Question: Workflow is not initiating a job in my history
0
gravatar for sedought
11 months ago by
sedought0
sedought0 wrote:

Hi All,

I'm trying to use a a workflow to do the last two steps of my analysis (map with bowtie for illumina and feature counts).

When I run the workflow it says its been executed but nothing appears in the history pane and it doesn't appear to be running bowtie or feature counts.

Any suggestions would be greatly appreciated!

Thank you

Sabrina

rna-seq • 526 views
ADD COMMENTlink modified 8 weeks ago by than20319950 • written 11 months ago by sedought0

Do you by chance have multiple browser windows open for Galaxy? Jobs can end up in different histories than the intended target when this is done. Open Saved Histories to find where the jobs are.

Let us know if you find them, and if not, we can look into this more.

ADD REPLYlink modified 11 months ago • written 11 months ago by Jennifer Hillman Jackson25k

Hello,

I have been experiencing a similar issue for about a day now. The jobs do not appear to be moving into separate histories. Using individual programs works for me (i.e. TopHat not in a workflow), but my workflows do not.

Thank you

ADD REPLYlink written 11 months ago by rsk890
1

Ok, the time frame is important, thank you for all posting. We updated the Galaxy Main server https://usegalaxy.org on Tuesday to the upcoming release and are integration testing. "New" problems need followup.

Executing a workflow seems to not be creating output jobs/datasets, in any history (same or new). Am following up with the developers. Updates will follow.

ADD REPLYlink written 11 months ago by Jennifer Hillman Jackson25k

Update: Still an issue, follow progress here https://github.com/galaxyproject/usegalaxy-playbook/issues/47

We will close out this post with a final answer once completely resolved.

ADD REPLYlink written 11 months ago by Jennifer Hillman Jackson25k
0
gravatar for Jennifer Hillman Jackson
11 months ago by
United States
Jennifer Hillman Jackson25k wrote:

Update:

The workflow launching problem is now resolved.

Please note that IF you are sending your workflow output to a new history, that history will need to be navigated to. Use the History menu (gear icon) > Saved Histories.

Thanks to all who reported the problem and Dannon for the fix! Jen, Galaxy team

Reference: https://github.com/galaxyproject/usegalaxy-playbook/issues/47

ADD COMMENTlink written 11 months ago by Jennifer Hillman Jackson25k
0
gravatar for katherine.whybourne
11 months ago by
katherine.whybourne0 wrote:

I am still having trouble...still cannot run

ADD COMMENTlink written 11 months ago by katherine.whybourne0

Hi, I am having the same issue as posted 8 months ago. After executing a workflow, I receive a green message indicating that the workflow has successfully started. However, the job does not show up in my history, even after I refresh it. The first option in the workflow, 'send results to a new history', was not checked. I repeated the workflow with this option checked, and when I examined saved histories, I see the workflow but there are 0 jobs running and nothing under 'status'. Any advice would be great. I am running Galaxy on a local instance. Thanks

ADD REPLYlink written 12 weeks ago by cary.pirone0
0
gravatar for than2031995
8 weeks ago by
than20319950 wrote:

Hey

Same problems seems to still be occurring. I have imported a workflow into my account and whether I try to send the data to a new history or in the same there is not queued jobs initiated. I get a confirmation upon clicking "Run Workflow" with the green box but nothing happens after that. Is this still an occurring problem? It seemed that this was addressed and fixed

ADD COMMENTlink written 8 weeks ago by than20319950

Please see: https://biostar.usegalaxy.org/p/28818/

There is another new related problem, the above post will update once corrected.

ADD REPLYlink written 8 weeks ago by Jennifer Hillman Jackson25k
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