Issue with about nextneopi

[riederd]

Thanks for reporting. I've not seen this before. I realize that you are using a newer nextflow version compared to ours. I'll need to see if it is related to this. Can you meanwhile also send me your batchFile?

[riederd]

The newest version of nextflow does not support DSL1, which was used to write nextNEOpi, can you try to run the pipeline as follows:

NXF_VER=22.10.8 nextflow run nextNEOpi.nf <your options here>

[mulqueenr]

Hi, Thanks for the quick reply! We're getting a new error now that might have to do with version support. I'm trying a simple case with unchanged params file. But I attached them both for clarity. Thanks again for the support!

CAPSULE: Downloading dependency io.nextflow:nf-commons:jar:22.10.8 CAPSULE: Downloading dependency org.codehaus.groovy:groovy:jar:3.0.13 CAPSULE: Downloading dependency ch.grengine:grengine:jar:1.3.0 CAPSULE: Downloading dependency io.nextflow:nf-httpfs:jar:22.10.8 CAPSULE: Downloading dependency org.codehaus.groovy:groovy-nio:jar:3.0.13 CAPSULE: Downloading dependency org.codehaus.groovy:groovy-templates:jar:3.0.13 CAPSULE: Downloading dependency org.codehaus.groovy:groovy-xml:jar:3.0.13 CAPSULE: Downloading dependency io.nextflow:nextflow:jar:22.10.8 CAPSULE: Downloading dependency org.codehaus.groovy:groovy-json:jar:3.0.13 N E X T F L O W ~ version 22.10.8 Unable to parse config file: '/rsrch4/home/genetics/athennavan/resources/params.config' Compile failed for sources FixedSetSources[name='/groovy/script/Script3B8B0DA90C115D0CC3C7C6D800112797/_nf_config_39c3dca3']. Cause: BUG! exception in phase 'semantic analysis' in source unit '/groovy/script/Script3B8B0DA90C115D0CC3C7C6D800112797/_nf_config_39c3dca3' Unsupported class file major version 64

NewBatchfile_TEST.csv
params.config.txt

[riederd]

closed by b9ec900

Feel free to open a new issue in case v1.4 is still failing