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alekseyzimin / masurca

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mega-reads joining failed #174

Open jhcaddisfly opened 4 years ago

jhcaddisfly commented 4 years ago

Hi,

I was running an assembly with ONT and illumina data but it failed:

[Mon May 25 18:07:54 MDT 2020] Refining alignments Warning: unable to close filehandle properly: Input/output error, line 9448 during global destruction. xargs: refine.sh: exited with status 255; aborting Warning: unable to close filehandle properly: Input/output error, line 9448 during global destruction. xargs: refine.sh: exited with status 255; aborting [Mon May 25 22:41:51 MDT 2020] Joining awk: cmd. line:1: fatal: cannot open file `mr.41.15.15.0.02.all.txt' for reading (No such file or directory) [Mon May 25 22:41:51 MDT 2020] mega-reads joining failed [Mon May 25 22:41:51 MDT 2020] mega-reads exited before assembly slurmstepd: error: JOB 35943282 STEPD TERMINATED ON pf-1-1 AT 2020-05-25T22:45:51 DUE TO JOB NOT ENDING WITH SIGNALS

Do you know what the issue might be?

Thanks in advance,

J.

alekseyzimin commented 3 years ago

This issue has been fixed in MaSuRCA 3.4.1 and later. Please re-run your assembly with MaSuRCA 3.4.1