gwaslab 3.5.5__py3-none-any.whl → 3.5.6__py3-none-any.whl

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Files changed (22) hide show
  1. gwaslab/__init__.py +2 -1
  2. gwaslab/g_Sumstats.py +27 -1
  3. gwaslab/g_SumstatsSet.py +663 -0
  4. gwaslab/g_version.py +2 -2
  5. gwaslab/hm_harmonize_sumstats.py +91 -1
  6. gwaslab/qc_fix_sumstats.py +1 -1
  7. gwaslab/util_ex_ldproxyfinder.py +162 -3
  8. gwaslab/util_in_fill_data.py +19 -2
  9. gwaslab/util_in_filter_value.py +52 -1
  10. gwaslab/util_in_merge.py +51 -0
  11. gwaslab/viz_aux_save_figure.py +2 -1
  12. gwaslab/viz_plot_effect.py +283 -0
  13. gwaslab/viz_plot_miamiplot2.py +1 -1
  14. gwaslab/viz_plot_mqqplot.py +17 -0
  15. gwaslab/viz_plot_regional2.py +133 -32
  16. gwaslab/viz_plot_stackedregional.py +0 -1
  17. {gwaslab-3.5.5.dist-info → gwaslab-3.5.6.dist-info}/METADATA +2 -2
  18. {gwaslab-3.5.5.dist-info → gwaslab-3.5.6.dist-info}/RECORD +22 -19
  19. {gwaslab-3.5.5.dist-info → gwaslab-3.5.6.dist-info}/WHEEL +1 -1
  20. {gwaslab-3.5.5.dist-info → gwaslab-3.5.6.dist-info}/LICENSE +0 -0
  21. {gwaslab-3.5.5.dist-info → gwaslab-3.5.6.dist-info}/LICENSE_before_v3.4.39 +0 -0
  22. {gwaslab-3.5.5.dist-info → gwaslab-3.5.6.dist-info}/top_level.txt +0 -0
{gwaslab-3.5.5.dist-info → gwaslab-3.5.6.dist-info}/RECORD RENAMED
@@ -1,4 +1,4 @@
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- gwaslab/__init__.py,sha256=wyK0byyNw9vz6bcZDOA8r81-weibcnbNGggx_K6pT7s,2539
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+ gwaslab/__init__.py,sha256=2pIyLhHrPeyBYlcs3QsWElmUWPGIxoCf68awTk05YQk,2585
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  gwaslab/bd_common_data.py,sha256=2voBqMrIsII1TN5T6uvyDax90fWcJK1Stmo1ZHNGGsE,13898
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  gwaslab/bd_config.py,sha256=TP-r-DPhJD3XnRYZbw9bQHXaDIkiRgK8bG9HCt-UaLc,580
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  gwaslab/bd_download.py,sha256=cDDk2C5IvjeAzvPvVYGTkI4Ss33DUtEDjGo8eAbQRvY,15663
@@ -6,16 +6,17 @@ gwaslab/bd_get_hapmap3.py,sha256=FQpwbhWUPFT152QtiLevEkkN4YcVDIeKzoK0Uz1NlRo,410
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  gwaslab/cache_manager.py,sha256=HOTnSkCOyGEPLRl90WT8D_6pAdI8d8AzenMIDGuCeWc,28113
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  gwaslab/g_Log.py,sha256=C3Zv-_6c3C9ms8bgQ-ytplz22sjk7euqXYkWr9zNeAs,1573
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  gwaslab/g_Phenotypes.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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- gwaslab/g_Sumstats.py,sha256=M85hI9HkyzUV9RqCdIBpoIlD9uA7QDcdlq1M-Fpvv_M,37769
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+ gwaslab/g_Sumstats.py,sha256=QwXIqnjEd5v1jFRBFmeVlWJr3fO6Hx5hudLOgEf5fmc,39321
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  gwaslab/g_SumstatsPair.py,sha256=71fPfwhr9pdH9pdyX17bSEu8ah_WVpTVU0nc_4uln4Y,8766
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+ gwaslab/g_SumstatsSet.py,sha256=AiTISWPfmu8NTGa8j9Yuts8DNw1pEUENYyPoS0HXp5I,29866
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  gwaslab/g_SumstatsT.py,sha256=u_DighLMnMxwTLnqm-B58pA0G6WXRj6pudPyKMVKjSU,2133
