Mercurial > repos > scottx611x > data_manager_fetch_gene_annotation
changeset 27:492505471c3f draft
planemo upload
| author | scottx611x |
|---|---|
| date | Thu, 23 Jun 2016 15:46:41 -0400 |
| parents | 2f03bb5788e1 |
| children | cda45d5c11d2 |
| files | data_manager_gene_annotation/data_manager/data_manager.py data_manager_gene_annotation/data_manager_conf.xml |
| diffstat | 2 files changed, 3 insertions(+), 3 deletions(-) [+] |
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--- a/data_manager_gene_annotation/data_manager/data_manager.py Thu Jun 23 15:38:26 2016 -0400 +++ b/data_manager_gene_annotation/data_manager/data_manager.py Thu Jun 23 15:46:41 2016 -0400 @@ -28,7 +28,7 @@ args = parser.parse_args() -def url_download(url, name): +def url_download(url): response = requests.get(url=url, stream=True) # Generate file_name @@ -52,7 +52,7 @@ def main(args): # Attempt to download gene annotation file from given url - gene_annotation_file_name = url_download(args.url, args.name) + gene_annotation_file_name = url_download(args.url) # Update Data Manager JSON and write to file data_manager_entry = {
--- a/data_manager_gene_annotation/data_manager_conf.xml Thu Jun 23 15:38:26 2016 -0400 +++ b/data_manager_gene_annotation/data_manager_conf.xml Thu Jun 23 15:46:41 2016 -0400 @@ -7,7 +7,7 @@ <column name="value" /> <column name="dbkey" /> <column name="name" /> - <column name="path" output_ref="out_file"> + <column name="path"> <move type="file"> <source>${path}</source> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/gene_annotations/${path}</target>