loqusdb 2.7.22__py3-none-any.whl → 2.7.24__py3-none-any.whl

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Files changed (7) hide show
  1. loqusdb/__init__.py +1 -1
  2. loqusdb/resources/__init__.py +8 -7
  3. {loqusdb-2.7.22.dist-info → loqusdb-2.7.24.dist-info}/METADATA +7 -3
  4. {loqusdb-2.7.22.dist-info → loqusdb-2.7.24.dist-info}/RECORD +7 -7
  5. {loqusdb-2.7.22.dist-info → loqusdb-2.7.24.dist-info}/LICENSE +0 -0
  6. {loqusdb-2.7.22.dist-info → loqusdb-2.7.24.dist-info}/WHEEL +0 -0
  7. {loqusdb-2.7.22.dist-info → loqusdb-2.7.24.dist-info}/entry_points.txt +0 -0
loqusdb/__init__.py CHANGED
@@ -4,7 +4,7 @@ from pymongo import ASCENDING, IndexModel
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  logger = logging.getLogger(__name__)
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- __version__ = "2.7.22"
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+ __version__ = "2.7.24"
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  INDEXES = {
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  "variant": [
loqusdb/resources/__init__.py CHANGED
@@ -1,14 +1,15 @@
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- import pkg_resources
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+ from importlib.resources import files, as_file
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  from loqusdb.constants import GRCH37, GRCH38
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  ###### Files ######
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  # Background data
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+ PATH_NAME = "loqusdb.resources"
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- backround_svs = "resources/loqusdb.20181005.gz"
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- maf_50_grch37 = "resources/maf_50_sites_GRCh37.vcf.gz"
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- maf_50_grch38 = "resources/maf_50_sites_GRCh38.vcf.gz"
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+ backround_svs = "loqusdb.20181005.gz"
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+ maf_50_grch37 = "maf_50_sites_GRCh37.vcf.gz"
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+ maf_50_grch38 = "maf_50_sites_GRCh38.vcf.gz"
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  ### Profile SNPs for Grch37 and 38
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@@ -16,9 +17,9 @@ maf_50_grch38 = "resources/maf_50_sites_GRCh38.vcf.gz"
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  # Backround data path
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- background_path = pkg_resources.resource_filename("loqusdb", backround_svs)
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+ background_path = str(files(PATH_NAME).joinpath(backround_svs))
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- maf_grch37_path = pkg_resources.resource_filename("loqusdb", maf_50_grch37)
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- maf_grch38_path = pkg_resources.resource_filename("loqusdb", maf_50_grch38)
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+ maf_grch37_path = str(files(PATH_NAME).joinpath(maf_50_grch37))
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+ maf_grch38_path = str(files(PATH_NAME).joinpath(maf_50_grch38))
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  MAF_PATH = {GRCH37: maf_grch37_path, GRCH38: maf_grch38_path}
{loqusdb-2.7.22.dist-info → loqusdb-2.7.24.dist-info}/METADATA RENAMED
@@ -1,10 +1,11 @@
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  Metadata-Version: 2.3
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  Name: loqusdb
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- Version: 2.7.22
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+ Version: 2.7.24
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  Summary: A simple observation count database
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  License: MIT
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- Author: Your Name
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- Author-email: you@example.com
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+ Author: Mans Magnuson
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+ Author-email: monsunas@gmail.com
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+ Maintainer: Clinical Genomics Bioinformatics Team
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  Requires-Python: >=3.12,<4.0
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  Classifier: License :: OSI Approved :: MIT License
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  Classifier: Programming Language :: Python :: 3
@@ -34,6 +35,8 @@ Right now **Locusdb** uses [mongodb][mongodb] as backend for
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  storing variants, but there should not be a huge difference to use another
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  database manager.
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+ Find more detailed instructions and examples in the [documentation][docs].
