Re: [galaxy-dev] bowtie2: no stderr output

2014-11-09 Thread Elizabeth Chia
Dear John Thank you for responding. Not too sure why I can't see your link unfortunately, but did you mean this? http://dev.list.galaxyproject.org/bowtie-wrapper-td4658698.html I've tried modifying the command but doesn't seem to work either. And I can't use the wrapper too? I've just updated

[galaxy-dev] tools version (eg: cufflinks) and bowtie indices file

2014-11-09 Thread Elizabeth Chia
Hi there 1. Why is it that even after installing cufflinks 2.1.1 from the toolshed, it doesn't get reflected when I clicked on the tool from the side panel? It still shows 0.0.5 and 0.0.7. Think it's the same with others too (eg: bowtie) 2. I've modified the bowtie_indices.loc file under

Re: [galaxy-dev] tools version (eg: cufflinks) and bowtie indices file

2014-11-09 Thread Björn Grüning
Hi Elizabeth, Am 09.11.2014 um 20:26 schrieb Elizabeth Chia: Hi there 1. Why is it that even after installing cufflinks 2.1.1 from the toolshed, it doesn't get reflected when I clicked on the tool from the side panel? It still shows 0.0.5 and 0.0.7. Think it's the same with others too (eg: