Removed schema-input.json, fixed typo

The samplesheet schema did not properly work to validate the samplesheet. It's easier to remove it and validate it ourselves later.
Ferlab-Ste-Justine · Jul 9, 2024 · 0413f7a · 0413f7a
1 parent 8729e1d
commit 0413f7a
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -10,7 +10,7 @@ Initial release of ferlab/postprocessing, created with the [nf-core](https://nf-
 ### `Added`
 
 ### `Fixed`
-[#1]https://github.com/FelixAntoineLeSieur/Post-processing-Pipeline/pull/1 Fixed template schemas
+[#1](https://github.com/FelixAntoineLeSieur/Post-processing-Pipeline/pull/1) Fixed template schemas
 
 ### `Dependencies`
 

diff --git a/assets/schema_input.json b/assets/schema_input.json
diff --git a/nextflow_schema.json b/nextflow_schema.json
@@ -20,8 +20,7 @@
                     "pattern": "^\\S+\\.tsv$",
                     "description": "Path to the .tsv sample file, of format V1 or V2, containing the Family ID and path to GVCF files",
                     "help_text": "You will need to create a design file with information about the samples in your experiment before running the pipeline. Use this parameter to specify its location. It has to be a comma-separated file with 3 columns, and a header row.",
-                    "fa_icon": "fas fa-file-csv",
-                    "schema": "assets/schema_input.json"
+                    "fa_icon": "fas fa-file-csv"
                 },
                 "outdir": {
                     "type": "string",

diff --git a/subworkflows/local/utils_nfcore_postprocessing_pipeline/main.nf b/subworkflows/local/utils_nfcore_postprocessing_pipeline/main.nf
@@ -80,6 +80,7 @@ workflow PIPELINE_INITIALISATION {
     //
     // Create channel from input file provided through params.input
     //
+    /*
     Channel
         .fromSamplesheet("input")
         .map {
@@ -103,6 +104,7 @@ workflow PIPELINE_INITIALISATION {
     emit:
     samplesheet = ch_samplesheet
     versions    = ch_versions
+    */
 }
 
 /*
-Original file line number
+Diff line change
@@ Expand Up / @@ -80,6 +80,7 @@ workflow PIPELINE_INITIALISATION { @@
         //
         // Create channel from input file provided through params.input
         //
+        /*
         Channel
             .fromSamplesheet("input")
             .map {
@@ Expand All / @@ -103,6 +104,7 @@ workflow PIPELINE_INITIALISATION { @@
         emit:
         samplesheet = ch_samplesheet
         versions    = ch_versions
+        */
     }
     /*
@@ Expand Down @@