Andrew Davidson

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2. General Discussion
3. output directory is missing? /cromwell_root/script: line 103: 22 Killed salmon quant

Hi Samantha sorry I can not share the workspace. The data comes from GTEx and has subject identifiable information. I can zip up any of the files in the execution bucket if you like   Can you tell ...

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• March 29, 2021 20:02
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1. Community
2. General Discussion
3. output directory is missing? /cromwell_root/script: line 103: 22 Killed salmon quant

https://api.firecloud.org/ga4gh/v1/tools/aedavids.ucsc.edu:SalmonPairedReadQuantTask/versions/5/plain-WDL/descriptor

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• March 29, 2021 17:59
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1. Community
2. General Discussion
3. 'task command' how to work with local variables

Hi Sushma thanks for the tip. I think there is a bug in Cromwell. if you comment out a line in your bash task, Cromwell will still try to expand it. this will cause an error if the variable is not ...

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• March 25, 2021 21:34
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1. Community
2. Active Feature Requests
3. RFE: making it easier to work with files and workflow execution buckets

Hi Samantha Thinking a little bit more about this. The time to add the batch metadata is when I run the workflow. Maybe that web page could add a field for capturing a user-friendly name and some f...

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• March 25, 2021 16:46
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3. importing tasks using relative paths in Terra

LOL! Thanks Andy

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• March 24, 2021 15:51
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1. Community
2. Active Feature Requests
3. it hard to add new tasks to an existing name space

I think Java does a really good job with namespaces. One of the things I think would be helpful is if there was something like the java package statement in the WDL file rather than have the namesp...

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• Edited March 22, 2021 20:29
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2. Active Feature Requests
3. it hard to add new tasks to an existing name space

Hi Jason I think it would be better if the pull-down was in the "create methods" window. On the methods page, I think it would. be nice if I could sort by namespace.   Kind regards   Andy  

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• March 22, 2021 19:28
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2. General Discussion
3. importing tasks using relative paths in Terra

Hi Jason   I only have the option to download wdl or export to workspace. I do not have the "import URL for this WDL"   Also a minor request for enhancement. It would be really nice if there was a ...

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• March 22, 2021 19:08
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1. Community
2. General Discussion
3. importing tasks using relative paths in Terra

can you provide me with a couple of examples?   1) say I am defining a workflow WDL in the namespace 'xyzNameSpace' in the Broad's method repository' and want to import a task in the same workspace...

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• March 19, 2021 22:05
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2. Completed Feature Requests
3. Notification when workflow is done

when I run bash scripts on computers at my univ, I use the following to receive txt message when my script completes echo "$host data is up $dateStamp ${@:2} " | mail 83186626322@txt.att.net I wond...

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• March 13, 2021 22:58
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