Code review: fix formatting

galaxyproject · Nov 3, 2024 · 9ffa3f9 · 9ffa3f9
1 parent 8a766c2
commit 9ffa3f9
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Showing 2 changed files with 9 additions and 10 deletions.
diff --git a/tools/irma/IRMA.xml b/tools/irma/IRMA.xml
@@ -18,14 +18,14 @@
         #if $input_type == 'single'
 
         #if $input_type_conditional.fastq_input1.is_of_type('fastq.gz')
-        ln -sf '${input_type_conditional.fastq_input1}' file1.fastq.gz &&
+            ln -sf '${input_type_conditional.fastq_input1}' file1.fastq.gz &&
         #end if
 
         #elif $input_type == 'paired_collection'
 
         #if $input_type_conditional.fastq_input.forward.is_of_type('fastq.gz')
-        ln -sf '${input_type_conditional.fastq_input.forward}' file1.fastq.gz &&
-        ln -sf '${input_type_conditional.fastq_input.reverse}'  file2.fastq.gz &&
+            ln -sf '${input_type_conditional.fastq_input.forward}' file1.fastq.gz &&
+            ln -sf '${input_type_conditional.fastq_input.reverse}'  file2.fastq.gz &&
         #end if
 
         #end if
@@ -37,19 +37,19 @@
         #if $input_type_conditional.input_type == 'single'
 
         #if $input_type_conditional.fastq_input1.is_of_type('fastq.gz')
-        file1.fastq.gz
+            file1.fastq.gz
         #else 
-        '${input_type_conditional.fastq_input1}'
+            '${input_type_conditional.fastq_input1}'
         #end if
 
         #elif $input_type_conditional.input_type == 'paired_collection'
         
         #if $input_type_conditional.fastq_input.forward.is_of_type('fastq.gz')
-        file1.fastq.gz
-        file2.fastq.gz
+            file1.fastq.gz
+            file2.fastq.gz
         #else 
-        '${input_type_conditional.fastq_input.forward}'
-        '${input_type_conditional.fastq_input.reverse}'
+            '${input_type_conditional.fastq_input.forward}'
+            '${input_type_conditional.fastq_input.reverse}'
         #end if
 
         #end if

diff --git a/tools/irma/createMissingFiles.py b/tools/irma/createMissingFiles.py
@@ -19,7 +19,6 @@ def getMissingSegments():
     for file in os.listdir(dirPrefix):
         if file.endswith(".fasta"):
             presentSegments.append(file.split('.')[0])
-    print(presentSegments)
     return [segment for segment in expectedSegments
             if segment not in presentSegments]