Hi Adhemar, Very glad this is working out for your own use. I created a ticket to include your suggested enhancement globally: https://trello.com/c/jbhy3dSM Should you wish to create a ticket in the future, this is how: https://wiki.galaxyproject.org/Issues Community contributions are reviewed/incorporated through pull-requests, if you would like to submit. No guarantees, but either way this moves it along and you'll then know the status: https://wiki.galaxyproject.org/Develop -> See ' Source code and documentation' https://bitbucket.org/galaxy/galaxy-central/pull-requests Best, Jen Galaxy team On 3/28/14 5:41 AM, Adhemar wrote:
Hi, In order to have the transcript_id for each sequence extracted from the cuffmerge .gtf file I had to change the extract_genomic_dna.py by adding the following lines after line 153:
attributes = gff_util.parse_gff_attributes( feature[8] ) if ( "transcript_id" in attributes ): name = attributes.get( "transcript_id", None )
This way the variable name gets the transcript_id if it exists.
If it's correct, I would appreciate this modification in future galaxy distributions.
Thanks! Adhemar
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