bio2zarr 0.0.1__py3-none-any.whl → 0.0.3__py3-none-any.whl

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Files changed (13) hide show
  1. bio2zarr/_version.py +2 -2
  2. bio2zarr/cli.py +245 -68
  3. bio2zarr/core.py +36 -19
  4. bio2zarr/plink.py +25 -19
  5. bio2zarr/vcf.py +704 -389
  6. bio2zarr/vcf_utils.py +0 -1
  7. {bio2zarr-0.0.1.dist-info → bio2zarr-0.0.3.dist-info}/METADATA +1 -1
  8. bio2zarr-0.0.3.dist-info/RECORD +16 -0
  9. {bio2zarr-0.0.1.dist-info → bio2zarr-0.0.3.dist-info}/WHEEL +1 -1
  10. bio2zarr-0.0.1.dist-info/RECORD +0 -16
  11. {bio2zarr-0.0.1.dist-info → bio2zarr-0.0.3.dist-info}/LICENSE +0 -0
  12. {bio2zarr-0.0.1.dist-info → bio2zarr-0.0.3.dist-info}/entry_points.txt +0 -0
  13. {bio2zarr-0.0.1.dist-info → bio2zarr-0.0.3.dist-info}/top_level.txt +0 -0
bio2zarr/vcf_utils.py CHANGED
@@ -464,7 +464,6 @@ class IndexedVcf(contextlib.AbstractContextManager):
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  elif target_part_size_bytes is not None:
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  num_parts = ceildiv(file_length, target_part_size_bytes)
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  part_lengths = np.array([i * target_part_size_bytes for i in range(num_parts)])
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-
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  file_offsets, region_contig_indexes, region_positions = self.index.offsets()
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  # Search the file offsets to find which indexes the part lengths fall at
{bio2zarr-0.0.1.dist-info → bio2zarr-0.0.3.dist-info}/METADATA RENAMED
@@ -1,6 +1,6 @@
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  Metadata-Version: 2.1
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  Name: bio2zarr
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- Version: 0.0.1
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+ Version: 0.0.3
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  Summary: Convert bioinformatics data to Zarr
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  Home-page: https://github.com/pystatgen/bio2zarr
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  Author: sgkit Developers
bio2zarr-0.0.3.dist-info/RECORD ADDED
@@ -0,0 +1,16 @@
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+ bio2zarr/__init__.py,sha256=yIJYx4GyKtOLOtODOX0kGCeGPYgQ-TBbsRdT1NwBpQQ,37
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+ bio2zarr/__main__.py,sha256=3cgaQ4x8YKXt-9xC2GLrHnS6UA38y1GXqttwZiBZJg4,525
3
+ bio2zarr/_version.py,sha256=hB095avW4HuDZxn8qPHRG1UMzSSonb8ZDAsLxt9hmk8,411
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+ bio2zarr/cli.py,sha256=N_vEFj730p_TL7Dk9m9T3ceAhVV58BMYRDmBmoeKH7A,10766
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+ bio2zarr/core.py,sha256=sBlWmHjcb7tAn_7WQRBdrbGcEd_lT_3HTQ_JbzomVMg,8111
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+ bio2zarr/plink.py,sha256=llhfP-v44BVPvgCcwXktk0YrKaJSII63U_PTtpHlGtM,6755
7
+ bio2zarr/provenance.py,sha256=c_Z__QbWkLS0Rfa8D7LgEhtStng_zRMJX8comaDXIkw,142
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+ bio2zarr/typing.py,sha256=wZ99Zzp5BD9Nqpd-S5bn38fSdPzfj6Z9IHPBfZqt9Gs,78