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  gwaslab/g_Sumstats_summary.py,sha256=FECvvFXJVKaCX5dggBvvk9YvJ6AbdbcLfjltysX7wEE,6380
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  gwaslab/g_headers.py,sha256=Q37MZgc2G1bMzzJX94Kq6GoRYJyfUxQX50CvyIerXww,6524
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  gwaslab/g_meta.py,sha256=Orj8WhFvbylDmaAp9Px_GRUoyEBVML8MLa9829sNM0o,2588
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  gwaslab/g_vchange_status.py,sha256=w3zsYYOcCaI3PTeboonvkQjudzUAfVIgATzRdiPViZs,1939
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- gwaslab/g_version.py,sha256=xQqOnBdKHR2JYgA4nuFyJcsmUNx3MbwJg640M-_N40Y,1889
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+ gwaslab/g_version.py,sha256=XU8rILb0iLB_g-Daw4cuksdSLl7P_mQO9M06voc1t1k,1889
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  gwaslab/hm_casting.py,sha256=FqP4EQl83Q2OKLw004OgLIvUH795TVCGwziLk5jsHqY,11368
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- gwaslab/hm_harmonize_sumstats.py,sha256=_sZ8soikAxDokw-dcr_CLguBB8OmTmPPS04MfmsJc_Q,79509
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+ gwaslab/hm_harmonize_sumstats.py,sha256=ymM33bwOOkLteiLXUuSSzURudgCrkVMTR7wUwXf1jQs,84381
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  gwaslab/hm_rsid_to_chrpos.py,sha256=ODWREO0jPN0RAfNzL5fRzSRANfhiksOvUVPuEsFZQqA,6552
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  gwaslab/io_preformat_input.py,sha256=cfoywijnk1z1QeTMOXL_lqcheI3GA_Ff4uOUNxAqCq4,25331
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  gwaslab/io_process_args.py,sha256=0ljJOVGsD7qPuBLvdfvR7Vrh7zXPlvfPg-rhOw8xRpQ,1366
@@ -31,13 +32,13 @@ gwaslab/ldsc_parse.py,sha256=MBnfgcWlV4oHp9MoDRh1mpilaHhAR15Af77hMFn4-5k,10564
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  gwaslab/ldsc_regressions.py,sha256=yzbGjgNV7u-SWXNPsh9S8y9mK97Bim_Nmad9G9V18ZU,30078
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  gwaslab/ldsc_sumstats.py,sha256=O0olsDxKlh1MJ1gAuEN1t40rxhajOEwOQ20ak7xoDrI,26245
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  gwaslab/qc_check_datatype.py,sha256=mAM0LCMf9LseX44oeELG0croPlxfp7U8A8TH-Y5F6kQ,4453
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- gwaslab/qc_fix_sumstats.py,sha256=u0YfC70zop2roUfq6mLMNL49m8AHPF2G-j8dKqW25yY,98261
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+ gwaslab/qc_fix_sumstats.py,sha256=4lXedhYGsd6BAoApBr7kEly_GbVdcXgBQXMB5X2iN70,98262
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  gwaslab/run_script.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
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  gwaslab/util_abf_finemapping.py,sha256=LRcopjtkT-iXtKPAJIzR4qjPdhD7nrS_BGit4EW89FM,3054
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  gwaslab/util_ex_calculate_ldmatrix.py,sha256=Z_spxbq6SHDS0v84I59YTTF40iyLQIOZbt0dmEcNJjw,15417
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  gwaslab/util_ex_calculate_prs.py,sha256=9uJ588Sdj4V0vw3OZ9NeLECwOvW67f0IdLandVPS5RY,9442
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  gwaslab/util_ex_gwascatalog.py,sha256=--Gde9HrsikfYTeFqSaYz0gUODr9wmv_gV6GZGNlElg,7688
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- gwaslab/util_ex_ldproxyfinder.py,sha256=wWNW9wITWozj23gT41LR00WxU-rrHpGKbxs2H_3jEyM,9431
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+ gwaslab/util_ex_ldproxyfinder.py,sha256=HadmnjEv5EvZCHR5SFSAbqxZWJryEErJftCS0WhZUbs,16898
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  gwaslab/util_ex_ldsc.py,sha256=dMfL7hej0JzTOafPk6VYl5HUxB3eSp28wUKVWliIhlE,18937
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  gwaslab/util_ex_plink_filter.py,sha256=pK1Yxtv9-J4rMOdVAG7VU9PktvI6-y4FxBiVEH0QuRs,1673
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  gwaslab/util_ex_process_h5.py,sha256=ynFvo3zxgvOxWYL565v2IQf8P6iEuq7UlKQ_ULxrd6Y,2831
@@ -50,10 +51,11 @@ gwaslab/util_in_calculate_gc.py,sha256=MWOXVzJv7SZx4i2_ncRiqsiEOADc7EfghaUzgGy4j
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  gwaslab/util_in_calculate_power.py,sha256=JfHJFg3tNF0f4NHgWlzVW2mSxCiP07mAHIyEfVfxTak,10360
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  gwaslab/util_in_convert_h2.py,sha256=a8Cbudt3xn9WP2bPc-7ysuowB-LYub8j8GeDXl7Lk7Q,6483
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  gwaslab/util_in_correct_winnerscurse.py,sha256=Gp--yAQ8MMzdkWIvXP9C1BHVjZc-YzqHfYWhAj19w9w,2110
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- gwaslab/util_in_fill_data.py,sha256=wQwx3vtN1gJzJKc_FUZRk5xLLza1OeUa90z7d9G1Iis,14934
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- gwaslab/util_in_filter_value.py,sha256=DXAjIei9OkD-4C3CSkMEu-9vwVB5-vvLP4wospzlDEE,24252
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+ gwaslab/util_in_fill_data.py,sha256=ZXdxRD7oUpQ-uG_5EVsS994rA1n3PqLbZ2TxOKz379w,15762
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+ gwaslab/util_in_filter_value.py,sha256=KnHazy2Z3wSLULFRfp-Sm7TQ2gGLqU6kxnkhETgVPPg,26501
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  gwaslab/util_in_get_density.py,sha256=kpKXH69acMkeYVG5vs-VbJC3COhmuLBfYco-wuOxgjc,3934
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  gwaslab/util_in_get_sig.py,sha256=53NOh7KueLY3vJPTNhhb37KPAIgLEfcP3k2zIV61lc4,39845
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+ gwaslab/util_in_merge.py,sha256=KB5VKRTUUZ1XGYUxgCP_l3cWYanjthMdwiZ_DincCZQ,2020
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  gwaslab/util_in_meta.py,sha256=5K9lIZcIgUy0AERqHy1GvMN2X6dp45JUUgopuDLgt4o,11284
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  gwaslab/util_in_snphwe.py,sha256=-KpIDx6vn_nah6H55IkV2OyjXQVXV13XyBL069WE1wM,1751
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  gwaslab/viz_aux_annotate_plot.py,sha256=3PyBioC-3ZBzqKT2JRv6vp-hZUXSqTTePIT5cblEvnQ,25334
@@ -61,21 +63,22 @@ gwaslab/viz_aux_chromatin.py,sha256=aWZaXOSvGyZY7wQcoFDaqHRYCSHZbi_K4Q70HruN9ts,
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  gwaslab/viz_aux_property.py,sha256=UIaivghnLXYpTwkKnXRK0F28Jbn9L6OaICk3K73WZaU,33
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  gwaslab/viz_aux_quickfix.py,sha256=cGX5i3WBmvKIiqck8V00caDg-pvKOO709Ux3DBXsUrM,18693
