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Update _datasets.py (#513)
update zenodo record locators for new scPerturb versions
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-32
lines changed

1 file changed

+32
-32
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pertpy/data/_datasets.py

Lines changed: 32 additions & 32 deletions
Original file line numberDiff line numberDiff line change
@@ -480,7 +480,7 @@ def adamson_2016_pilot() -> AnnData: # pragma: no cover
480480
output_file_path = settings.datasetdir / output_file_name
481481
if not Path(output_file_path).exists():
482482
_download(
483-
url="https://zenodo.org/record/7278143/files/AdamsonWeissman2016_GSM2406675_10X001.h5ad?download=1",
483+
url="https://zenodo.org/record/10044268/files/AdamsonWeissman2016_GSM2406675_10X001.h5ad?download=1",
484484
output_file_name=output_file_name,
485485
output_path=settings.datasetdir,
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is_zip=False,
@@ -511,7 +511,7 @@ def adamson_2016_upr_epistasis() -> AnnData: # pragma: no cover
511511
output_file_path = settings.datasetdir / output_file_name
512512
if not Path(output_file_path).exists():
513513
_download(
514-
url="https://zenodo.org/record/7278143/files/AdamsonWeissman2016_GSM2406677_10X005.h5ad?download=1",
514+
url="https://zenodo.org/record/10044268/files/AdamsonWeissman2016_GSM2406677_10X005.h5ad?download=1",
515515
output_file_name=output_file_name,
516516
output_path=settings.datasetdir,
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is_zip=False,
@@ -540,7 +540,7 @@ def adamson_2016_upr_perturb_seq() -> AnnData: # pragma: no cover
540540
output_file_path = settings.datasetdir / output_file_name
541541
if not Path(output_file_path).exists():
542542
_download(
543-
url="https://zenodo.org/record/7278143/files/AdamsonWeissman2016_GSM2406681_10X010.h5ad?download=1",
543+
url="https://zenodo.org/record/10044268/files/AdamsonWeissman2016_GSM2406681_10X010.h5ad?download=1",
544544
output_file_name=output_file_name,
545545
output_path=settings.datasetdir,
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is_zip=False,
@@ -567,7 +567,7 @@ def aissa_2021() -> AnnData: # pragma: no cover
567567
output_file_path = settings.datasetdir / output_file_name
568568
if not Path(output_file_path).exists():
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_download(
570-
url="https://zenodo.org/record/7278143/files/AissaBenevolenskaya2021.h5ad?download=1",
570+
url="https://zenodo.org/record/10044268/files/AissaBenevolenskaya2021.h5ad?download=1",
571571
output_file_name=output_file_name,
572572
output_path=settings.datasetdir,
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is_zip=False,
@@ -596,7 +596,7 @@ def chang_2021() -> AnnData: # pragma: no cover
596596
output_file_path = settings.datasetdir / output_file_name
597597
if not Path(output_file_path).exists():
598598
_download(
599-
url="https://zenodo.org/record/7278143/files/ChangYe2021.h5ad?download=1",
599+
url="https://zenodo.org/record/10044268/files/ChangYe2021.h5ad?download=1",
600600
output_file_name=output_file_name,
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output_path=settings.datasetdir,
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is_zip=False,
@@ -627,7 +627,7 @@ def datlinger_2017() -> AnnData: # pragma: no cover
627627
output_file_path = settings.datasetdir / output_file_name
628628
if not Path(output_file_path).exists():
629629
_download(
630-
