Commit 313f2381 authored by Cedric Midoux's avatar Cedric Midoux
Browse files

assembly & add-on

parent a0c6f6d1
......@@ -76,6 +76,7 @@ rule metaspades:
unpack(assembly_input)
output:
contigs = "work/metaSPADES/{reads}/{reads}.contigs.fasta",
all_contigs = "work/metaSPADES/{reads}/contigs.fasta",
done = "work/metaSPADES/{reads}/done"
threads:
20
......@@ -101,7 +102,7 @@ rule metaspades:
"seq "
"--min-len {params.min_len} "
"--out-file {output.contigs} "
"work/metaSPADES/{wildcards.reads}/contigs.fasta "
"{output.all_contigs} "
" ; "
"conda deactivate"
......
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