[maker-devel] ERROR: Could not obtain lock to format database

[Carson Holt]

Were you by any chance running multiple instances of MAKER at the same time
in the same directory?  It looks like two processes started to work on the
same contig (normally a first set of locks blocks this possibility ­ but
rarely they get past that step).  Then when it got to a part where an
analysis is performed one properly failed when it realized that the other
had the lock.  In any case, it looks like it just retried and finished the
contig in question.  So the snippet seems to indicate expected behavior.  Do
you see the contig in question as being finished and having an output GFF3?

--Carson




From:  Hung-Wei Hsu <ares711122 at gmail.com>
Date:  Thursday, 14 March, 2013 11:13 PM
To:  Carson Holt <carsonhh at gmail.com>
Cc:  <maker-devel at yandell-lab.org>
Subject:  Re: [maker-devel] ERROR: Could not obtain lock to format database

You may find the error messages in the run log as attached.
Thanks a lot in advance.

Best regards,
Hung-Wei


2013/3/14 Carson Holt <carsonhh at gmail.com>
> Could you check to make sure your hard drive is not full, whatever location
> you set as TMP= in the control files is not full (default is /tmp).  Also
> maker sure you do not set /tmp to an NFS mounted or a tmpfs location.
> 
> Could you also send the full captured STDERR.
> 
> Thanks,
> Carson
> 
> 
> 
> From:  Hung-Wei Hsu <ares711122 at gmail.com>
> Date:  Tuesday, 12 March, 2013 8:24 PM
> To:  <maker-devel at yandell-lab.org>
> Subject:  [maker-devel] ERROR: Could not obtain lock to format database
> 
> Hi MAKER developers,
> 
> I tried MAKER 2.27b on one E. coli scaffold sequence with uniprot protein
> database.
> I failed to run the analysis and got an error message as below.
> 
> Could not obtain lock to format database at maker-2.27b/bin/../lib/GI.pm
> 
> Any suggestions or helps will be deeply appreciated.
> 
> Best regards,
> Hung-Wei
> _______________________________________________ maker-devel mailing list
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> er-devel_yandell-lab.org



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