[scipion-users] Scipion 3.0 Issue with Commands Waiting for Eachother

[Colin D. <cde...@gn...>]

Hello,

First off, I'm new to Scipion and have been loving the flexibility, streaming, monitoring, and reporting abilities of the program! However, I'm currently trying to run a custom built workflow in Scipion 3.0.3 and I'm running into a few issues.

1) I don't see in the actual .json.template file a line to designate what ID to wait for under each protocol (I want each job to wait for the prior job to completely finish before running). Is this something I can add? If so, what is the command I should use?
2) When I try and circumvent that by simply typing the ID in the GUI once the workflow is loaded (in the "wait for" box of each protocol), nothing seems to wait. They all run while the previous job is still going. Am I doing something wrong? I've been entering them as just the ID number like "432" but should they be entered differently? Also, I see multiple IDs for the same job/protocol under different menus, not sure if that is a bug or not or whether it is maybe related to the issue of jobs not waiting.

Any feedback would be helpful, my end goal is just to make a reproducible workflow that can be loaded and run on multiple Appoferritin calibration datasets all the way to 3D refinement without any user intervention. However, at the moment one job will try to run too soon and fail and then lead to a cascade of downstream jobs failing. Thanks!

Colin Deniston
Principal Scientist I

GNF BIOTHERAPEUTICS & BIOTECHNOLOGY / GNF
Novartis Institutes for Biomed.Research, Inc.
10675 John Jay Hopkins Drive
GNF Business
San Diego, CA 92121

T +1 (858) 332-4750
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