293 scheduler not handling nmdc:MetagenomeSequencing #294

mbthornton-lbl · 2024-11-20T20:47:44Z

This PR provides a fix for #293

Root cause of the error was failure to handle nmdc:MetagenomeSequencing workflow executions correctly.

Changes in this PR

update workflow_process.py to correctly handle Metagenome Sequencing as a sort-of data generation
update workflows.yaml with new workflow
update models.nmdc workflow_process_factory to handle the type
unit tests for workflow_process and scheduler.cycle
new test fixtures

…Sequencing

mbthornton-lbl · 2024-11-20T23:10:14Z

We are going to skip the nmdc:MetagenomeSequencing type

mbthornton-lbl added 7 commits November 19, 2024 17:35

Add test fixtures

84470ab

remove empty altternative_identifiers in fixture

45a77f1

Update workflows.yaml to include Metagenome Sequencing

793934f

fix fixture

3a57b66

update workflow_process to handle Metagenome Sequencing

f6a52f0

update workflow_process_factory

0e81082

Unit tests for load_workflow_process_nodes and cycle with Metagenome …

83a99e2

…Sequencing

mbthornton-lbl requested a review from aclum November 20, 2024 20:47

mbthornton-lbl linked an issue Nov 20, 2024 that may be closed by this pull request

Scheduler failing with ValueError #293

Closed

updated README with docker build/push instructions

557f1a7

mbthornton-lbl changed the title ~~293 scheduler failing with valueerror~~ 293 scheduler not handling nmdc:MetagenomeSequencing Nov 20, 2024

mbthornton-lbl closed this Nov 20, 2024

mbthornton-lbl deleted the 293-scheduler-failing-with-valueerror branch November 20, 2024 23:10

mbthornton-lbl removed a link to an issue Nov 20, 2024

Scheduler failing with ValueError #293

Closed

Provide feedback