User: letawjohn

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letawjohn0
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United States
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1 year, 7 months ago
Joined:
2 years, 9 months ago
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l********@gmail.com

Posts by letawjohn

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Answer: A: Tool produces output, but leads to ERROR state
... See, this is why I asked the question as opposed to spending the next several hours beating my head against the wall for such a simple fix! The tool I was wrapping was indeed writing some output to stderr instead of stdout. For people that may run in to this, and happen to be writing tools in Pyth ...
written 20 months ago by letawjohn0
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Tool produces output, but leads to ERROR state
... Having trouble resolving this behavior in a Galaxy wrapper I'm working on. The tool runs to completion, and I can view the output file via shell. The problem is, the tool continues to go in to an ERROR state, thus the workflow does not continue. No errors from the tools, or from my wrapper, just ...
galaxy written 20 months ago by letawjohn0
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Error and job completion notification via email
... Is it possible to have an error message sent to an e-mail address automatically upon failure?  Also, can an e-mail be sent to a user after all processes in a particular history have completed?  Both questions pertain to local installations of Galaxy. Thanks! ...
error handling email notification written 24 months ago by letawjohn0 • updated 24 months ago by Jennifer Hillman Jackson23k
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Changing filesystem dataset permissions
... Hi all, I've written a tool that will change ACL's on specific datasets, thus allowing users to decide when and who they would like to share with at the filesystem level.  This works great from the command line, but I can't seem to get it to work as a Galaxy tool.  I'm thinking this has to do with ...
galaxy written 2.1 years ago by letawjohn0
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Jobs stuck waiting after local instance restart
... I'm having trouble correcting this one... I made some changes to a specific tool, and then proceeded to restart our local Galaxy instance with ./run.sh --daemon restart.  Upon restart I tried to rerun the aforementioned tool, but it has decided to become stuck in the grey waiting to run state.  Oth ...
drmaa local jobs root realuser written 2.8 years ago by letawjohn0 • updated 2.8 years ago by Jennifer Hillman Jackson23k

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