Thank you for responding.
Not too sure why I can't see your link unfortunately, but did you mean
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 as well but doesn't fix it. Any ideas?
On Mon, Nov 3, 2014 at 6:59 AM, John Chilton <jmchilton(a)gmail.com> wrote:
It looks like this was a problem for awhile but isn't anymore on
It doesn't look like there has been any changes to the bowtie2 wrapper
since it was migrated to the tool shed so I am not sure why it isn't
working for you?
As an admin can you open a successful bowtie2 dataset and see what the
standard error and standard output are saved as - maybe copying them
into pastebin or gist. It might help illuminate the problem.
On Mon, Oct 27, 2014 at 4:31 AM, Elizabeth Chia <elchia(a)gmail.com> wrote:
> Dear all
> Usually the alignment statistics from bowtie2 will be printed to the
> file, however, on the local instance, the stderr file is empty after
> alignment. It still does the alignment, but the statistics are not
> This is my hg summary:
> parent: 13802:f7dd0060c296 latest_2014.06.02
> Merged in dannon/galaxy-central-prmaker/stable (pull request #404)
> branch: stable
> commit: 288 modified, 357 added, 18 unknown (new branch head)
> update: 27 new changesets (update)
> Will updating to the latest version help?
> Or are there any patches available?
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