Hi Loris,
The "error" seems to be somewhat expected, in my log it's followed by the following: == 2020-03-12 11:57:32,550 github.py:427 WARNING Ignoring problem that occured when applying PR patch: u"Can't determine patch level for patch /tmp/eb-VOiAyu/files_pr9620/9620.diff from directory /tmp/eb-VOiAyu/tmp3yaMTD/easybuilders/easybuild-easyconfigs-develop" == 2020-03-12 11:57:32,551 github.py:440 INFO Downloading o/OpenMM/OpenMM-7.4.1-fosscuda-2019b-Python-3.7.4.eb from https://raw.githubusercontent.com/easybuilders/easybuild-easyconfigs/bcee7910e9425801246f3edebd5fd0a152bb3649/easybuild/easyconfigs/o/OpenMM/OpenMM-7.4.1-fosscuda-2019b -Python-3.7.4.eb That is, it tries to apply the PR as a patch, but as a fallback it retrieves individual files into the tree instead. It's quite likely that the retrieval step worked fine despite the "error" and there's other problems further down. Please look for other errors and identify at which step it seems to fail. // Lars ________________________________ From: [email protected] <[email protected]> on behalf of Loris Bennett <[email protected]> Sent: Thursday, March 12, 2020 9:39:47 AM To: [email protected] Subject: Re: [easybuild] Error building fosscuda version of OpenMM Hi Lars, Lars Viklund <[email protected]> writes: > Hi, > > When something using `make` fails with something like your "Error 2" the > actual > error is way earlier in the log as the whole tail is Make propagating the > error > state up through the invocations. The path fragment you mention is indeed from > truncation, the "first 300 chars" thing is mostly to give you bit of context > to > what's wrong, you need to look at the actual logged information to see what's > up. > > Is that CUDA_SDK_ROOT_DIR really supposed to point into that part of the CUDA > SDK tree as you cite it? That was a bit of a shot in the dark. I found the suggestion here: https://github.com/PixarAnimationStudios/OpenSubdiv/issues/616 [https://avatars0.githubusercontent.com/u/1672744?s=400&v=4]<https://github.com/PixarAnimationStudios/OpenSubdiv/issues/616> cmake fails to set CUDA_TOOLKIT_ROOT_DIR · Issue #616 · PixarAnimationStudios/OpenSubdiv · GitHub<https://github.com/PixarAnimationStudios/OpenSubdiv/issues/616> github.com As mentioned in #472, the variable, CUDA_SDK_ROOT_DIR doesn't get set for Linux users using cmake even though it does find Cuda. On Linux ( Ubuntu 14.04.1 ) this variable doesn't get automatically set during installation of Cuda ( like i... but it didn't make much sense to me either. > Please note that there's an open pull request currently for exactly the > version > you're trying to build, I've built it successfully on my system with a > development EasyBuild installation. > > https://github.com/easybuilders/easybuild-easyconfigs/pull/9620 [https://avatars3.githubusercontent.com/u/29568382?s=400&v=4]<https://github.com/easybuilders/easybuild-easyconfigs/pull/9620> {bio}[fosscuda/2019b] OpenMM v7.4.1 w/ Python 3.7.4 by boegel · Pull Request #9620 · easybuilders/easybuild-easyconfigs · GitHub<https://github.com/easybuilders/easybuild-easyconfigs/pull/9620> github.com (created using eb --new-pr) requires #9613 (OpenMM patch) Thanks for the link. I tried the PR, but fails with the following as the first error: == 2020-03-12 08:00:26,578 build_log.py:169 ERROR EasyBuild crashed with an error (at