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update code

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This commit is contained in:
Carpanzano 2022-05-02 16:10:57 +02:00
parent 41fd2d1557
commit 38d9d81aaf
1 changed files with 9 additions and 5 deletions
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14
tests/modules/krona/ktimporttaxonomy/main.nf
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@ -2,9 +2,11 @@
nextflow.enable.dsl = 2 nextflow.enable.dsl = 2
include { KRONA_KTIMPORTTAXONOMY_READS } from '../../../../modules/krona/ktimporttaxonomy/main.nf' include { KRONA_KTIMPORTTAXONOMY as TAXONOMY_READS } from '../../../../modules/krona/ktimporttaxonomy/main.nf'
include { KRONA_KTIMPORTTAXONOMY_REPORT } from '../../../../modules/krona/ktimporttaxonomy/main.nf' include { KRONA_KTIMPORTTAXONOMY as TAXONOMY_REPORT } from '../../../../modules/krona/ktimporttaxonomy/main.nf'
include { KRONA_KRONADB as DOWNLOAD_DB } from '../../../../modules/krona/kronadb/main.nf'
workflow test_krona_ktimporttaxonomy_reads { workflow test_krona_ktimporttaxonomy_reads {
@ -12,9 +14,10 @@ workflow test_krona_ktimporttaxonomy_reads {
[ id:'test', single_end:false ], // meta map [ id:'test', single_end:false ], // meta map
file(params.test_data['sarscov2']['metagenome']['test_1.kraken2.reads.txt'], checkIfExists: true) file(params.test_data['sarscov2']['metagenome']['test_1.kraken2.reads.txt'], checkIfExists: true)
] ]
taxonomy = file(params.test_data['generic']['txt']['hello'], checkIfExists: true) // taxonomy = file(params.test_data['generic']['txt']['hello'], checkIfExists: true)
KRONA_KTIMPORTTAXONOMY_READS ( input, taxonomy ) DOWNLOAD_DB()
TAXONOMY_READS ( input, DOWNLOAD_DB.out.db )
} }
workflow test_krona_ktimporttaxonomy_report { workflow test_krona_ktimporttaxonomy_report {
@ -25,5 +28,6 @@ workflow test_krona_ktimporttaxonomy_report {
] ]
taxonomy = file(params.test_data['generic']['txt']['hello'], checkIfExists: true) taxonomy = file(params.test_data['generic']['txt']['hello'], checkIfExists: true)
KRONA_KTIMPORTTAXONOMY_REPORT ( input, taxonomy ) TDOWNLOAD_DB()
TAXONOMY_REPORT ( input, DOWNLOAD_DB.out.db )
} }