debugging

theislab · Dec 6, 2023 · 8575aa4 · 8575aa4
1 parent f00e1e6
commit 8575aa4
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Showing 3 changed files with 5 additions and 3 deletions.
diff --git a/.gitignore b/.gitignore
@@ -6,4 +6,5 @@ result*/
 testing/
 testing*
 *.pyc
-docs/build/
+docs/build/
+nextflow_internal.config
diff --git a/docs/source/hashing.md b/docs/source/hashing.md
@@ -134,7 +134,7 @@ output directory: `$pipeline_output_folder/gmm_demux/gmm_demux_[task_ID/sampleId
 
 output directory: `$pipeline_output_folder/bff/bff_[task_ID/sampleId]`
 
-- `${params.assignmentOutBff}_assignment_demuxmix.csv`: the assignment and classification results produced by BFF
+- `${params.assignmentOutBff}_assignment_bff.csv`: the assignment and classification results produced by BFF
 - `params.csv`: specified parameters in the BFF task
 
 ## **Parameter**

diff --git a/main.nf b/main.nf
@@ -72,7 +72,7 @@ workflow run_single{
         }
     }
     else if (params.mode == "hashing"){
-
+        print("Running single sample")
         hash_demultiplexing(params.rna_matrix_raw, params.rna_matrix_filtered, params.hto_matrix_raw, params.hto_matrix_filtered)
         if (params.match_donor == "True"){
             donor_match(hash_demultiplexing.out)
@@ -102,6 +102,7 @@ workflow run_single{
 }
 
 workflow {
+    print(params.multi_input)
     if (params.multi_input == null){
         run_single()
     }