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  gwaslab/viz_aux_reposition_text.py,sha256=iRIP-Rkltlei068HekJcVubiqPrunBqvAoSQ1eHk04M,4304
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- gwaslab/viz_aux_save_figure.py,sha256=x_b4DlTSmHJddfQgoYoReCi4QQbQEtcwCWTKfGetfTA,2768
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+ gwaslab/viz_aux_save_figure.py,sha256=HwIRDMYpeXfkBgb7mqzLN7OVPMz163U-ZVOlQJABzeg,2811
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  gwaslab/viz_plot_compare_af.py,sha256=qtXW45-Sq_ugK8ZfqBYMpmf58SKi3lB3YyHnzn_akcE,5344
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  gwaslab/viz_plot_compare_effect.py,sha256=kq-rVWygHEeTBMOtd_jk8nK85ClZHU-ADSf4nI2gTKo,66604
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  gwaslab/viz_plot_credible_sets.py,sha256=KxB7_bkDrLMgs6sk8HAnZWkllIRH-lEDCz5n5_Jnw68,3550
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+ gwaslab/viz_plot_effect.py,sha256=7p3YnGcgIG0ajwQSNCiHlmX9BvEeClwvQ-DhPe5LzSI,9750
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  gwaslab/viz_plot_forestplot.py,sha256=xgOnefh737CgdQxu5naVyRNBX1NQXPFKzf51fbh6afs,6771
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  gwaslab/viz_plot_miamiplot.py,sha256=rCFEp7VNuVqeBBG3WRkmFAtFklbF79BvIQQYiSY70VY,31238
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- gwaslab/viz_plot_miamiplot2.py,sha256=nA8xAI0ou3rBobm3DygOQSpunhZWwXVilKVd0v4Jfac,16213
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- gwaslab/viz_plot_mqqplot.py,sha256=AdEqATd6kpdwP_rQbwDIP6usJG3OUOSzfr43h3TKpmM,68710
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+ gwaslab/viz_plot_miamiplot2.py,sha256=tr3vRq6NLmoVoOSYbUkvXMHRONLLrvqjkRYN1iSX5-I,16214
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+ gwaslab/viz_plot_mqqplot.py,sha256=u61iABMihbMCDNMVSuvTscjeteZKlfIlyEK4xls2dE0,69557
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  gwaslab/viz_plot_phe_heatmap.py,sha256=qoXVeFTIm-n8IinNbDdPFVBSz2yGCGK6QzTstXv6aj4,9532
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  gwaslab/viz_plot_qqplot.py,sha256=psQgVpP29686CEZkzQz0iRbApzqy7aE3GGiBcazVvNw,7247
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- gwaslab/viz_plot_regional2.py,sha256=rvvIU60pOJFiDReQFd_Q2MkthuwvNOUkptV1swP9uJM,39444
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+ gwaslab/viz_plot_regional2.py,sha256=CRjuHnT4ghoInQ7AzcIQCrtk9jKxY8Kvc5biBXzT8Hg,43426
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  gwaslab/viz_plot_regionalplot.py,sha256=8u-5-yfy-UaXhaxVVz3Y5k2kBAoqzczUw1hyyD450iI,37983
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  gwaslab/viz_plot_rg_heatmap.py,sha256=PidUsgOiEVt6MfBPCF3_yDhOEytZ-I1q-ZD6_0pFrV4,13713
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  gwaslab/viz_plot_scatter_with_reg.py,sha256=PmUZDQl2q4Dme3HLPXEwf_TrMjwJADA-uFXNDBWUEa4,8333
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- gwaslab/viz_plot_stackedregional.py,sha256=WckcESSIHQuRCN37cnjzWLWiHCrQT3kUVkRCFiq2bk8,18614
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+ gwaslab/viz_plot_stackedregional.py,sha256=0U2TVyJHdk1Apk_7AT5bwwUeEpWeNcjbEVAWWoAsFoY,18613
