Sending to galaxy-dev ...
On Thu, Oct 27, 2011 at 5:51 AM, Jim Robinson
jrobi...@broadinstitute.org wrote:
Hi Mike,
Someone from the Galaxy team can perhaps give some insight on
what went wrong, I can comment on the error message from IGV.
That error is thrown from Picard, in every case
Its possible the sorting problem was a specific version and now gives
an error. The incorrect index caused by bad sequence lengths is a
recurrent problem, but I do not know what tool produces such headers.
Perhaps someone who has experienced this can chime in.
I'm not a samtools expert
...@broadinstitute.org
Subject: Re: [galaxy-user] Problem with bam and/or bai files
To: Peter Cock p.j.a.c...@googlemail.com
Cc: Galaxy Dev galaxy-...@bx.psu.edu, Mike Dufault dufau...@yahoo.com,
galaxy-user galaxy-user@lists.bx.psu.edu
Date: Thursday, October 27, 2011, 9:58 AM
Its possible the sorting problem
Hi Mike,
Are you using the Galaxy Main instance at http://usegalaxy.org? If not,
can you duplicate when using Main?
If on Main, and you want to share a history link with me, I can take a
look. Use Options - Share or Publish, generate link (or add me as a
share user), and email that back to
Hi Mike,
Someone from the Galaxy team can perhaps give some insight on what went
wrong, I can comment on the error message from IGV. That error is
thrown from Picard, in every case I've investigated so far it was traced
to a problem with the index. The most common causes are (1) a
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