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Old 07-29-2015, 01:16 AM   #1
gerald2545
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Location: Toulouse

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Default Automate SMRCT Cells import in SMRT portal

Hi all,
we have installed a PacBio RSII few month ago in our core facility, and SMRT poral is working fine (2.3.0). Now we would like to setup SMRT portal to automate SMRT Cells import and give the ownership to the right usergroup according to the path the data is imported from

Is there a way to achieve that? Anyone tried that?

Thank you for your jelp

Gérald
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Old 07-30-2015, 07:54 AM   #2
rhall
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It will require some coding, but should be reasonably straightforward using the SMRT portal API https://github.com/PacificBioscience...ces-API-v2.3.0
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Old 07-30-2015, 08:00 AM   #3
GenoMax
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@rhall: I thought it was possible for the instrument to push the data to the analysis server directly. Am I not remembering this right?
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Old 07-30-2015, 08:35 AM   #4
rhall
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The kodos secondary analysis daemon https://github.com/PacificBioscience...-Auto-Analysis can be setup to poll the machine, import data and start jobs, but I don't think it can be setup to alter usergroups based on import path. Using the API gives you a lot more control.
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Old 07-30-2015, 08:14 PM   #5
gerald2545
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Thanks for your replies....
you are right, I knew this documentation, but it seems I didn't spend enough time reading it...I now find the useful web methods "Scan for New Input Metadata Function" and "Groups Function"

thank you, I will post the script upon completion

Have a nice day
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