Question: Jobs at Galaxy Main https://usegalaxy.org remain in executing (yellow) state for over 72 hrs -- RESOLVED
0
e0072452 • 0 wrote:
I am using RNA STAR in usegalaxy.org to align some sequences to Arabidopsis thaliana genome to get the reads per gene (text file) for downstream analysis. The genome file and annotation file are fine as they worked for other datasets I analysed before. I used the unzipped fastq-dump file for the raw data. However, while aligning sequences using exactly the same parameters this time, the mapped.bam, spliced junctions.bed and log files finished running within one day but the reads per gene file does not finish running for about 8 days. I clicked to see the data in the reads per gene file and it seems like all the data are already aligned, just that I cannot download it.
Does anyone experienced this and know what is the problem?
ADD COMMENT
• link
•
modified 6 weeks ago
by
Jennifer Hillman Jackson ♦ 25k
•
written
7 weeks ago by
e0072452 • 0
Hello,
There was a server issue last week that caused a few jobs to remain in the executing state even though they were actually completed. We currently don't know exactly how many users were impacted, as we've only had a few examples reported, so it does seem to be limited in scope.
Your jobs happened to be included in that problem. Our administrator has corrected the state, but since the datasets were permanently deleted, they still won't be usable.
Modified: Please see the issue ticket below.
Our apologies for the confusion this caused! Jen, Galaxy team
Note: If anyone else has had a job remain in the executing state (yellow) for longer than 72 hours, please report it here or to galaxy-bugs@lists.galaxyproject.org. Leave the jobs undeleted so we can adjust them for you administratively.
The issue has been characterized and a fix is in progress. Ticket: https://github.com/galaxyproject/galaxy/issues/6856
Thank you, will keep the jobs if I face the problem again.