_BUILD_TYPE:STRING=Release -DMT_BUILD_VISUAL_TOOLS:BOOL=ON > -DMT_BUILD_ITK_TOOLS:BOOL=ON .. > > - Andrew > > On Fri, Dec 18, 2015 at 8:55 PM, Robert D. Vincent < > robert.d.vincent at mcgill.ca> wrote: > > > Hi Andrew, > > > > I just checked out and built the master branch on Ubuntu 12.04, so there > > must be something in particular about your options or setup. Were you > > working from a clean build directory? > > > > -bert > > > > On Fri, Dec 18, 2015 at 7:04 PM, Andrew Wood > > wrote: > > > > > Hi all, > > > > > > I've been having trouble getting the master branch of minc-toolkit-v2 > to > > > build. Here's my output: > > > > > > $ make > > > ... > > > [ 9%] Built target minc_image_proc > > > make[5]: *** No rule to make target > > > > > > > > > `/data/RnD/Andrew/Src/minc-toolkit-v2/build_prod/external/usr/local/lib/libgsl.a', > > > needed by `mincnlm/minc_anlm'. Stop. > > > make[4]: *** [mincnlm/CMakeFiles/minc_anlm.dir/all] Error 2 > > > make[3]: *** [all] Error 2 > > > make[2]: *** [EZMINC-prefix/src/EZMINC-stamp/EZMINC-build] Error 2 > > > make[1]: *** [CMakeFiles/EZMINC.dir/all] Error 2 > > > make: *** [all] Error 2 > > > > > > I guess it's crashing when it goes looking for libgsl. It looks a > little > > > suspicious that my GSL build directory is empty: > > > > > > $ ls GSL/ > > > # nothing > > > > > > I'm on Ubuntu 12.04. Does anyone have any idea about what I need to fix > > the > > > build? > > > > > > Thanks, > > > Andrew > > > _______________________________________________ > > > MINC-users at bic.mni.mcgill.ca > > > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > > > > > _______________________________________________ > > MINC-users at bic.mni.mcgill.ca > > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > > > _______________________________________________ > MINC-users at bic.mni.mcgill.ca > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > From andrew at biospective.com Sat Dec 19 09:10:10 2015 From: andrew at biospective.com (Andrew Wood) Date: Sat, 19 Dec 2015 09:10:10 -0500 Subject: [MINC-users] Building minc-toolkit-v2 In-Reply-To: References: Message-ID: Hi Bert, I'm actually trying to find the right flags to get EZminc to build. I'm specifically after the itk_convert_xfm tool. Thanks, Andrew On Sat, Dec 19, 2015 at 8:31 AM, Robert D. Vincent < robert.d.vincent at mcgill.ca> wrote: > Hi Andrew, > > I encounter errors similar to yours when I enable MT_BUILD_ITK_TOOLS. It > works fine if just enable the visual tools. > > -bert > > On Fri, Dec 18, 2015 at 10:12 PM, Andrew Wood > wrote: > > > Hi Bert, > > > > Here's my cmake command in a fresh build directory (my cmake version > > 2.8.12.2 wasn't new enough, so I upgraded in /opt and called it directly > - > > any chance that's a problem): > > > > $ /opt/cmake/cmake-3.3.2-Linux-i386/bin/cmake > > -DCMAKE_BUILD_TYPE:STRING=Release -DMT_BUILD_VISUAL_TOOLS:BOOL=ON > > -DMT_BUILD_ITK_TOOLS:BOOL=ON .. > > > > - Andrew > > > > On Fri, Dec 18, 2015 at 8:55 PM, Robert D. Vincent < > > robert.d.vincent at mcgill.ca> wrote: > > > > > Hi Andrew, > > > > > > I just checked out and built the master branch on Ubuntu 12.04, so > there > > > must be something in particular about your options or setup. Were you > > > working from a clean build directory? > > > > > > -bert > > > > > > On Fri, Dec 18, 2015 at 7:04 PM, Andrew Wood > > > wrote: > > > > > > > Hi all, > > > > > > > > I've been having trouble getting the master branch of minc-toolkit-v2 > > to > > > > build. Here's my output: > > > > > > > > $ make > > > > ... > > > > [ 9%] Built target minc_image_proc > > > > make[5]: *** No rule to make target > > > > > > > > > > > > > > `/data/RnD/Andrew/Src/minc-toolkit-v2/build_prod/external/usr/local/lib/libgsl.a', > > > > needed by `mincnlm/minc_anlm'. Stop. > > > > make[4]: *** [mincnlm/CMakeFiles/minc_anlm.dir/all] Error 2 > > > > make[3]: *** [all] Error 2 > > > > make[2]: *** [EZMINC-prefix/src/EZMINC-stamp/EZMINC-build] Error 2 > > > > make[1]: *** [CMakeFiles/EZMINC.dir/all] Error 2 > > > > make: *** [all] Error 2 > > > > > > > > I guess it's crashing when it goes looking for libgsl. It looks a > > little > > > > suspicious that my GSL build directory is empty: > > > > > > > > $ ls GSL/ > > > > # nothing > > > > > > > > I'm on Ubuntu 12.04. Does anyone have any idea about what I need to > fix > > > the > > > > build? > > > > > > > > Thanks, > > > > Andrew > > > > _______________________________________________ > > > > MINC-users at bic.mni.mcgill.ca > > > > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > > > > > > > _______________________________________________ > > > MINC-users at bic.mni.mcgill.ca > > > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > > > > > _______________________________________________ > > MINC-users at bic.mni.mcgill.ca > > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users > > > _______________________________________________ > MINC-users at bic.mni.mcgill.ca > http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users >