[No.81]Improved FAQs for errors

[itutu-tienday]

requirement

• https://docs.google.com/spreadsheets/d/1M5Ub_yRGM4DCltG01OHWssC7QrhJqDSY/
  • No.81

[tsuchiyama-araya]

メモ
・過去のIssueなどもこちらで記載する

[itutu-tienday]

• error:
  • situation: when caiman is executed in workflow (may be similar for *other wrapper func)
  • error log: python /app/.snakemake/scripts/xxxxxxxxxxx.func.py\' died with <Signals.SIGKILL: 9>.
• cause:
  • probably the workflow execution process is out of memory.
• related:
  • Improve Caiman Env Construction Problem optinist-for-server#344

[itutu-tienday]

• error:
  • situation: When a workflow is executed in which the size of the node's processing result data (.pkl) is large (e.g., a large image + caiman)
  • error.log:

    Traceback (most recent call last):
      File "/app/studio/app/common/routers/run.py", line 72, in run_result
        return WorkflowResult(workspace_id, uid).get(nodeDict.pendingNodeIdList)
      File "/app/studio/app/common/core/workflow/workflow_result.py", line 58, in get
        node_result = NodeResult(
      File "/app/studio/app/common/core/workflow/workflow_result.py", line 150, in __init__
        self.info = PickleReader.read(pickle_filepath)
      File "/app/studio/app/common/core/utils/pickle_handler.py", line 13, in read
        return pickle.load(f)
    _pickle.UnpicklingError: pickle data was truncated
    

• cause:
  • When the size of the pkl file exceeds several GB (4GB?), an exception is suspected to occur during pickle read.
• countermeasure:
  • *Not yet considered

[itutu-tienday]

Note:
It is better to prepare a separate spreadsheet summarizing the error cases to work from.

[milesAraya]

Idea：when an error message comes (e.g. parameter problem), link to documentation comes up in error message

Link to parameter documentation AND/OR notebooks for debugging
#545 (comment)

[milesAraya]

Why does first time loading take a long time
A: Making conda env

[tsuchiyama-araya]

#365
こちらの問題の解消方法
Rosettaの設定をOffにしたら、Docker環境回復しました！

しかし、調査したところ、Rosettaの設定をOnにする時にも解消される時があるので、
自分の環境によって異なるかと思います。

[milesAraya]

mysql error, alembic head upgrade not working
solution: delete all tables in mysql
run alembic head upgrade
re-add user initial data

[milesAraya]

Please add errors / solutions here
https://github.com/oist/optinist/wiki/FAQ