Mercurial > repos > bebatut > data_manager_metaphlan2_database_downloader
changeset 21:d77a7bd60154 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_metaphlan2_database_downloader commit b'3deaa3adf381c1f3f6134ef6a36074d443f7e3fc\n'-dirty
| author | bebatut |
|---|---|
| date | Wed, 01 Mar 2017 09:54:44 -0500 |
| parents | 56cd4020f05a |
| children | 8602983cb86f |
| files | data_manager/data_manager_metaphlan2_download.py data_manager_conf.xml |
| diffstat | 2 files changed, 2 insertions(+), 1 deletions(-) [+] |
line wrap: on
line diff
--- a/data_manager/data_manager_metaphlan2_download.py Wed Mar 01 09:47:08 2017 -0500 +++ b/data_manager/data_manager_metaphlan2_download.py Wed Mar 01 09:54:44 2017 -0500 @@ -97,6 +97,7 @@ today = datetime.date.today() cmd = "download_metaphlan2_db.py --output %s" % (target_dir) db_dir = os.path.join(target_dir, build) + print(db_dir) subprocess.check_call(cmd, shell=True) print(os.listdir(target_dir)) os.rename(os.path.join(target_dir,"db_v20"), db_dir)
--- a/data_manager_conf.xml Wed Mar 01 09:47:08 2017 -0500 +++ b/data_manager_conf.xml Wed Mar 01 09:54:44 2017 -0500 @@ -9,7 +9,7 @@ <column name="path" output_ref="out_file" > <move type="directory"> <source>${path}</source> - <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">metaphlan2/data/</target> + <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">metaphlan2/data/${dbkey}</target> </move> <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/metaphlan2/data/${dbkey}</value_translation> <value_translation type="function">abspath</value_translation>