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Missing main script 'main.nf' #383

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nick-youngblut opened this issue Feb 21, 2023 · 1 comment
Open

Missing main script 'main.nf' #383

nick-youngblut opened this issue Feb 21, 2023 · 1 comment

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@nick-youngblut
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I'm updating a pipeline in which the master branch does not include a main.nf file, but my dev branch does include a main.nf file. I'm specifying my branch in the Revision number field in nf-tower Launchpad. I was successfully able to add the pipeline to my launchpad, but now when I try to update the pipeline (e.g., change the config profiles), I get the error:

Invalid pipeline repository: https://github.com/ORGANIZATION/PIPELINE- Missing main script 'main.nf'

When I try to "launch" (run) the pipeline in nf-tower, I get the following error:

Essential container in task exited

Downloading plugin nf-amazon@1.11.3
N E X T F L O W  ~  version 22.10.6
Pulling MY_ORGANIZATION/MY_PIPELINE ...
 downloaded from https://github.com/MY_ORGANIZATION/MY_PIPELINE.git
Launching `https://github.com/MY_ORGANIZATION/MY_PIPELINE` [peaceful_yalow] DSL2 - revision: 08c4e5a701 [MY_DEV_BRANCH]
Downloading plugin nf-wave@0.5.3
Unexpected error [StackOverflowError]

I'm guessing that these 2 issues are related. It seems that nf-tower doesn't work on the edge case where the repo master branch does not contain a main.nf file.

@nick-youngblut
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I'm getting the same [StackOverflowError] for another pipeline that I am trying to launch via the nf-towar launchpad. This other pipeline has a main.nf file in the master branch, so that isn't the issue. The error:


The workflow execution failed to start. Exit status: 1

Essential container in task exited

Downloading plugin nf-amazon@1.11.3
N E X T F L O W  ~  version 22.10.6
Pulling MY_ORGANIZATION/MY_PIPELINE2 ...
 downloaded from https://github.com/MY_ORGANIZATION/MY_PIPELINE2.git
Launching `https://github.com/MY_ORGANIZATION/MY_PIPELINE2` [voluminous_euclid] DSL2 - revision: ff50f264b3 [master]
Downloading plugin nf-wave@0.5.3
Unexpected error [StackOverflowError]

I don't know what to do in regards to troubleshooting, given the ambiguous error message: Unexpected error [StackOverflowError]

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