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lehtiolab / proteogenomics-analysis-workflow

IPAW: a Nextflow workflow for proteogenomics
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.command.sh: line 2: msslookup: command not found #14

Open okendoj opened 4 years ago

okendoj commented 4 years ago

N E X T F L O W ~ version 19.04.1 Launching main.nf [serene_kirch] - revision: 6ff5d47fa2 2 mzML files in analysis [warm up] executor > local executor > local (2) [ca/9ad120] process > makeTrypSeq [ 0%] 0 of 1 [0a/35c0f1] process > makeTargetSeqLookup [ 0%] 0 of 1

executor > local (4) [ca/9ad120] process > makeTrypSeq [ 0%] 0 of 1 [0a/35c0f1] process > makeTargetSeqLookup [ 0%] 0 of 1 [49/b3fe3e] process > makeProtSeq [ 0%] 0 of 1 [65/778c79] process > createSpectraLookup [ 0%] 0 of 1

executor > local (4) [ca/9ad120] process > makeTrypSeq [ 0%] 0 of 1 [0a/35c0f1] process > makeTargetSeqLookup [ 0%] 0 of 1 [49/b3fe3e] process > makeProtSeq [ 0%] 0 of 1 [65/778c79] process > createSpectraLookup [ 0%] 0 of 1 ERROR ~ Error executing process > 'makeTrypSeq'

Caused by: Process makeTrypSeq terminated with an error exit status (127)

Command executed:

msslookup seqspace -i Homo_sapiens.GRCh38.pep.all.fa --insourcefrag --minlen 8

Command exit status: 127

Command output: (empty)

Command error: .command.sh: line 2: msslookup: command not found

Work dir: /scratch/oknjav001/transcriptomics/proteogenomics/yafengpipeline/workflow/work/ca/9ad120ca3834cfe3829f7bae5ab9af

Tip: when you have fixed the problem you can continue the execution appending to the nextflow command line the option -resume

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