url="https://zenodo.org/record/7278143/files/DatlingerBock2017.h5ad?download=1",
630+
url="https://zenodo.org/record/10044268/files/DatlingerBock2017.h5ad?download=1",
631631
output_file_name=output_file_name,
632632
output_path=settings.datasetdir,
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is_zip=False,
@@ -657,7 +657,7 @@ def datlinger_2021() -> AnnData: # pragma: no cover
657657
output_file_path = settings.datasetdir / output_file_name
658658
if not Path(output_file_path).exists():
659659
_download(
660-
url="https://zenodo.org/record/7278143/files/DatlingerBock2021.h5ad?download=1",
660+
url="https://zenodo.org/record/10044268/files/DatlingerBock2021.h5ad?download=1",
661661
output_file_name=output_file_name,
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output_path=settings.datasetdir,
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is_zip=False,
@@ -688,7 +688,7 @@ def frangieh_2021_protein() -> AnnData: # pragma: no cover
688688
output_file_path = settings.datasetdir / output_file_name
689689
if not Path(output_file_path).exists():
690690
_download(
691-
url="https://zenodo.org/record/7278143/files/FrangiehIzar2021_protein.h5ad?download=1",
691+
url="https://zenodo.org/record/10044268/files/FrangiehIzar2021_protein.h5ad?download=1",
692692
output_file_name=output_file_name,
693693
output_path=settings.datasetdir,
694694
is_zip=False,
@@ -719,7 +719,7 @@ def frangieh_2021_rna() -> AnnData: # pragma: no cover
719719
output_file_path = settings.datasetdir / output_file_name
720720
if not Path(output_file_path).exists():
721721
_download(
722-
url="https://zenodo.org/record/7278143/files/FrangiehIzar2021_RNA.h5ad?download=1",
722+
url="https://zenodo.org/record/10044268/files/FrangiehIzar2021_RNA.h5ad?download=1",
723723
output_file_name=output_file_name,
724724
output_path=settings.datasetdir,
725725
is_zip=False,
@@ -747,7 +747,7 @@ def gasperini_2019_atscale() -> AnnData: # pragma: no cover
747747
output_file_path = settings.datasetdir / output_file_name
748748
if not Path(output_file_path).exists():
749749
_download(
750-
url="https://zenodo.org/record/7278143/files/GasperiniShendure2019_atscale.h5ad?download=1",
750+
url="https://zenodo.org/record/10044268/files/GasperiniShendure2019_atscale.h5ad?download=1",
751751
output_file_name=output_file_name,
752752
output_path=settings.datasetdir,
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is_zip=False,
@@ -776,7 +776,7 @@ def gasperini_2019_highmoi() -> AnnData: # pragma: no cover
776776
output_file_path = settings.datasetdir / output_file_name
777777
if not Path(output_file_path).exists():
778778
_download(
779-
url="https://zenodo.org/record/7278143/files/GasperiniShendure2019_highMOI.h5ad?download=1",
779+
url="https://zenodo.org/record/10044268/files/GasperiniShendure2019_highMOI.h5ad?download=1",
780780
output_file_name=output_file_name,
781781
output_path=settings.datasetdir,
782782
is_zip=False,
@@ -805,7 +805,7 @@ def gasperini_2019_lowmoi() -> AnnData: # pragma: no cover
805805
output_file_path = settings.datasetdir / output_file_name
806806
if not Path(output_file_path).exists():
807807
_download(
808-
url="https://zenodo.org/record/7278143/files/GasperiniShendure2019_lowMOI.h5ad?download=1",
808+
url="https://zenodo.org/record/10044268/files/GasperiniShendure2019_lowMOI.h5ad?download=1",
809809
output_file_name=output_file_name,
810810
output_path=settings.datasetdir,
811811
is_zip=False,
@@ -833,7 +833,7 @@ def gehring_2019() -> AnnData: # pragma: no cover
