nf-core doesn't like the whitespace

sanger-tol · Jul 15, 2024 · 68b369b · 68b369b
1 parent 01a1b26
commit 68b369b
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Showing 10 changed files with 10 additions and 10 deletions.
diff --git a/modules/local/extract_repeat.nf b/modules/local/extract_repeat.nf
@@ -8,7 +8,7 @@ process EXTRACT_REPEAT {
         'biocontainers/perl:5.26.2' }"
 
     input:
-    tuple val( meta ), path( file )
+    tuple val(meta), path(file)
 
     output:
     tuple val( meta ), path( "*.bed" )  , emit: bed

diff --git a/modules/local/extract_telo.nf b/modules/local/extract_telo.nf
@@ -8,7 +8,7 @@ process EXTRACT_TELO {
     'docker.io/ubuntu:20.04' }"
 
     input:
-    tuple val( meta ), path( file )
+    tuple val(meta), path(file)
 
     output:
     tuple val( meta ), file( "*bed" )   , emit: bed

diff --git a/modules/local/find_telomere_regions.nf b/modules/local/find_telomere_regions.nf
@@ -10,7 +10,7 @@ process FIND_TELOMERE_REGIONS {
     }
 
     input:
-    tuple val( meta ), path( file )
+    tuple val(meta), path(file)
     val (telomereseq)
 
     output:

diff --git a/modules/local/find_telomere_windows.nf b/modules/local/find_telomere_windows.nf
@@ -9,7 +9,7 @@ process FIND_TELOMERE_WINDOWS {
         'biocontainers/java-jdk:8.0.112--1' }"
 
     input:
-    tuple val( meta ), path( file )
+    tuple val(meta), path(file)
 
     output:
     tuple val( meta ), file( "*.windows" ) , emit: windows

diff --git a/modules/local/gap_length.nf b/modules/local/gap_length.nf
@@ -8,7 +8,7 @@ process GAP_LENGTH {
     'docker.io/ubuntu:20.04' }"
 
     input:
-    tuple val( meta ), path( file )
+    tuple val(meta), path(file)
 
     output:
     tuple val( meta ), file( "*bedgraph" )  , emit: bed

diff --git a/modules/local/generate_genome_file.nf b/modules/local/generate_genome_file.nf
@@ -8,7 +8,7 @@ process GENERATE_GENOME_FILE {
     'docker.io/ubuntu:20.04' }"
 
     input:
-    tuple val( meta ), path( fai )
+    tuple val(meta), path(fai)
 
     output:
     tuple val( meta ), file( "my.genome" )      , emit: dotgenome

diff --git a/modules/local/get_largest_scaff.nf b/modules/local/get_largest_scaff.nf
@@ -9,7 +9,7 @@ process GET_LARGEST_SCAFF {
     'docker.io/ubuntu:20.04' }"
 
     input:
-    tuple val( meta ), path( file )
+    tuple val(meta), path(file)
 
     output:
     env largest_scaff   , emit: scaff_size

diff --git a/modules/local/reformat_intersect.nf b/modules/local/reformat_intersect.nf
@@ -8,7 +8,7 @@ process REFORMAT_INTERSECT {
     'docker.io/ubuntu:20.04' }"
 
     input:
-    tuple val( meta ), path( file )
+    tuple val(meta), path(file)
 
     output:
     tuple val( meta ), file( "*.bed" ), emit: bed

diff --git a/modules/local/rename_ids.nf b/modules/local/rename_ids.nf
@@ -8,7 +8,7 @@ process RENAME_IDS {
     'docker.io/ubuntu:20.04' }"
 
     input:
-    tuple val( meta ), path( file )
+    tuple val(meta), path(file)
 
     output:
     tuple val( meta ), file( "*bed" )   , emit: bed

diff --git a/modules/local/replace_dots.nf b/modules/local/replace_dots.nf
@@ -8,7 +8,7 @@ process REPLACE_DOTS {
     'docker.io/ubuntu:20.04' }"
 
     input:
-    tuple val( meta ), path( file )
+    tuple val(meta), path(file)
 
     output:
     tuple val( meta ), file( "*bed" ),  emit: bed
-Original file line number
+Diff line change
@@ Expand Up / @@ -10,7 +10,7 @@ process FIND_TELOMERE_REGIONS { @@
         }
         input:
-        tuple val( meta ), path( file )
+        tuple val(meta), path(file)
         val (telomereseq)
         output:
@@ Expand Down @@