OK, so this should work then... :)
Thanks Dave,
Peter
On Mon, Nov 3, 2014 at 7:06 PM, Dave Bouvier wrote:
> Peter,
>
> For the automated indexing of bam files, Galaxy uses the samtools version
> linked to as "default" under tool-dependencies/samtools/
>
> This should normally be 0.1.19 or older
Fingers crossed - perhaps I jumped the gun uploading this to the main
tool shed without seeing the test results on the Test Tool Shed:
https://toolshed.g2.bx.psu.edu/view/peterjc/samtools_bam2fq
https://testtoolshed.g2.bx.psu.edu/view/peterjc/samtools_bam2fq
I look forward to the automated test r
Hi all,
I'm looking for a little advice on the pre-existing SAM/BAM filtering
tools already in the Galaxy Tool Shed (to avoid reinventing the wheel).
As I mentioned on another thread, I'm working on a wrapper for the
"samtools bam2fq" command (targeting samtools 1.1 which fixed
some bugs in this
On Tue, Nov 4, 2014 at 2:44 PM, Peter Cock wrote:
> Hi all,
>
> I'm looking for a little advice on the pre-existing SAM/BAM filtering
> tools already in the Galaxy Tool Shed (to avoid reinventing the wheel).
>
> As I mentioned on another thread, I'm working on a wrapper for the
> "samtools bam2fq"
Hi all - I've recently come back to Galaxy to see how its progressed over
the last few years. The tools shed is completely new to me and will take
some exploring on my part.
My immediate question is if there is a way to import a large number of
samples associated with a project via a sample sheet
