I just remembered what I did for the tophat wrapper. All I did was change the
default behavior of the use coverage search option. I believe no is the
default behavior and you have it as yes.
From: Jeremy Goecks [mailto:jeremy.goe...@emory.edu]
Sent: Thursday, August 11, 2011 7:22 AM
To: Chorny, Ilya
Cc: galaxy-dev@lists.bx.psu.edu
Subject: Re: Updated Cufflinks Wrapper
Hi Ilya,
Thanks for the contribution; most of it has been committed in changeset
0ef81af1de09
A couple notes:
*I couldn't transplant your changes because your commit did not include recent
changes to the Cufflinks wrapper. It appears you didn't merge correctly with
the main repository at some point; please try to merge correctly as it speeds
up the inclusion process significantly on our end.
*I didn't include your changes to the Tophat wrapper because merging was
incorrect and I couldn't figure out what you were trying to do.
Let us know if you have any questions.
Best,
J.
On Jul 27, 2011, at 7:26 PM, Chorny, Ilya wrote:
I made some changes to the cufflinks wrapper. I added the -g/--GTF-guide use
reference transcript annotation to guide assembly as an option. The version
number needs to still be updated in my commit.
https://bitbucket.org/ichorny/galaxy-central/changeset/fc5e24d453e5
Ilya Chorny Ph.D.
Bioinformatics - Intern
icho...@illumina.commailto:icho...@illumina.com
858-202-4582
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