Mercurial > repos > pimarin > data_manager_fetch_plasmidfinder

comparison data_manager/plasmidfinder_fetch_database.py @ 9:464ffa0526c6 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_plasmidfinder commit 8146dca92a35830d7e83d8eff031a92cdc7591bd-dirty
author pimarin
date Wed, 23 Aug 2023 12:42:32 +0000
parents f99089461adb
children
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8:f99089461adb 9:464ffa0526c6
85 self._plasmidfinder_version = plasmidfinder_version 85 self._plasmidfinder_version = plasmidfinder_version
86 self._plasmidfinder_date_version = date_version 86 self._plasmidfinder_date_version = date_version
87 self._commit_number = None 87 self._commit_number = None
88 88
89 def git_clone(self): 89 def git_clone(self):
90 git.Repo.clone_from(url=self._plasmidfinder_url, to_path=self._output_dir) 90 self.plasmidfinder_db_path = f'{self._output_dir}/{self._db_name}'
91 self._plasmidfinder_repository = git.Repo(path=self._output_dir) 91 git.Repo.clone_from(url=self._plasmidfinder_url, to_path=self.plasmidfinder_db_path)
92 self._plasmidfinder_repository = git.Repo(path=self.plasmidfinder_db_path)
92 93
93 def get_commit_number(self): 94 def get_commit_number(self):
94 sha = self._plasmidfinder_repository.head.commit.hexsha 95 sha = self._plasmidfinder_repository.head.commit.hexsha
95 short_sha = self._plasmidfinder_repository.git.rev_parse(sha, short=7) 96 short_sha = self._plasmidfinder_repository.git.rev_parse(sha, short=7)
96 self._commit_number = short_sha 97 self._commit_number = short_sha