8000 Checking contrast file fails although the correct header seems to be present · Issue #159 · nf-core/rnasplice · GitHub
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Checking contrast file fails although the correct header seems to be present #159

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tomsing1 opened this issue Oct 20, 2024 · 3 comments
Open

Checking contrast file fails although the correct header seems to be present #159

tomsing1 opened this issue Oct 20, 2024 · 3 comments
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@tomsing1
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tomsing1 commented Oct 20, 2024 •
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Description of the bug

I am struggling to get past the first step of the pipeline: providing the contrast file in the correct format. The attached file gives the following error: [CRITICAL] The contrast sheet **must** contain these column headers: contrast, treatment, control.

I have tried both the release version (1.0.4) and the dev branch. Perhaps I am overlooking something obvious?

Command used and terminal output

I am using Seqera Platform (formerly knowns as Seqera Tower), so I am not sure what the command would be.

Relevant files

contrasts.csv

System information

Nextflow version 23.10.4
Executor: awsbatch
Container engine: docker
nf-core/rnasplice: 1.0.4 or dev
@tomsing1 tomsing1 added the bug Something isn't working label Oct 20, 2024
@Doc-R-J
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Doc-R-J commented Feb 20, 2025

I'm having the same issue, did you figure this out?

@tomsing1
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No, I gave up 🤷

@Doc-R-J
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Doc-R-J commented Feb 21, 2025

I changed the order of the columns to control,treatment,contrast and it worked

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