snakemake / snakemake/snakemake
Include rules following a checkpoint in DAG visualization
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- Dominant language
- Python
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Description
In workflows containing a checkpoint, the DAG cannot be completely visualized.
E.g. when running the second checkpoints example from the documentation, the DAG before workflow execution looks like so (collapsing all samples into one for simplicity):
clustering -> aggregate -> all
while after running the pipeline, the DAG looks like:
intermediate -> aggregate -> all
The desired outcome would be to have all steps displayed in one graph, like so:
clustering -> intermediate -> aggregate -> all
This may not be possible before workflow execution, but after workflow execution would be useful too.
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- Read the whole issue, then the project's contributing guide.
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Research direction
Reproduce the second checkpoints example linked in the issue and compare the DAG before and after workflow execution. Trace the DAG visualization entry point responsible for those graphs; done means the post-execution visualization includes clustering, intermediate, aggregate, and all in one graph.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- data-engineering
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 38/100