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EBI-Metagenomics / emg-viral-pipeline

VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
Apache License 2.0
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Not able to run "nextflow pull EBI-Metagenomics/emg-viral-pipeline" #121

Closed arpit20328 closed 3 months ago

arpit20328 commented 5 months ago

When I run "nextflow pull EBI-Metagenomics/emg-viral-pipeline"

I get error :

Checking EBI-Metagenomics/emg-viral-pipeline ... Project config file is malformed -- Cause: Compile failed for sources FixedSetSources[name='/groovy/script/Script43C7013E1B85D3533DD5611705899A16/_nf_config_be99724f']. Cause: org.codehaus.groovy.control.MultipleCompilationErrorsException: startup failed: /groovy/script/Script43C7013E1B85D3533DD5611705899A16/_nf_config_be99724f: 54: The LHS of an assignment should be a variable or a field accessing expression @ line 54, column 20. output = /home/arpit/Karishma_data_set_Wochenendr_master_15th_march_result/ ^

1 error

Any solution ?

hoelzer commented 5 months ago

Hey!

Are you using the latest nextflow -version? How did you install nextflow? Can you pull other pipelines? Let's say nextflow pull hoelzer/pocp?

hoelzer commented 3 months ago

I am closing this bc this seems to be a nextflow installation/configuration error not related to VIRify. Please reopen @arpit20328 if you need further assistance!