Rosetta on ARM64 with latest glibc crashes?

Message boards : Number crunching : Rosetta on ARM64 with latest glibc crashes?

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CallMeFoxie

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Message 99552 - Posted: 3 Nov 2020, 21:19:00 UTC

Hi

I've built a small closed linux that contains pretty much only glibc and boinc and it seems that Rosetta crashes for no reasonable reason:

<stderr_out>
<![CDATA[
<message>
process exited with code 193 (0xc1, -63)</message>
<stderr_txt>
command: ../../projects/boinc.bakerlab.org_rosetta/rosetta_4.20_aarch64-unknown-linux-gnu -abinitio::fastrelax 1 -ex2aro 1 -frag3 00001.200.3mers.index -in:file:native 00001.pdb -silent_gz 1 -frag9 00001.200.9mers.index -out:file:silent default.out -ex1 1 -abinitio::rsd_wt_loop 0.5 -relax::default_repeats 5 -abinitio::use_filters false -abinitio::increase_cycles 10 -abinitio::rsd_wt_helix 0.5 -beta 1 -abinitio::rg_reweight 0.5 -in:file:boinc_wu_zip enni5406_data.zip -out:file:silent default.out -silent_gz -mute all -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 2346184
SIGSEGV: segmentation violation
Stack trace (14 frames):
[0x74249a4]
linux-vdso.so.1(__kernel_rt_sigreturn+0x0)[0xffff97dc67bc]
/lib64/libc.so.6(__libc_malloc+0x6c)[0xffff9721b72c]
/lib64/libc.so.6(+0x61a28)[0xffff97205a28]
/lib64/libc.so.6(__nss_files_fopen+0x18)[0xffff97293a88]
/lib64/libnss_files.so.2(_nss_files_getpwuid_r+0x38)[0xffff973e55fc]
[0x757f84c]
[0x757f5e8]
[0x70bb020]
[0x49f4ffc]
[0x49f7b3c]
[0x4061f4]
[0x753db74]
[0x68cd68]

Exiting...

</stderr_txt>
]]>
</stderr_out>


any ideas? This is compiled against glibc 2.32 and gcc 10.2.0.

TN-Grid crunches fine.

Thanks
Ashley
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CallMeFoxie

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Message 99587 - Posted: 6 Nov 2020, 9:07:50 UTC

Well in an unexpected turn of events adding 32bit armhf glibc + libgcc and upgrading kernel 5.9.1 -> 5.9.5 and the process has been running for over 6 minutes, previously it crashed in 6 seconds... What? :)
ID: 99587 · Rating: 0 · rate: Rate + / Rate - Report as offensive    Reply Quote

Message boards : Number crunching : Rosetta on ARM64 with latest glibc crashes?



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