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Fix input to profiling
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2 changed files with 1 additions and 2 deletions
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@ -23,7 +23,6 @@ workflow PROFILING {
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// e.g. output [DUMP: reads_plus_db] [['id':'2612', 'run_accession':'combined', 'instrument_platform':'ILLUMINA', 'single_end':1], <reads_path>/2612.merged.fastq.gz, ['tool':'malt', 'db_name':'mal95', 'db_params':'"-id 90"'], <db_path>/malt90]
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// e.g. output [DUMP: reads_plus_db] [['id':'2612', 'run_accession':'combined', 'instrument_platform':'ILLUMINA', 'single_end':1], <reads_path>/2612.merged.fastq.gz, ['tool':'malt', 'db_name':'mal95', 'db_params':'"-id 90"'], <db_path>/malt90]
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ch_input_for_profiling = reads
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ch_input_for_profiling = reads
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.combine(databases)
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.combine(databases)
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.dump(tag: "combined_withdbs")
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.branch {
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.branch {
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malt: it[2]['tool'] == 'malt'
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malt: it[2]['tool'] == 'malt'
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kraken2: it[2]['tool'] == 'kraken2'
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kraken2: it[2]['tool'] == 'kraken2'
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@ -167,7 +167,7 @@ workflow TAXPROFILER {
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SUBWORKFLOW: PROFILING
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SUBWORKFLOW: PROFILING
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*/
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*/
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PROFILING ( ch_reads_runmerged, ch_longreads_preprocessed, DB_CHECK.out.dbs )
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PROFILING ( ch_reads_runmerged, DB_CHECK.out.dbs )
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ch_versions = ch_versions.mix( PROFILING.out.versions )
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ch_versions = ch_versions.mix( PROFILING.out.versions )
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/*
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/*
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