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Workflow error #462

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oliviatoles opened this issue May 10, 2023 · 7 comments
Open

Workflow error #462

oliviatoles opened this issue May 10, 2023 · 7 comments

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@oliviatoles
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Hello I am receiving this error could you please help

WorkflowError:
MissingInputException: Missing input files for rule markdown:
output: /home/thie0149/toles008/IDF_project/allpilot/Output/Scripts_AberrantSplicing_pipeline_aberrant_splicing_readme.html
wildcards: file=Scripts_AberrantSplicing_pipeline_aberrant_splicing_readme
affected files:
Scripts_AberrantSplicing_pipeline_aberrant_splicing_readme.md
MissingInputException: Missing input files for rule markdown:
output: /home/thie0149/toles008/IDF_project/allpilot/Output/aberrant-splicing-pipeline_index.html
wildcards: file=aberrant-splicing-pipeline_index
affected files:
aberrant-splicing-pipeline_index.md

@vyepez88
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Hi, please share more details. Is this in the demo dataset or your own? If it's your own, please try running the demo before. Which DROP version?

@oliviatoles
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oliviatoles commented May 10, 2023 via email

@vyepez88
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Hi, which command generated this error? Did the pipeline start and ended at some point or never started?
Please be sure that all RNA IDs are properly spelled and all BAM files exist.

@oliviatoles
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oliviatoles commented May 16, 2023 via email

@vyepez88
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Hi, can you please tell me which command generated this error?
Also, be sure you're using the latest DROP. I see this as a potential mistake: WARNING: 2 files missing in samples annotation

@AtaJadidAhari
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Hi @oliviatoles, any updates on this issue? Did you manage to resolve it?

@vyepez88
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Hi, be sure you have your config file like this:

aberrantSplicing:
    run: true

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3 participants