Created
March 22, 2018 10:16
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| // Hack nextflow workflow that removes intermediate files generated | |
| // by process A once process B is done with the files | |
| inputA = Channel.from( | |
| [1, file('f1')], | |
| [2, file('f2')], | |
| [3, file('f3')], | |
| [4, file('f4')], | |
| [5, file('f5')]) | |
| process A { | |
| tag "$id - $f" | |
| input: | |
| set val(id), file(f) from inputA | |
| output: | |
| set val(id), file("f.${id}.A") into outputA | |
| script: """ | |
| FILE=f.${id}.A | |
| echo "A $id" > \$FILE | |
| cat $f >> \$FILE | |
| """ | |
| } | |
| outputA.into { inputB; outputAc } | |
| process B { | |
| tag "$id - $f" | |
| input: | |
| set val(id), file(f) from inputB | |
| output: | |
| set val(id), file("f.${id}.B") into outputB | |
| publishDir "DONE" | |
| script: | |
| """ | |
| FILE=f.${id}.B | |
| echo "B $id" > \$FILE | |
| cat $f >> \$FILE | |
| """ | |
| } | |
| remover_input = outputAc.join( outputB ) | |
| process Remover { | |
| tag "$id - $f1 - $f2" | |
| input: | |
| set val(id), file(f1), file(f2) from remover_input | |
| script: | |
| """ | |
| ORIG=\$(readlink "$f1") | |
| unlink "\$ORIG" | |
| """ | |
| } |
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