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James A. Fellows Yates 2022-06-03 22:33:48 +02:00 committed by GitHub
parent 9462032d00
commit ebdd5683b2
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subworkflows/local/profiling.nf
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@ -67,7 +67,6 @@ workflow PROFILING {
.map { .map {
meta, reads, db_meta, db -> meta, reads, db_meta, db ->
def sam_format = params.malt_save_reads ? ' --alignments ./ -za false' : "" def sam_format = params.malt_save_reads ? ' --alignments ./ -za false' : ""
// TODO wut? [9a/a441d6] Submitted process > NFCORE_TAXPROFILER:TAXPROFILER:PROFILING:MALT_RUN (null)
def temp_meta = [ id: meta['db_name'] ] def temp_meta = [ id: meta['db_name'] ]
def new_db_meta = db_meta.clone() def new_db_meta = db_meta.clone()
new_db_meta['db_params'] = db_meta['db_params'] + sam_format new_db_meta['db_params'] = db_meta['db_params'] + sam_format
@ -76,7 +75,6 @@ workflow PROFILING {
[ new_meta, reads, db ] [ new_meta, reads, db ]
} }
.groupTuple(by: [0,2]) .groupTuple(by: [0,2])
.dump(tag: "into_malt")
.multiMap { .multiMap {
it -> it ->
reads: [ it[0], it[1].flatten() ] reads: [ it[0], it[1].flatten() ]