nf-core_modules/tools/samtools/index/main.nf

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process samtools_index {
tag "${bam.baseName}"
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container 'quay.io/biocontainers/samtools:1.9--h10a08f8_12'
input:
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path(bam)
output:
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path "*.sorted.bam"
script:
def suff_mem = ("${(task.memory.toBytes() - 6000000000) / task.cpus}" > 2000000000) ? 'true' : 'false'
def avail_mem = (task.memory && suff_mem) ? "-m" + "${(task.memory.toBytes() - 6000000000) / task.cpus}" : ''
"""
samtools sort $bam \\
-@ ${task.cpus} ${avail_mem} \\
-o ${bam.baseName}.sorted.bam
samtools --version &> v_samtools.txt
"""
}