833833
output_file_path = settings.datasetdir / output_file_name
834834
if not Path(output_file_path).exists():
835835
_download(
836-
url="https://zenodo.org/record/7278143/files/GehringPachter2019.h5ad?download=1",
836+
url="https://zenodo.org/record/10044268/files/GehringPachter2019.h5ad?download=1",
837837
output_file_name=output_file_name,
838838
output_path=settings.datasetdir,
839839
is_zip=False,
@@ -862,7 +862,7 @@ def mcfarland_2020() -> AnnData: # pragma: no cover
862862
output_file_path = settings.datasetdir / output_file_name
863863
if not Path(output_file_path).exists():
864864
_download(
865-
url="https://zenodo.org/record/7278143/files/McFarlandTsherniak2020.h5ad?download=1",
865+
url="https://zenodo.org/record/10044268/files/McFarlandTsherniak2020.h5ad?download=1",
866866
output_file_name=output_file_name,
867867
output_path=settings.datasetdir,
868868
is_zip=False,
@@ -891,7 +891,7 @@ def replogle_2022_k562_essential() -> AnnData: # pragma: no cover
891891
output_file_path = settings.datasetdir / output_file_name
892892
if not Path(output_file_path).exists():
893893
_download(
894-
url="https://zenodo.org/record/7278143/files/ReplogleWeissman2022_K562_essential.h5ad?download=1",
894+
url="https://zenodo.org/record/10044268/files/ReplogleWeissman2022_K562_essential.h5ad?download=1",
895895
output_file_name=output_file_name,
896896
output_path=settings.datasetdir,
897897
is_zip=False,
@@ -922,7 +922,7 @@ def replogle_2022_k562_gwps() -> AnnData: # pragma: no cover
922922
output_file_path = settings.datasetdir / output_file_name
923923
if not Path(output_file_path).exists():
924924
_download(
925-
url="https://zenodo.org/record/7278143/files/ReplogleWeissman2022_K562_gwps.h5ad?download=1",
925+
url="https://zenodo.org/record/10044268/files/ReplogleWeissman2022_K562_gwps.h5ad?download=1",
926926
output_file_name=output_file_name,
927927
output_path=settings.datasetdir,
928928
is_zip=False,
@@ -952,7 +952,7 @@ def replogle_2022_rpe1() -> AnnData: # pragma: no cover
952952
output_file_path = settings.datasetdir / output_file_name
953953
if not Path(output_file_path).exists():
954954
_download(
955-
url="https://zenodo.org/record/7278143/files/ReplogleWeissman2022_rpe1.h5ad?download=1",
955+
url="https://zenodo.org/record/10044268/files/ReplogleWeissman2022_rpe1.h5ad?download=1",
956956
output_file_name=output_file_name,
957957
output_path=settings.datasetdir,
958958
is_zip=False,
@@ -983,7 +983,7 @@ def schiebinger_2019_16day() -> AnnData: # pragma: no cover
983983
output_file_path = settings.datasetdir / output_file_name
984984
if not Path(output_file_path).exists():
985985
_download(
986-
url="https://zenodo.org/record/7278143/files/SchiebingerLander2019_GSE106340.h5ad?download=1",
986+
url="https://zenodo.org/record/10044268/files/SchiebingerLander2019_GSE106340.h5ad?download=1",
987987
output_file_name=output_file_name,
988988
output_path=settings.datasetdir,
989989
is_zip=False,
@@ -1012,7 +1012,7 @@ def schiebinger_2019_18day() -> AnnData: # pragma: no cover
10121012
output_file_path = settings.datasetdir / output_file_name
10131013
if not Path(output_file_path).exists():
10141014
_download(
1015-
url="https://zenodo.org/record/7278143/files/SchiebingerLander2019_GSE115943.h5ad?download=1",
1015+
url="https://zenodo.org/record/10044268/files/SchiebingerLander2019_GSE115943.h5ad?download=1",
10161016
output_file_name=output_file_name,
10171017
output_path=settings.datasetdir,
10181018
is_zip=False,
