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No such variable: nextflow

Hi, I am having an issue with running Nextflow pipeline on hpc.

All pipelines I am trying to run ends with following error:

‚No such variable: nextflow

It refers to line:

nextflow.enable.dsl=2

If I remove this line it fails on include command.

I tested on many Nextflow versions. Seems to be not dependent on specific version or pipeline.

Any ideas appreciated!

nextflow
• 2,151 views • link
updated by Medhat Medhat • written by Mmar • Mmar

You need to show some minimal code to understand or reproduce the error.

• 0 views • link
written by ATpoint ATpoint

Look, if you want help, you need to show code and error messages. If I clone the linked repo and then run nextflow run main.nf, then I get:

N E X T F L O W   ~  version 24.04.4

Launching `main.nf` [agitated_yonath] DSL2 - revision: b0eee95d4e

executor >  local (4)
[8c/3c0495] process > sayHello (1) [100%] 4 of 4 
Hola world!

Ciao world!

Hello world!

Bonjour world!

Please run with this command and then show what happens.

• 0 views • link
updated by Medhat Medhat • written by ATpoint ATpoint

This is the output:

` NE X T F L O W ~ version 23.10.1 Launching main.nf ERROR ~ No such variable: nextflow

-- Check '.nextflow.log' file for details `

• 0 views • link
written by Mmar • Mmar

1 answer

Check if https://stackoverflow.com/questions/71939685/nextflow-tutorial-getting-error-no-such-variable applies and you have an old Nextflow version.

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written by ATpoint ATpoint

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