ebi-eva-common-pyutils 0.6.13__tar.gz → 0.6.14__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/CHANGELOG.md +6 -0
- {ebi_eva_common_pyutils-0.6.13/ebi_eva_common_pyutils.egg-info → ebi_eva_common_pyutils-0.6.14}/PKG-INFO +1 -1
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14/ebi_eva_common_pyutils.egg-info}/PKG-INFO +1 -1
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils.egg-info/SOURCES.txt +1 -1
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/spring_properties.py +3 -1
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/setup.py +1 -1
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/LICENSE +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/MANIFEST.in +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/README.md +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/__init__.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/assembly/__init__.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/assembly/assembly.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/assembly_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/biosamples_communicators.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/command_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/common_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/config.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/contig_alias/__init__.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/contig_alias/contig_alias.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/ena_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/file_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/logger.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/ncbi_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/network_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/reference/__init__.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/reference/assembly.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/reference/sequence.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/taxonomy/__init__.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/taxonomy/taxonomy.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/variation/__init__.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils/variation/contig_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils.egg-info/dependency_links.txt +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils.egg-info/requires.txt +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_common_pyutils.egg-info/top_level.txt +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/__init__.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/archive_directory.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/config_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/metadata_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/mongo_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/mongodb/__init__.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/mongodb/mongo_database.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/nextflow/__init__.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/nextflow/nextflow_pipeline.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/ebi_eva_internal_pyutils/pg_utils.py +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/setup.cfg +0 -0
- {ebi_eva_common_pyutils-0.6.13 → ebi_eva_common_pyutils-0.6.14}/tests/test_common.py +0 -0
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@@ -4,7 +4,7 @@ MANIFEST.in
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README.md
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setup.cfg
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setup.py
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/tmp/ebi_eva_common_pyutils-v0.6.
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/tmp/ebi_eva_common_pyutils-v0.6.14-5o4eugy3/gitclone/ebi_eva_internal_pyutils/archive_directory.py
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ebi_eva_common_pyutils/__init__.py
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ebi_eva_common_pyutils/assembly_utils.py
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ebi_eva_common_pyutils/biosamples_communicators.py
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@@ -12,6 +12,7 @@
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# See the License for the specific language governing permissions and
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# limitations under the License.
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from collections import defaultdict
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from urllib.parse import quote_plus
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from ebi_eva_internal_pyutils.config_utils import get_mongo_creds_for_profile, get_accession_pg_creds_for_profile, \
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get_count_service_creds_for_profile, get_properties_from_xml_file, get_variant_load_job_tracker_creds_for_profile
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def _mongo_properties(self):
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mongo_host, mongo_user, mongo_pass = get_mongo_creds_for_profile(
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self.maven_profile, self.private_settings_file)
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username_with_password = f'{mongo_user}:{mongo_pass}@'
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username_with_password = (f'{quote_plus(mongo_user)}:{quote_plus(mongo_pass)}@'
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if mongo_user is not None and mongo_pass is not None else '')
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return {
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'spring.data.mongodb.uri': f'mongodb://{username_with_password}{mongo_host}/?retryWrites=true&authSource=admin',
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}
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name='ebi_eva_common_pyutils',
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scripts=[os.path.join(os.path.dirname(__file__), 'ebi_eva_internal_pyutils', 'archive_directory.py')],
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packages=find_packages(),
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version='0.6.
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version='0.6.14',
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license='Apache',
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description='EBI EVA - Common Python Utilities',
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url='https://github.com/EBIVariation/eva-common-pyutils',
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