comparison data_manager/gtdbtk_database_installer.py @ 6:df84aaed4769 draft

planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_gtdbtk_database_installer commit a7a73e892ade5f3cb5207c411b8ac27b684316ff

5:e7b39a7e0024

            os.remove(tarball)
        else:
            # handle the test case for the DB
            return tarball

        fh.extractall(target_directory)
        fh.close()
        os.remove(tarball)
        # The tarball extraction will create a directory named
        # something like release202 in the target_directory, so
        # we need to move the items in that directory to the
        # target directory.
        subdir = next(os.walk(target_directory))[1][0]

    if test:
        # switch the DB to use the test case
        urls[release][
            "full"
        ] = "https://data.gtdb.ecogenomic.org/releases/release220/220.0/VERSION.txt"

        # make use of the test to check if all urls exists
        for _version, items in urls.items():
            for url in items.values():
                assert is_urlfile(url)

6:df84aaed4769

            os.remove(tarball)
        else:
            # handle the test case for the DB
            return tarball

        # The tarball extraction will create a directory named
        # something like release202 in the target_directory, so
        # we need to move the items in that directory to the
        # target directory.
        subdir = next(os.walk(target_directory))[1][0]

    if test:
        # switch the DB to use the test case
        urls[release][
            "full"
        ] = "https://zenodo.org/records/13734217/files/release220-test.tar.gz"

        # make use of the test to check if all urls exists
        for _version, items in urls.items():
            for url in items.values():
                assert is_urlfile(url)