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refactor: make mappings explicit

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This commit is contained in:
Moritz E. Beber 2022-11-29 10:14:20 +01:00
parent a383c9ae40
commit ddcf38de22
1 changed files with 4 additions and 7 deletions
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11
subworkflows/local/profiling.nf
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@ -271,17 +271,14 @@ workflow PROFILING {
ch_input_for_krakenuniq = ch_input_for_profiling.krakenuniq
.map {
meta, reads, db_meta, db ->
def meta_new = [:]
meta_new['single_end'] = meta['single_end']
[meta_new, reads, db_meta, db]
[[single_end: meta.single_end], reads, db_meta, db]
}
.groupTuple(by: [0,2,3])
.dump(tag: "krakenuniq_premultimap")
.multiMap {
it ->
reads: [ it[0] + it[2], it[1] ]
db: it[3]
single_meta, reads, db_meta, db ->
reads: [ single_meta + db_meta, reads.flatten() ]
db: db
}
// Hardcode to _always_ produce the report file (which is our basic otput, and goes into)
KRAKENUNIQ_PRELOADEDKRAKENUNIQ ( ch_input_for_krakenuniq.reads.dump(tag: "krakenuniq_input"), ch_input_for_krakenuniq.db.dump(tag: "krakenuniq_db"), params.krakenuniq_ram_chunk_size, params.krakenuniq_save_reads, true, params.krakenuniq_save_readclassifications )