It looks like this was a problem for awhile but isn't anymore on main https://trello.com/c/yFeXvhUg.
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.
-John
On Mon, Oct 27, 2014 at 4:31 AM, Elizabeth Chia elchia@gmail.com wrote:
Dear all
Usually the alignment statistics from bowtie2 will be printed to the stderr file, however, on the local instance, the stderr file is empty after alignment. It still does the alignment, but the statistics are not printed out.
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?
Thanks.
Regards liz
Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/