Half of tasks fail with ERROR: FragmentIO: could not open file 00001.500.6mers

Questions and Answers : Unix/Linux : Half of tasks fail with ERROR: FragmentIO: could not open file 00001.500.6mers

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MrFinn741

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Message 101034 - Posted: 3 Apr 2021, 14:35:04 UTC

Hello

I have Boinc running in a VM on my Unraid server and roughly half of the tasks fail with this error within 3s of runtime. Is this something I can do anything about or is it a project/task wide problem?

<core_client_version>7.6.31</core_client_version>
<![CDATA[
<message>
process exited with code 1 (0x1, -255)
</message>
<stderr_txt>
command: ../../projects/boinc.bakerlab.org_rosetta/rosetta_4.20_x86_64-pc-linux-gnu -fragA 00001.500.6mers -fragB 00001.500.4mers -in:file:fasta 00001.fasta -abinitio::increase_cycles 10 -mute all -abinitio::fastrelax -relax::default_repeats 15 -abinitio::rsd_wt_helix 0.5 -abinitio::rsd_wt_loop 0.5 -abinitio::use_filters false -ex1 -ex2aro -in:file:boinc_wu_zip cp_hxFTHQBy_YABA_AAA_AA_BAAAYABAAA_Y_CGGGGCGGGCGGCGGGGGGGGGGCGC_1-4_2-6_3-5.pdb_0001_abinitio_1_fold_data.zip -out:file:silent default.out -silent_gz -in:file:native 00001.pdb -out:file:silent_struct_type binary -detect_disulf true -fix_disulf disulf -constraints::cst_file CB_cst -constraints:cst_weight 1 -number_9mer_frags 150 -number_3mer_frags 150 -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 1734214
Using database: database_357d5d93529_n_methyl/minirosetta_database

ERROR: ERROR: FragmentIO: could not open file 00001.500.6mers
ERROR:: Exit from: src/core/fragment/FragmentIO.cc line: 233
BOINC:: Error reading and gzipping output datafile: default.out
14:09:30 (16574): called boinc_finish(1)

</stderr_txt>
]]>
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Brian Nixon

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Message 101036 - Posted: 3 Apr 2021, 15:12:44 UTC - in response to Message 101034.  

It’s not just you; many people are reporting this issue. Seems to be a bad batch of work units. There’s nothing we can do about it. A large number of tasks got pulled from the server earlier today, so it’s possible the problem is already resolved.
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Владимир

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Message 101112 - Posted: 7 Apr 2021, 6:42:27 UTC

I got the same errors too. Many tasks end up with just this error: "ERROR: ERROR: FragmentIO: could not open file 00001.500.6mers …"
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Questions and Answers : Unix/Linux : Half of tasks fail with ERROR: FragmentIO: could not open file 00001.500.6mers



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