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set memory in MB (#1260)

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Co-authored-by: Sateesh <33637490+sateeshperi@users.noreply.github.com>
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Benjamin Wingfield 2022-03-01 18:13:05 +00:00 committed by GitHub
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4
modules/plink2/extract/main.nf
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@ -23,11 +23,13 @@ process PLINK2_EXTRACT {
def args = task.ext.args ?: '' def args = task.ext.args ?: ''
def prefix = task.ext.prefix ?: "${meta.id}" def prefix = task.ext.prefix ?: "${meta.id}"
if( "$pgen" == "${prefix}.pgen" ) error "Input and output names are the same, use \"task.ext.prefix\" in modules.config to disambiguate!" if( "$pgen" == "${prefix}.pgen" ) error "Input and output names are the same, use \"task.ext.prefix\" in modules.config to disambiguate!"
def mem_mb = task.memory.toMega()
""" """
plink2 \\ plink2 \\
--threads $task.cpus \\
--memory $mem_mb \\
--pfile ${pgen.baseName} \\ --pfile ${pgen.baseName} \\
$args \\ $args \\
--threads $task.cpus \\
--extract $variants \\ --extract $variants \\
--make-pgen vzs \\ --make-pgen vzs \\
--out ${prefix} --out ${prefix}