User: machinelearner

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Posts by machinelearner

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Comment: C: docker galaxy apt-get update & upgrade error
... Solved, temporarily ...
written 14 days ago by machinelearner0
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Comment: C: docker galaxy apt-get update & upgrade error
... This has been temporarily fixed on our end. Explanation for anyone who stumbles on this problem in the future: Looks like doing a apt-get upgrade and upgrading all the packages in the container will also upgrade nginx packages. This led to a error log report in /var/log/nginx saying that upload_sto ...
written 14 days ago by machinelearner0
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(Closed) docker galaxy apt-get update & upgrade error
... Hi everyone, We have recently pulled down an image of the docker Galaxy and created a container with it. Some of the tools that we want to install require perl modules such as GD::Graph. The only way that we were able to get these modules installed were by updating and upgrading apt-get first. ...
docker galaxy written 15 days ago by machinelearner0
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Comment: C: Docker Galaxy submitting jobs to UGE
... Thanks for the reply! We are hesitant to do this because UGE is a license product and we don't want it in the container itself. ...
written 4 weeks ago by machinelearner0
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Docker Galaxy submitting jobs to UGE
... Hi all, Has anyone been able to submit jobs on a Docker Galaxy instance to SGE or UGE on a centOS7 machine? After referring to https://github.com/bgruening/docker-galaxy-stable#Using-an-external-Grid-Engine-cluster we were still not able to have jobs passed on to UGE. Going into the container, we ...
uge docker galaxy written 4 weeks ago by machinelearner0
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Answer: C: Cannot copy datasets from one history to another on local Galaxy
... This issue has resolved itself. Not sure how, as there was no restart or any changed made recently on our end. ...
written 3 months ago by machinelearner0
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Cannot copy datasets from one history to another on local Galaxy
... Hi all, We have a local instance of Galaxy installed but it is not able to be copy files from one history to another via the "copy datasets" option on the right tool bar. Is there a setting that has to be set so that this can occur, I have not found anything in the galaxy.ini file, but I could have ...
galaxy written 3 months ago by machinelearner0
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Comment: C: Concurrent Job Limits
... I haven't thought of that. I went back to check and my job scheduler (UGE) had a limit for resource usage which four jobs happen to entirely take up. Thanks! :) ...
written 3 months ago by machinelearner0
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Comment: C: Concurrent Job Limits
... Hi, Thanks for the reply! The path of the job conf file is correctly listed in the galaxy.ini file and everything was restarted after the changes. We are currently using the latest version of Galaxy and the tags in the sample xml file match the ones listed on the wiki. I saw this post:https://bios ...
written 3 months ago by machinelearner0
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Concurrent Job Limits
... Hi all, Is there a way to limit jobs being run on a local instance of Galaxy per individual user? I saw this page: https://galaxyproject.org/admin/config/jobs/ There is a mention of registered_user_concurrent_jobs option on the bottom for limiting jobs. Does this option limit jobs based on the use ...
galaxy written 3 months ago by machinelearner0

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