I am using a galaxy instance on Jetstream but have run into a problem getting data files into galaxy. After I download the file, the file name (on the right side) turns red and I get the error message: "Unable to run this job due to a cluster error, please retry it later". These downloaded files are also not recognized by the tools.
Does anyone know how this problem can be fixed? Thank-you
There is probably a configuration problem. Are you following these instructions? https://galaxyproject.org/cloud/jetstream/
Do other jobs run or is this the first job/type that fails? For example, have you installed native genomes with a Data Manager and had those be successful?
I am having this same problem. My Galaxy instance on Jetstream seems to be configured correctly since I was able to add myself as an admin and add tools from the Tool Shed. However, none of the avenues for getting files into my History are working: upload from computer, FTP, or directly pasting fasta data via the Fetch/Paste option. After a short while, the job turns red and gives the error: "Unable to run this job due to a cluster error, please retry it later". I have also tried pulling data straight from UCSC Main, but same error. I have reset the hostname and restarted the interface as described here: https://galaxyproject.org/cloud/jetstream/troubleshooting/, but still no luck. Checking supervisorctl, I have the following:
cholley@js-168-202:~$ sudo supervisorctl cron STOPPED Not started galaxy:web0 RUNNING pid 7134, uptime 0:20:15 munge RUNNING pid 1952, uptime 1:13:49 nginx RUNNING pid 1955, uptime 1:13:49 postgresql RUNNING pid 1950, uptime 1:13:49 pre_postgresql EXITED Aug 30 12:24 PM proftpd RUNNING pid 7612, uptime 0:03:49 slurmctld FATAL Exited too quickly (process log may have details) slurmd RUNNING pid 1956, uptime 1:13:49
supervisor> start slurmctld slurmctld: ERROR (abnormal termination)
Should slurmctld be running? It seems like this would be necessary to schedule jobs. It will not start for some reason. Any ideas??? I have used CloudMan via AWS quite successfully, but would like to be able to do jobs with my EXSEDE allocation on Jetstream.
Would one of you post the Galaxy admin log from Cloudman for troubleshooting? A link to a gist or similar would be great.
sure - here is the gist link for galaxy_web0.log from my 17.01.01 instance.
Let me know if you want any of the other logs.