Mercurial > repos > pimarin > data_manager_bakta

comparison data_manager/bakta_build_database.py @ 10:9c65e5da43e2 draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_bakta commit 20b67e8bc2fdd0b7923a2da9d6828eb4e06b6bd8-dirty
author pimarin
date Thu, 27 Oct 2022 15:56:22 +0000
parents faae5d8ce0cb
children c50e8b4f74d7
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9:683b09c92299 10:9c65e5da43e2
239 bakta_db = bakta_upload.fetch_db_versions( 239 bakta_db = bakta_upload.fetch_db_versions(
240 db_version=all_args.database_version) 240 db_version=all_args.database_version)
241 # update the path for galaxy 241 # update the path for galaxy
242 bakta_upload.db_dir = target_dir 242 bakta_upload.db_dir = target_dir
243 # download the database 243 # download the database
244 print(bakta_db)
244 bakta_upload.download() 245 bakta_upload.download()
245 # check md5 sum 246 # check md5 sum
246 bakta_upload.calc_md5_sum() 247 bakta_upload.calc_md5_sum()
247 # untar db 248 # untar db
248 bakta_extracted_path = bakta_upload.untar() 249 bakta_extracted_path = bakta_upload.untar()