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+
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  ## Installation ##
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@@ -166,6 +169,7 @@ The collections are defined as follows:
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  }
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  ```
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+ [docs]: https://clinical-genomics.github.io/loqusdb
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  [mongodb]: https://www.mongodb.org
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  [publication]: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-020-03609-z
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  [pypi-img]: https://img.shields.io/pypi/v/loqusdb.svg?style=flat-square
{loqusdb-2.7.22.dist-info → loqusdb-2.7.24.dist-info}/RECORD RENAMED
@@ -1,4 +1,4 @@
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- loqusdb/__init__.py,sha256=Y0QmFuaSq7ltbH8xOPBqjJ3cGsEyN4XaFW4giE5d4Ps,1415
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+ loqusdb/__init__.py,sha256=oSur17JCpw95z9pEpqU6ZeXWd0tioifFuvDttch4dT0,1415
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  loqusdb/__main__.py,sha256=8FGKySAGaWSzAYMj6HRsxeyiME3V01Idt7HrmN7pSYY,397
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  loqusdb/build_models/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  loqusdb/build_models/case.py,sha256=AByutEYK2N3kS9JFvyZfPKNZdCpZHCSD0nNHAgaU1Cs,4127
@@ -35,7 +35,7 @@ loqusdb/plugins/mongo/case.py,sha256=zKnaaam8Ey1AEH-1GofXp6iNqgmSvWWxZZWsx7dAO0Y
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  loqusdb/plugins/mongo/profile_variant.py,sha256=madOBa3HacIN_T1V8mp7NEC4QOpqQBqSY6pKTObkMLA,600
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  loqusdb/plugins/mongo/structural_variant.py,sha256=7NjdRxRVzp4huTTEPI-buKoG7N5d_5LH11GHcncwboE,12955
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  loqusdb/plugins/mongo/variant.py,sha256=NS3N8bhRap1b2ZSGjOw2LO6l7q_CzD00GZs499l38Tg,8715
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- loqusdb/resources/__init__.py,sha256=JOx3Ppgtghx55cOJN0bfBonSXM5DM_v0OFdlT-Qybg4,639
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+ loqusdb/resources/__init__.py,sha256=10OJHxvDLn_BI1T3iS_84HEjk4sbNNQJ7vGJ_kFD7CA,631
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  loqusdb/resources/loqusdb.20181005.gz,sha256=DI8CLI7fPnIAjM25Avraz-C7KQkOKsfnhgZWguGat9Y,12172904
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  loqusdb/resources/maf_50_sites_GRCh37.vcf.gz,sha256=BoD1_xZ-Rr8DTWCMNlQGh7gz1K8FA-j2nC4jKn_eB2A,5260
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  loqusdb/resources/maf_50_sites_GRCh38.vcf.gz,sha256=6T4iyrIr6yx1HpgobzAsh305BO1JX0oGj48nFiYt2QM,9037
@@ -49,8 +49,8 @@ loqusdb/utils/profiling.py,sha256=uISq4xfRNPPedoYXS_D4dXphq8odDogfMBm_XfHBTpE,92
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  loqusdb/utils/update.py,sha256=1edJG-u24FgOSxyXAQEiyTG4IyK-Uo3lSIl5qyzcXsI,4433
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  loqusdb/utils/variant.py,sha256=U6nMZRUf5NDDQ74nG0HBCLMnFQVgFAT6eHll_F2uiwc,2087
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  loqusdb/utils/vcf.py,sha256=og8JBYock31v_0CnsoRhuKIJCurLCIFW8PCCQIRWF-Q,5207
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- loqusdb-2.7.22.dist-info/LICENSE,sha256=urpFcJXw3elN9kV2fFutc-lXegjuu2lqP_GSy8_CAbs,1054
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- loqusdb-2.7.22.dist-info/METADATA,sha256=UIyXnGX1KUcCWkGadC1Ce3AL17J7EUlKvrVvR3kuKKc,5321
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- loqusdb-2.7.22.dist-info/WHEEL,sha256=b4K_helf-jlQoXBBETfwnf4B04YC67LOev0jo4fX5m8,88
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- loqusdb-2.7.22.dist-info/entry_points.txt,sha256=wFoWzEFjsSgXkj9FMQA8C9ihZoJ9R1XvbGuX9hEEI6E,52
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- loqusdb-2.7.22.dist-info/RECORD,,
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+ loqusdb-2.7.24.dist-info/LICENSE,sha256=urpFcJXw3elN9kV2fFutc-lXegjuu2lqP_GSy8_CAbs,1054
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+ loqusdb-2.7.24.dist-info/METADATA,sha256=ROBXvrUpFg3cNDra9KAGu-50CXe4e2S-wGbWw8afy3Q,5506
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+ loqusdb-2.7.24.dist-info/WHEEL,sha256=b4K_helf-jlQoXBBETfwnf4B04YC67LOev0jo4fX5m8,88
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+ loqusdb-2.7.24.dist-info/entry_points.txt,sha256=wFoWzEFjsSgXkj9FMQA8C9ihZoJ9R1XvbGuX9hEEI6E,52
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+ loqusdb-2.7.24.dist-info/RECORD,,