9
+ bio2zarr/vcf.py,sha256=g2TqH9Lbp4Ds8kjOnjvHvoMAgnG6Kx8pKPN1bqBKKIQ,72201
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+ bio2zarr/vcf_utils.py,sha256=_kMZdpye15HGpniv8wwISw0L6NEEi54ZFaTcM83wLGs,16751
11
+ bio2zarr-0.0.3.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
12
+ bio2zarr-0.0.3.dist-info/METADATA,sha256=dc2y5xrnkcvD1qmKGFL5GrsbM1_tiIlAYB2GrAlLunM,1106
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+ bio2zarr-0.0.3.dist-info/WHEEL,sha256=GJ7t_kWBFywbagK5eo9IoUwLW6oyOeTKmQ-9iHFVNxQ,92
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+ bio2zarr-0.0.3.dist-info/entry_points.txt,sha256=pklStOdATE5hHJm4qiIvmhHkcn21Si_XAu6MC7ieNrk,131
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+ bio2zarr-0.0.3.dist-info/top_level.txt,sha256=ouAvp3u9N25eKrQbN8BCDLPcWWQLhtlgdHKu8AtEj5Q,9
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+ bio2zarr-0.0.3.dist-info/RECORD,,
{bio2zarr-0.0.1.dist-info → bio2zarr-0.0.3.dist-info}/WHEEL RENAMED
@@ -1,5 +1,5 @@
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  Wheel-Version: 1.0
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- Generator: bdist_wheel (0.42.0)
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+ Generator: bdist_wheel (0.43.0)
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  Root-Is-Purelib: true
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  Tag: py3-none-any
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bio2zarr-0.0.1.dist-info/RECORD DELETED
@@ -1,16 +0,0 @@
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- bio2zarr/__init__.py,sha256=yIJYx4GyKtOLOtODOX0kGCeGPYgQ-TBbsRdT1NwBpQQ,37
2
- bio2zarr/__main__.py,sha256=3cgaQ4x8YKXt-9xC2GLrHnS6UA38y1GXqttwZiBZJg4,525
3
- bio2zarr/_version.py,sha256=pMnmqZnpVmaqR5nqHztNWzbbtb1oy5bPN_v7uhOH8K8,411
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- bio2zarr/cli.py,sha256=M4f7S6ddMJmaChflshss6JSmDtckexJbnG0uhTFYd5U,5707
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- bio2zarr/core.py,sha256=pbexEXaJNt0tSkQQtkgCbrGmWOKdNjOAKjb2mTQt48U,7307
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- bio2zarr/plink.py,sha256=BMOofAXdA74iFULITHj2HLvS36rVIxX1tQLVozekZMo,6396
7
- bio2zarr/provenance.py,sha256=c_Z__QbWkLS0Rfa8D7LgEhtStng_zRMJX8comaDXIkw,142
8
- bio2zarr/typing.py,sha256=wZ99Zzp5BD9Nqpd-S5bn38fSdPzfj6Z9IHPBfZqt9Gs,78
9
- bio2zarr/vcf.py,sha256=tBE0G2zspJ2_dSnQbuxASQ9r7p-mYA_-0mpNlqYS4dY,60180
10
- bio2zarr/vcf_utils.py,sha256=rUSsa91thVvVQLKJ3lnEeAS1GrS0mNP9Pku9Hnc_LB0,16752
11
- bio2zarr-0.0.1.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
12
- bio2zarr-0.0.1.dist-info/METADATA,sha256=1liyPLpGMCXyAmdD_EdI6tEh9GQ6zghklafad5YRulA,1106
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- bio2zarr-0.0.1.dist-info/WHEEL,sha256=oiQVh_5PnQM0E3gPdiz09WCNmwiHDMaGer_elqB3coM,92
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- bio2zarr-0.0.1.dist-info/entry_points.txt,sha256=pklStOdATE5hHJm4qiIvmhHkcn21Si_XAu6MC7ieNrk,131
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- bio2zarr-0.0.1.dist-info/top_level.txt,sha256=ouAvp3u9N25eKrQbN8BCDLPcWWQLhtlgdHKu8AtEj5Q,9
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- bio2zarr-0.0.1.dist-info/RECORD,,