Mercurial > repos > estrain > data_manager_amrfinderplus
changeset 3:f04658d0a54e draft
Uploaded
| author | estrain |
|---|---|
| date | Sun, 22 May 2022 17:47:07 +0000 |
| parents | 985615d35727 |
| children | 2173237e0714 |
| files | data_manager_amrfinderplus/data_manager/data_manager_amrfinderplus.py |
| diffstat | 1 files changed, 2 insertions(+), 3 deletions(-) [+] |
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--- a/data_manager_amrfinderplus/data_manager/data_manager_amrfinderplus.py Sun May 22 17:46:39 2022 +0000 +++ b/data_manager_amrfinderplus/data_manager/data_manager_amrfinderplus.py Sun May 22 17:47:07 2022 +0000 @@ -82,7 +82,6 @@ parser = argparse.ArgumentParser(description='Download NCBI amrFinderPlus Databases') parser.add_argument('--name', type=str, required=True, nargs=1, help='Database name') - parser.add_argument('--path', type=str, required=True, nargs=1, help='Absolute path to new database folder') parser.add_argument('--value', type=str, required=True, nargs=1, help='Database value') parser.add_argument('--key', type=str, required=True, nargs=1, help='Database value') parser.add_argument('--out', type=str, required=True, nargs=1, help='output file') @@ -95,7 +94,7 @@ version=download_from_ncbi() os.chdir("..") - shutil.copytree("output",args.path[0]) - print_json(version,args.key[0],args.path[0],args.name[0],args.value[0],args.out[0]) + #shutil.copytree("output",args.path[0]) + print_json(version,args.key[0],os.path.abspath("output"),args.name[0],args.value[0],args.out[0]) if __name__ == "__main__": main()