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Hola! I've encountered an issue. When I tried to r...
# rnasplice
b
Hola! I've encountered an issue. When I tried to run the rnasplice pipeline with the <test_full> and <test> and <azurebatch> and <test_rmats> profiles on Azure Batch, I encountered this error message. My compute account is of the Azure Batch, and I'm using the Seqera platform.
It happened just a few seconds after the status switched to Running from Submitted. I tried multiple times.
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nextflow run '<https://github.com/nf-core/rnasplice>'
		 -name rnasplice-test
		 -params-file '<https://api.tower.nf/ephemeral/KxwF_Why4KSwRBr21-g18R.json>'
		 -with-tower
		 -r 1.0.3
		 -profile test_full
err2.jpg
Guys, can you please share your thoughts on this issue? @Chris Hakkaart @Maxime Garcia Which scenario is more likely: is it an incompatibility of the rnasplice pipeline with Azure Batch or an issue related to the pipeline itself?
m
@Adam Talbot any reason why a pipeline is not working on Azure?
❤️ 1
a
Looks like it's trying to make a file called 
None
? Is that the old Python validation bug rearing it's head again?
b
Thank you guys. Do you want me to send you additional logs or information to make problem-finding smoother?
Can I bypass this issue by adding something to the Nextflow Configuration on the Seqera platform before running? I mean, how can I have a successful run using Azure Batch and the rnasplice pipeline?
a
yep
If you put this in the Nextflow config box it should remove that setting:
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params {
    miso_genes_file = null
}
I'm just testing to see if there's an easier way.
❤️ 1
A little explanation, what's happening is Nextflow is looking for a file at 
./None
because that value is populated. We need to remove that item from the schema.
OK you can just delete the string "None" in the interface and it works (delete the bit in orange):
❤️ 1
b
Oh, muchas gracias!☺️ Let me try
a
De nada!
🙌 1
b
It worked! The full_test profile executed successfully.
🎉 2
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