User: Brad Chapman

gravatar for Brad Chapman
Brad Chapman240
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240
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United States
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2 years, 8 months ago
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8 years, 5 months ago
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Posts by Brad Chapman

<prev • 24 results • page 1 of 3 • next >
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Comment: C: Add Nglims To Galaxy-Dist
... Peter; Thanks for giving this a try. The set of instructions to get this up and running are here: http://wiki.galaxyproject.org/Admin/Sample%20Tracking/Next%20Gen If the `Next Gen sequence` menu is missing, the most likely cause is that you don't have `use_nglims=True` set in your `universe_wsgi. ...
written 4.2 years ago by Brad Chapman240
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Comment: C: Add Nglims To Galaxy-Dist
... Peter; Unfortunately it's not that easy to graft into place on top of the existing Galaxy. It requires a database table addition and other tweaks so it would be a bit tricky to automate. Additionally, my suggestion would be to first try it out on a separate instance before thinking about integra ...
written 4.2 years ago by Brad Chapman240
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Answer: A: Add Nglims To Galaxy-Dist
... Peter; I maintain nglims as a fork of galaxy-central, syncing back to the main repository regularly: https://bitbucket.org/chapmanb/galaxy-central This was an easier approach than trying to keep a set of patches up to date. Hope this helps, Brad ...
written 4.2 years ago by Brad Chapman240
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Comment: C: Cloudman - Can'T Start Nodes
... Greg; I have to appeal to Enis for a detailed explanation of the cases where it can fail like that, but doing it manually seems like a great approach at this point. You can get the latest cm.tar.gz and cm_boot.py via: $ wget https://s3.amazonaws.com/cloudman/cm.tar.gz $ wget https://s3.amazonaws.c ...
written 5.4 years ago by Brad Chapman240
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Comment: C: Cloudman - Can'T Start Nodes
... Greg; Did you try rebooting or restarting the cluster? The error logs complain about SGE due to the original older CloudMan but it seems like cm.tar.gz got an update so will work going forward. You can double check by looking at your S3 console for the cm-yourinstance and seeing the date on the cm. ...
written 5.4 years ago by Brad Chapman240
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Answer: A: Cloudman - Can'T Start Nodes
... Greg; BioCloudCentral updated to the latest Ubuntu release, 12.04, recently so I'd guess this is the source of your error. CloudMan required some changes to handle SGE compatibility with the updated libraries in 12.04. Did you upgrade your version of CloudMan? It should give you an option to 'U ...
written 5.4 years ago by Brad Chapman240
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Comment: C: Cloudman - Problem Starting Shared Cluster
... Greg; What I do is keep multiple instances with different cluster_names: - A stable instance to store shared instances. You never want to remove all data with this, since that will destroy the shared instances as well. - A test instance that I start from the latest snapshot of my stable i ...
written 5.7 years ago by Brad Chapman240
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Comment: C: Cloudman - Problem Starting Shared Cluster
... Greg; The Amazon console displays the description for snapshots. They should have a string like: CloudMan share-a-cluster cluster_name: cm- 31bf91279e41769ff78af22c1a276ec CloudMan can't re-build the shared instance without the EC2 folder, since this contains all of the metadata. If you delete ...
written 5.7 years ago by Brad Chapman240
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Comment: C: Https://Biocloudcentral.Herokuapp.Com/Launch Site Is Down
... Greg; Jen, thanks for double-checking this. It is also up for me now. This is a useful way to check if you are having local connection problems or if the site is down: http://www.isup.me/biocloudcentral.herokuapp.com Heroku, which hosts the sites, was having some errors today so that might be the ...
written 5.7 years ago by Brad Chapman240
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Comment: C: Cloudman Web Launcher / Biocloudcentral - Not Showing Public Dns
... Greg; I've been looking into this and am unfortunately still not able to reproduce it. It seems like the setTimeout in the javascript code which calls the function until the state becomes 'running' is not being correctly run. There are some bugs out there with older versions of Firefox and Firebug: ...
written 5.9 years ago by Brad Chapman240

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