| Previous changeset 15:6261b513ae1b (2016-06-22) Next changeset 17:57b716eee99f (2016-06-22) |
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Commit message:
Uploaded |
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modified:
data_manager_gene_annotation/data_manager/data_manager.py |
| b |
| diff -r 6261b513ae1b -r 9002c2f64e2a data_manager_gene_annotation/data_manager/data_manager.py --- a/data_manager_gene_annotation/data_manager/data_manager.py Wed Jun 22 16:25:38 2016 -0400 +++ b/data_manager_gene_annotation/data_manager/data_manager.py Wed Jun 22 16:35:28 2016 -0400 |
| b |
| @@ -30,14 +30,11 @@ def url_download(url, name, workdir): - # Create path if it doesn't exist - if not os.path.exists(workdir): - os.makedirs(workdir) response = requests.get(url=url, stream=True) # Create path that we will write the file to - file_path = os.path.join(workdir, 'download_{}.dat'.format(name)) + file_path = 'download_{}.dat'.format(name) block_size = 10 * 1024 * 1024 # 10MB chunked download with open(file_path, 'w+') as f: @@ -56,7 +53,7 @@ workdir = os.path.join(os.getcwd(), 'gene_annotation') # Attempt to download gene annotation file from given url - gene_annotation_file_path = url_download(args.url, args.name, workdir) + gene_annotation_file_path = url_download("http://www.scott-ouellette.com/gene_annotations/chr1-hg19_genes.gtf", args.name, workdir) # Update Data Manager Json and write out data_manager_entry = { @@ -65,7 +62,6 @@ 'date': str(datetime.datetime.now()), 'dbkey': str(args.name), 'name': str(args.name), - 'path': gene_annotation_file_path, } } } |