Hi Alexandre, Segmentation fault is… unexpected to say the least. A couple of things I’m curious about here:
1) Does this happen consistently on the same stage if you try again? 2) What kind of hardware does this run on? There is the possibility that you are running out of memory, but that seems odd to happen during testing. There might be something more useful in the log file, and dmesg might say something if we are seeing memory pressure. Other than that I’d probably try to build on /tmp to see if that changes anything. On 24 Jan 2022, at 22:25, Strube, Alexandre <[email protected]<mailto:[email protected]>> wrote: Hi, I get this at the end of 3 hours of R make[1]: Leaving directory '/dev/shm/strube1/juwelsbooster/R/4.1.2/gcccoremkl-11.2.0-2021.4.0/rgl/rgl/src/useNULL' installing to /p/project/ccstao/cstao05/easybuild_hard/juwelsbooster/software/R/4.1.2-gcccoremkl-11.2.0-2021.4.0/lib64/R/library/00LOCK-rgl/00new/rgl/libs ** R ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location sh: line 1: 30109 Segmentation fault R_TESTS= '/p/project/ccstao/cstao05/easybuild/juwelsbooster/software/R/4.1.2-gcccoremkl-11.2.0-2021.4.0/lib64/R/bin/R' --no-save --no-restore --no-echo 2>&1 < '/tmp/eb-uw4uv1em/RtmpWzB0Zp/file68e16ce6d926' ERROR: loading failed (at easybuild/tools/run.py:618 in parse_cmd_output) == 2022-01-24 22:19:39,096 build_log.py:265 INFO ... (took 1 min 26 secs) == 2022-01-24 22:19:39,099 build_log.py:265 INFO ... (took 3 hours 8 mins 51 secs) == 2022-01-24 22:19:39,101 filetools.py:1976 INFO Removing lock /p/project/ccstao/cstao05/easybuild/juwelsbooster/software/.locks/_p_project_ccstao_cstao05_easybuild_juwelsbooster_software_R_4.1.2-gcccoremkl-11.2.0-2021.4.0.lock... == 2022-01-24 22:19:39,545 filetools.py:380 INFO Path /p/project/ccstao/cstao05/easybuild/juwelsbooster/software/.locks/_p_project_ccstao_cstao05_easybuild_juwelsbooster_software_R_4.1.2-gcccoremkl-11.2.0-2021.4.0.lock successfully removed. == 2022-01-24 22:19:39,546 filetools.py:1980 INFO Lock removed: /p/project/ccstao/cstao05/easybuild/juwelsbooster/software/.locks/_p_project_ccstao_cstao05_easybuild_juwelsbooster_software_R_4.1.2-gcccoremkl-11.2.0-2021.4.0.lock == 2022-01-24 22:19:39,546 easyblock.py:4032 WARNING build failed (first 300 chars): cmd " R CMD INSTALL /dev/shm/strube1/juwelsbooster/R/4.1.2/gcccoremkl-11.2.0-2021.4.0/rgl/rgl --library=/p/project/ccstao/cstao05/easybuild/juwelsbooster/software/R/4.1.2-gcccoremkl-11.2.0-2021.4.0/lib64/R/library --no-clean-on-error " exited with exit code 1 and output: * installing *source* pack == 2022-01-24 22:19:39,546 easyblock.py:318 INFO Closing log for application name R version 4.1.2 -- Terje Kvernes Driftsansvarlig Matematisk Institutt Universitetet i Oslo
