comparison qualimap_bamqc.py @ 39:2284e9b4c6b2 draft

planemo upload for repository https://github.com/scottx611x/qualimap2 commit dc78b7c4b1780b316ca4aba2be247969ac1100ec-dirty
author scottx611x
date Fri, 27 Jul 2018 11:42:35 -0400
parents 6b6e03e84a42
children 98944e914637
comparison
equal deleted inserted replaced
38:6b6e03e84a42 39:2284e9b4c6b2
41 args.out_genome_file, 41 args.out_genome_file,
42 args.out_dir, 42 args.out_dir,
43 args.java_mem_size 43 args.java_mem_size
44 ) 44 )
45 45
46 print(os.listdir(output_dir))
47
48 shutil.make_archive( 46 shutil.make_archive(
49 'raw_data_qualimapReport', 47 'raw_data_qualimapReport',
50 'zip', 48 'zip',
51 args.out_dir + '/raw_data_qualimapReport' 49 args.out_dir + '/raw_data_qualimapReport'
52 ) 50 )
53 51
52 shutil.move("raw_data_qualimapReport.zip", os.path.join(output_dir, file_name)
53
54 [ 54 [
55 shutil.move(file_name, os.path.join(output_dir, file_name)) 55 shutil.move(os.path.join(args.out_dir, file_name), os.path.join(output_dir, file_name))
56 for file_name in [ 56 for file_name in [
57 "genome_results.txt", 57 "genome_results.txt",
58 "qualimapReport.html", 58 "qualimapReport.html"
59 "raw_data_qualimapReport.zip"
60 ] 59 ]
61 ] 60 ]
62 61
63 print(os.listdir(output_dir))
64
65 if __name__ == "__main__": 62 if __name__ == "__main__":
66 main() 63 main()