Mercurial > repos > refinery-platform > qualimap2_bamqc

changeset 6:a2438e0f1bbf draft default tip

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planemo upload for repository https://github.com/refinery-platform/qualimap2 commit 40f39b0f1c81cae4606d15d1c0bd318b1e4c572d
author refinery-platform
date Mon, 30 Jul 2018 12:18:55 -0400
parents f18b4224ff36
children
files qualimap_bamqc.py
diffstat 1 files changed, 8 insertions(+), 3 deletions(-) [+]
line wrap: on
line diff
--- a/qualimap_bamqc.py	Mon Jul 30 12:12:18 2018 -0400
+++ b/qualimap_bamqc.py	Mon Jul 30 12:18:55 2018 -0400
@@ -34,16 +34,21 @@
     parser.add_argument('--java_mem_size')
 
     args = parser.parse_args()
-
+    
+    # Run qualimap
     qualimap_bamqc(args.input_file, args.java_mem_size)
-
+    
+    # Create .zip archive containing the raw_data_qualimapReport files
     shutil.make_archive(
         'raw_data_qualimapReport',
         'zip',
         os.path.join(QUALIMAP_OUPUT_DIR, 'raw_data_qualimapReport')
     )
-
+    
+    # Move newly created .zip to it's proper Galaxy output file 
     shutil.move("raw_data_qualimapReport.zip", args.out_zip)
+    
+    # Move genome_results.txt to it's proper Galaxy output file 
     shutil.move(
         os.path.join(QUALIMAP_OUPUT_DIR, "genome_results.txt"),
         args.out_results