easybuild/software/EasyBuild/4.1.1/lib/python2.7/site-packages/easybuild/base/exceptions.py:124 in __init__): Can't determine patch level for patch /tmp/eb-ER72Yd/files_pr9620/9620.diff from directory /tmp/eb-ER72Yd/tmpJ3tyjg/easybuilders/easybuild-easyconfigs-develop (at easybuild/software/EasyBuild/4.1.1/lib/python2.7/site-packages/easybuild/tools/filetools.py:1058 in apply_patch) Does that mean anything to you? Cheers, Loris > // Lars > > On 2020-03-11 15:28, Loris Bennett wrote: >> Hi, >> >> I'm trying to build a GPU-enabled version of OpenMM. Starting with >> >> OpenMM-7.4.1-foss-2019b-Python-3.7.4 >> >> (which built fine) I changed the toolchain to 'fosscuda' and added >> >> configopts = "-DOPENMM_BUILD_CUDA_LIB=ON >> -DCUDA_SDK_ROOT_DIR=$CUDA_HOME/extras/CUPTI/samples" >> >> The build then fails with: >> >> [ 57%] Built target OpenMMCUDA >> make[1]: Leaving directory >> `/trinity/shared/easybuild/build/OpenMM/7.4.1/fosscuda-2019b-Python-3.7.4/easybuild_obj' >> make: *** [all] Error 2 >> (at >> easybuild/software/EasyBuild/4.1.1/lib/python2.7/site-packages/easybuild/tools/run.py:529 >> in parse_cmd_output) >> == 2020-03-11 10:50:31,848 easyblock.py:3109 WARNING build failed (first >> 300 chars): cmd " make -j 20 " exited with exit code 2 and output: >> /trinity/shared/easybuild/software/CMake/3.15.3-GCCcore-8.3.0/bin/cmake >> -S/trinity/shared/easybuild/build/OpenMM/7.4.1/fosscuda-2019b-Python-3.7.4/openmm-7.4.1 >> >> -B/trinity/shared/easybuild/build/OpenMM/7.4.1/fosscuda-2019b-Python-3.7.4/easybuild_ >> == 2020-03-11 10:50:31,848 easyblock.py:295 INFO Closing log for >> application name OpenMM version 7.4.1 >> == 2020-03-11 10:50:31,849 build_log.py:265 INFO FAILED: Installation >> ended unsuccessfully (build directory: >> /trinity/shared/easybuild/build/OpenMM/7.4.1/fosscuda-2019b-Python-3.7.4): >> build failed (first 300 chars): cmd " make -j 20 " exited with exit code 2 >> and output: >> /trinity/shared/easybuild/software/CMake/3.15.3-GCCcore-8.3.0/bin/cmake >> -S/trinity/shared/easybuild/build/OpenMM/7.4.1/fosscuda-2019b-Python-3.7.4/openmm-7.4.1 >> >> -B/trinity/shared/easybuild/build/OpenMM/7.4.1/fosscuda-2019b-Python-3.7.4/easybuild_ >> (took 2 min 16 sec) >> == 2020-03-11 10:50:31,849 build_log.py:265 INFO Results of the build can >> be found in the log file(s) >> /tmp/eb-KFw1Uj/easybuild-OpenMM-7.4.1-20200311.104815.vsMFt.log >> == 2020-03-11 10:50:31,850 build_log.py:169 ERROR EasyBuild crashed with >> an error (at >> easybuild/software/EasyBuild/4.1.1/lib/python2.7/site-packages/easybuild/base/exceptions.py:124 >> in __init__): build failed (first 300 chars): cmd " make -j 20 " exited >> with exit code 2 and output: >> /trinity/shared/easybuild/software/CMake/3.15.3-GCCcore-8.3.0/bin/cmake >> -S/trinity/shared/easybuild/build/OpenMM/7.4.1/fosscuda-2019b-Python-3.7.4/openmm-7.4.1 >> >> -B/trinity/shared/easybuild/build/OpenMM/7.4.1/fosscuda-2019b-Python-3.7.4/easybuild_ >> (at >> easybuild/software/EasyBuild/4.1.1/lib/python2.7/site-packages/easybuild/main.py:116 >> in build_and_install_software) >> >> Is the reference to >> >> easybuild_ >> >> real and therefore something to do with the actual error, or has the >> path just fallen victim to some form of truncation? >> >> Either way, does anyone have an idea about what the problem is? >> >> Cheers, >> >> Loris >> > -- Dr. Loris Bennett (Mr.) ZEDAT, Freie Universität Berlin Email [email protected]
