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d9e48b70ca
* add software/pairtools * create a branch for pairtools/restrict * fix the different output of conda and docker * remove customized code. * add newline to Frag.bed file. * change the folder of frag.bed. * change \n to \r\n * Remove work.frag.bed Co-authored-by: JoseEspinosa <kadomu@gmail.com>
16 lines
622 B
Text
16 lines
622 B
Text
#!/usr/bin/env nextflow
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nextflow.enable.dsl = 2
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include { PAIRTOOLS_RESTRICT } from '../../../../software/pairtools/restrict/main.nf' addParams( options: ['suffix':'.restrict'] )
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workflow test_pairtools_restrict {
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input = [ [ id:'test', single_end:false ], // meta map
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file("https://raw.githubusercontent.com/open2c/pairtools/master/tests/data/mock.4flip.pairs", checkIfExists: true) ]
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File dig = new File("${workflow.workDir}/frag.bed")
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dig.write("chr1\t0\t50\r\nchr1\t50\t100\r\nchr2\t0\t50\r\nchr2\t50\t100\r\n!\t0\t1\r\n")
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frag = file(dig)
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PAIRTOOLS_RESTRICT ( input, frag )
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}
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