Re: [galaxy-dev] Urgent: Seems like tophat2 does not support --transcriptome-mismatches

[Jeremy Goecks]

This thread addresses your issue:

http://dev.list.galaxyproject.org/tophat-option-transcriptome-mismatches-not-recognized-td4657568.html

In the future, please use the mailing list search before posting your question. 
You'll save time for both yourself and others.

http://galaxyproject.org/search/mailinglists/

Best,
J.


On Dec 20, 2012, at 2:03 AM, Sachit Adhikari wrote:

 It seems like tophat2 does not support  --transcriptome-mismatches option 
 but Galaxy is still configured to call tophat2 with this option when run with 
 Full parameter setting option within Galaxy. Is there new wrapper with this 
 fix? If not, how to remove this option from Galaxy so that tophat2 is not 
 call with this option. I am assuming that this is specified somewhere in the 
 wrapper. 
 
 Thanks,
 
 Sachit
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[galaxy-dev] Urgent: Seems like tophat2 does not support --transcriptome-mismatches

[Sachit Adhikari]

It seems like tophat2 does not support  --transcriptome-mismatches option
but Galaxy is still configured to call tophat2 with this option when run
with Full parameter setting option within Galaxy. Is there new wrapper
with this fix? If not, how to remove this option from Galaxy so that
tophat2 is not call with this option. I am assuming that this is specified
somewhere in the wrapper.

Thanks,

Sachit
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