[FIX] Found errors in qc after debbuging (#69)

* fix on `fastqc` module and `qc_reports` workflow * updating multiqc version * Update workflows/qc_reports.nf * Update modules/qc/fastqc.nf Co-authored-by: Abhinav Sharma <[email protected]>
mycobactopia-org · May 4, 2022 · ad52933 · ad52933
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commit ad52933
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diff --git a/conda_envs/mtbseq-nf-env.yml b/conda_envs/mtbseq-nf-env.yml
@@ -6,4 +6,4 @@ dependencies:
   - bioconda::mtbseq=1.0.3
   - bioconda/linux-64::gatk=3.8.0=py36_0
   - bioconda::fastqc=0.11.9
-  - bioconda::multiqc=1.9
+  - bioconda::multiqc=1.12
diff --git a/modules/qc/fastqc.nf b/modules/qc/fastqc.nf
@@ -7,7 +7,7 @@ process FASTQC {
 
     output:
     tuple path('*.html'), path('*.zip')
-
+    path("*.{html,zip}"), emit: html_zip_ch
 
     script:
 

diff --git a/workflows/qc_reports.nf b/workflows/qc_reports.nf
@@ -8,6 +8,6 @@ workflow QC_REPORTS {
 
     main:
          FASTQC(reads_ch)
-         MULTIQC(FASTQC.out.collect())
+         MULTIQC(FASTQC.out.html_zip_ch.collect())
 
 }