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Hi, I created a conda virtual environment where I installed both nextflow (version: 22.10.6) and nf-core (version: 2.7.2). Then I downloaded nf-core/sarek (version: 3.1.2) Singularity. However, when I ran the sarek pipeling, Plugin with id nf-amazon did not exist in any repository. Later, I downloaded the plugin nf-amazon-1.16.1.zip from the website (https://github.com/nextflow-io/nf-amazon/releases/download/1.16.1/nf-amazon-1.16.1.zip) directly and specified it in the coding, but the pipeline still didn't recognize the plugin. Ask your help to solve this problem occuring when running the sarek Singularity in HPC (gcc version 4.8.5 20150623 (Red Hat 4.8.5-44) (GCC)). Thank you very much.
Command used and terminal output
log=./08-test_NextFlow-nf-core-sarek/test-01/my.logworkflow=./08-test_NextFlow-nf-core-sarek/nf-core-sarek-3.1.2/workflowprofile=singularityinput=./08-test_NextFlow-nf-core-sarek/test_data/samplesheet.csvoutdir=./08-test_NextFlow-nf-core-sarek/test-01/outputplugin=./08-test_NextFlow-nf-core-sarek/nf-core-sarek-3.1.2/plugins/nf-amazon-1.16.1
# run pipelinenextflow -log $log run $workflow -profile $profile --input $input --outdir $outdir --genome GATK.GRCh38 -plugins $plugin
Linux version 3.10.0-1160.88.1.el7.x86_64 ([email protected]) (gcc version 4.8.5 20150623 (Red Hat 4.8.5-44) (GCC) ) #1 SMP Tue Mar 7 15:41:52 UTC 2023
The text was updated successfully, but these errors were encountered:
Description of the bug
Hi, I created a conda virtual environment where I installed both nextflow (version: 22.10.6) and nf-core (version: 2.7.2). Then I downloaded nf-core/sarek (version: 3.1.2) Singularity. However, when I ran the sarek pipeling, Plugin with id nf-amazon did not exist in any repository. Later, I downloaded the plugin nf-amazon-1.16.1.zip from the website (https://github.com/nextflow-io/nf-amazon/releases/download/1.16.1/nf-amazon-1.16.1.zip) directly and specified it in the coding, but the pipeline still didn't recognize the plugin. Ask your help to solve this problem occuring when running the sarek Singularity in HPC (gcc version 4.8.5 20150623 (Red Hat 4.8.5-44) (GCC)). Thank you very much.
Command used and terminal output
Relevant files
nf-amazon-1.16.1.zip
my.log
my2.log
System information
Linux version 3.10.0-1160.88.1.el7.x86_64 ([email protected]) (gcc version 4.8.5 20150623 (Red Hat 4.8.5-44) (GCC) ) #1 SMP Tue Mar 7 15:41:52 UTC 2023
The text was updated successfully, but these errors were encountered: