From 2ef21c6ef3e46ae824ad5c99970b8a5250ef8e38 Mon Sep 17 00:00:00 2001
From: James Fellows Yates <jfy133@gmail.com>
Date: Tue, 12 Apr 2022 10:14:05 +0200
Subject: [PATCH] Fix input to profiling

---
 subworkflows/local/profiling.nf | 1 -
 workflows/taxprofiler.nf        | 2 +-
 2 files changed, 1 insertion(+), 2 deletions(-)

diff --git a/subworkflows/local/profiling.nf b/subworkflows/local/profiling.nf
index 07b6b72..ac744aa 100644
--- a/subworkflows/local/profiling.nf
+++ b/subworkflows/local/profiling.nf
@@ -23,7 +23,6 @@ workflow PROFILING {
     // 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]
     ch_input_for_profiling = reads
             .combine(databases)
-            .dump(tag: "combined_withdbs")
             .branch {
                 malt:    it[2]['tool'] == 'malt'
                 kraken2: it[2]['tool'] == 'kraken2'
diff --git a/workflows/taxprofiler.nf b/workflows/taxprofiler.nf
index 0916cac..7c02f4c 100644
--- a/workflows/taxprofiler.nf
+++ b/workflows/taxprofiler.nf
@@ -167,7 +167,7 @@ workflow TAXPROFILER {
         SUBWORKFLOW: PROFILING
     */
 
-    PROFILING ( ch_reads_runmerged, ch_longreads_preprocessed, DB_CHECK.out.dbs )
+    PROFILING ( ch_reads_runmerged, DB_CHECK.out.dbs )
     ch_versions = ch_versions.mix( PROFILING.out.versions )
 
     /*