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multireader: command not found #34
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Are you using a previous version of the pipeline or singularity container? We've seen something like this in a previous version. Please remove the image completely, and then update the code and re-run. |
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Hi developers,
When I test example, my bash:
pythion ../ui/egapx.py input_D_farinae_small.yaml -e singularity -w dfs_work -o dfs_out -lc ../local_cache
The error is :
ERROR ~ Error executing process > 'egapx:setup_proteins:convert_proteins'
Caused by:
Process
egapx:setup_proteins:convert_proteins
terminated with an error exit status (127)Command executed:
mkdir -p asn
mkdir -p fasta
if [[ true == true ]]; then
zcat src/6954.faa.gz | sed 's/>([^ |]+)( .)?$/>lcl|\1\2/' > fasta/6954.faa
else
sed 's/>([^ |]+)( .)?$/>lcl|\1\2/' src/6954.faa.gz > fasta/6954.faa
fi
multireader -flags ParseRawID -out-format asn_text -input fasta/6954.faa -output asn/6954.asn
multireader -flags ParseRawID -out-format asn_binary -input fasta/6954.faa -output asn/6954.asnb
Command exit status:
127
Command output:
(empty)
Command error:
.command.sh: line 9: multireader: command not found
Work dir:
/mnt/lfj/soft/egapx/test/dfs_work/75/9a8ad541a81803c75b1b85fe0d3ed3
Tip: you can try to figure out what's wrong by changing to the process work dir and showing the script file named
.command.sh
-- Check 'dfs_out/nextflow.log' file for details
Could you help me solve this problem?
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