Mercurial > repos > kkonganti > cfsan_centriflaken
diff 0.2.1/modules/spades/assemble/main.nf @ 37:a047ee0e34ae
"planemo upload"
| author | kkonganti |
|---|---|
| date | Wed, 29 Jun 2022 19:24:35 -0400 |
| parents | 77494b0fa3c7 |
| children |
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--- a/0.2.1/modules/spades/assemble/main.nf Wed Jun 29 19:08:47 2022 -0400 +++ b/0.2.1/modules/spades/assemble/main.nf Wed Jun 29 19:24:35 2022 -0400 @@ -23,7 +23,7 @@ script: def args = task.ext.args ?: '' def prefix = task.ext.prefix ?: "${meta.id}" - def maxmem = task.memory.toGiga() + def maxmem = task.memory ? "--memory ${task.memory.toGiga()}" : "" def illumina_reads = illumina ? ( meta.single_end ? "-s $illumina" : "-1 ${illumina[0]} -2 ${illumina[1]}" ) : "" def pacbio_reads = !(pacbio.simpleName ==~ 'dummy_file.*') ? "--pacbio $pacbio" : "" def nanopore_reads = !(nanopore.simpleName ==~ 'dummy_file.*') ? "--nanopore $nanopore" : "" @@ -32,7 +32,7 @@ spades.py \\ $args \\ --threads $task.cpus \\ - --memory $maxmem \\ + $maxmem \\ $custom_hmms \\ $illumina_reads \\ $pacbio_reads \\