So I am doing some debugging and it looks like in the from_html function in the SelectToolParameter class, it gets the legal values for the build using the get_legal_values function. This returns the correct values when I choose only one gtf file, but when I choose multiple gtf files the list of legal values is empty. I haven't figured out why this is happening. - Nik. On Wed, Feb 18, 2015 at 10:45 PM, Nikhil Joshi <najoshi@ucdavis.edu> wrote:
And, yes, all of the gtf files have the correct database build associated with them.
On Wed, Feb 18, 2015 at 6:29 PM, Nikhil Joshi <najoshi@ucdavis.edu> wrote:
Hi all,
We run our own custom galaxy instance in the Amazon Cloud and I am updating our instance with the latest toolshed files. For cuffmerge, in past revisions, we would just have a button to add another GTF input. However, this latest one (10:b6e3849293b1 <https://toolshed.g2.bx.psu.edu/repository/view_changelog?id=84bbebf45888f374>) that has been replaced with a multi-select. We also have a few built-in genomes that we use with cuffmerge. When I choose the first GTF file (using locally cached sequence data) it will populate the reference genome correctly with our built-in genomes. However, once I choose more than one GTF file, I get one of two errors:
No reference genome is available for the build associated with the selected input dataset OR An invalid option was selected, please verify
The built-in genomes are definitely there and available for cuffmerge, but for some reason choosing more than one GTF file in the multi-select causes an error. Is this a bug or am I doing something wrong?
- Nik.
-- Nikhil Joshi Bioinformatics Analyst/Programmer UC Davis Bioinformatics Core http://bioinformatics.ucdavis.edu/ najoshi -at- ucdavis -dot- edu 530.752.2698 (w)
-- Nikhil Joshi Bioinformatics Analyst/Programmer UC Davis Bioinformatics Core http://bioinformatics.ucdavis.edu/ najoshi -at- ucdavis -dot- edu 530.752.2698 (w)
-- Nikhil Joshi Bioinformatics Analyst/Programmer UC Davis Bioinformatics Core http://bioinformatics.ucdavis.edu/ najoshi -at- ucdavis -dot- edu 530.752.2698 (w)