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  gwaslab/viz_plot_trumpetplot.py,sha256=y4sAFjzMaSLuWrdr9_ao-wPYCK5DlP2ykiqulWsoN_k,42680
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  gwaslab/data/formatbook.json,sha256=N2nJs80HH98Rsu9FxaSvIQO9J5yIV97WEtAKjRqYwiY,38207
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  gwaslab/data/reference.json,sha256=IrjwFnXjrpVUp3zYfcYClpibJE9Y-94gtrC1Aw8sXxg,12332
@@ -85,9 +88,9 @@ gwaslab/data/hapmap3_SNPs/hapmap3_db150_hg19.snplist.gz,sha256=qD9RsC5S2h6l-OdpW
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  gwaslab/data/hapmap3_SNPs/hapmap3_db151_hg38.snplist.gz,sha256=Y8ZT2FIAhbhlgCJdE9qQVAiwnV_fcsPt72usBa7RSBM,10225828
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  gwaslab/data/high_ld/high_ld_hla_hg19.bed.gz,sha256=R7IkssKu0L4WwkU9SrS84xCMdrkkKL0gnTNO_OKbG0Y,219
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  gwaslab/data/high_ld/high_ld_hla_hg38.bed.gz,sha256=76CIU0pibDJ72Y6UY-TbIKE9gEPwTELAaIbCXyjm80Q,470
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- gwaslab-3.5.5.dist-info/LICENSE,sha256=OXLcl0T2SZ8Pmy2_dmlvKuetivmyPd5m1q-Gyd-zaYY,35149
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- gwaslab-3.5.5.dist-info/LICENSE_before_v3.4.39,sha256=GhLOU_1UDEKeOacYhsRN_m9u-eIuVTazSndZPeNcTZA,1066
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- gwaslab-3.5.5.dist-info/METADATA,sha256=BAkr3vpGpZJqHRecRn_q4guTT8PeykLZssU02mL1T7Q,7750
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- gwaslab-3.5.5.dist-info/WHEEL,sha256=PZUExdf71Ui_so67QXpySuHtCi3-J3wvF4ORK6k_S8U,91
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- gwaslab-3.5.5.dist-info/top_level.txt,sha256=PyY6hWtrALpv2MAN3kjkIAzJNmmBTH5a2risz9KwH08,8
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- gwaslab-3.5.5.dist-info/RECORD,,
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+ gwaslab-3.5.6.dist-info/LICENSE,sha256=OXLcl0T2SZ8Pmy2_dmlvKuetivmyPd5m1q-Gyd-zaYY,35149
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+ gwaslab-3.5.6.dist-info/LICENSE_before_v3.4.39,sha256=GhLOU_1UDEKeOacYhsRN_m9u-eIuVTazSndZPeNcTZA,1066
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+ gwaslab-3.5.6.dist-info/METADATA,sha256=SQE2GcWFkajxX8jOAZ6uZEfwErn_F2GMf0jqHQVUKrY,7750
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+ gwaslab-3.5.6.dist-info/WHEEL,sha256=jB7zZ3N9hIM9adW7qlTAyycLYW9npaWKLRzaoVcLKcM,91
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+ gwaslab-3.5.6.dist-info/top_level.txt,sha256=PyY6hWtrALpv2MAN3kjkIAzJNmmBTH5a2risz9KwH08,8
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+ gwaslab-3.5.6.dist-info/RECORD,,
{gwaslab-3.5.5.dist-info → gwaslab-3.5.6.dist-info}/WHEEL RENAMED
@@ -1,5 +1,5 @@
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  Wheel-Version: 1.0
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- Generator: setuptools (75.6.0)
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+ Generator: setuptools (75.8.2)
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  Root-Is-Purelib: true
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  Tag: py3-none-any
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