Mercurial > repos > scottx611x > qualimap2_bamqc
comparison qualimap_bamqc.py @ 39:2284e9b4c6b2 draft
planemo upload for repository https://github.com/scottx611x/qualimap2 commit dc78b7c4b1780b316ca4aba2be247969ac1100ec-dirty
author | scottx611x |
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date | Fri, 27 Jul 2018 11:42:35 -0400 |
parents | 6b6e03e84a42 |
children | 98944e914637 |
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38:6b6e03e84a42 | 39:2284e9b4c6b2 |
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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() |