@@ -1041,7 +1041,7 @@ def schraivogel_2020_tap_screen_chr11() -> AnnData: # pragma: no cover
10411041
output_file_path = settings.datasetdir / output_file_name
10421042
if not Path(output_file_path).exists():
10431043
_download(
1044-
url="https://zenodo.org/record/7278143/files/SchraivogelSteinmetz2020_TAP_SCREEN__chromosome_11_screen.h5ad?download=1",
1044+
url="https://zenodo.org/record/10044268/files/SchraivogelSteinmetz2020_TAP_SCREEN__chromosome_11_screen.h5ad?download=1",
10451045
output_file_name=output_file_name,
10461046
output_path=settings.datasetdir,
10471047
is_zip=False,
@@ -1070,7 +1070,7 @@ def schraivogel_2020_tap_screen_chr8() -> AnnData: # pragma: no cover
10701070
output_file_path = settings.datasetdir / output_file_name
10711071
if not Path(output_file_path).exists():
10721072
_download(
1073-
url="https://zenodo.org/record/7278143/files/SchraivogelSteinmetz2020_TAP_SCREEN__chromosome_8_screen.h5ad?download=1",
1073+
url="https://zenodo.org/record/10044268/files/SchraivogelSteinmetz2020_TAP_SCREEN__chromosome_8_screen.h5ad?download=1",
10741074
output_file_name=output_file_name,
10751075
output_path=settings.datasetdir,
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is_zip=False,
@@ -1100,7 +1100,7 @@ def shifrut_2018() -> AnnData: # pragma: no cover
11001100
output_file_path = settings.datasetdir / output_file_name
11011101
if not Path(output_file_path).exists():
11021102
_download(
1103-
url="https://zenodo.org/record/7278143/files/ShifrutMarson2018.h5ad?download=1",
1103+
url="https://zenodo.org/record/10044268/files/ShifrutMarson2018.h5ad?download=1",
11041104
output_file_name=output_file_name,
11051105
output_path=settings.datasetdir,
11061106
is_zip=False,
@@ -1131,7 +1131,7 @@ def srivatsan_2020_sciplex2() -> AnnData: # pragma: no cover
11311131
output_file_path = settings.datasetdir / output_file_name
11321132
if not Path(output_file_path).exists():
11331133
_download(
1134-
url="https://zenodo.org/record/7278143/files/SrivatsanTrapnell2020_sciplex2.h5ad?download=1",
1134+
url="https://zenodo.org/record/10044268/files/SrivatsanTrapnell2020_sciplex2.h5ad?download=1",
11351135
output_file_name=output_file_name,
11361136
output_path=settings.datasetdir,
11371137
is_zip=False,
@@ -1160,7 +1160,7 @@ def srivatsan_2020_sciplex3() -> AnnData: # pragma: no cover
11601160
output_file_path = settings.datasetdir / output_file_name
11611161
if not Path(output_file_path).exists():
11621162
_download(
1163-
url="https://zenodo.org/record/7278143/files/SrivatsanTrapnell2020_sciplex3.h5ad?download=1",
1163+
url="https://zenodo.org/records/10044268/files/SrivatsanTrapnell2020_sciplex3.h5ad?download=1",
11641164
output_file_name=output_file_name,
11651165
output_path=settings.datasetdir,
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is_zip=False,
@@ -1192,7 +1192,7 @@ def srivatsan_2020_sciplex4() -> AnnData: # pragma: no cover
11921192
output_file_path = settings.datasetdir / output_file_name
11931193
if not Path(output_file_path).exists():
11941194
_download(
1195-
url="https://zenodo.org/record/7278143/files/SrivatsanTrapnell2020_sciplex4.h5ad?download=1",
1195+
url="https://zenodo.org/records/10044268/files/SrivatsanTrapnell2020_sciplex4.h5ad?download=1",
11961196
output_file_name=output_file_name,
11971197
output_path=settings.datasetdir,
11981198
is_zip=False,
@@ -1224,7 +1224,7 @@ def tian_2019_day7neuron() -> AnnData: # pragma: no cover
12241224
output_file_path = settings.datasetdir / output_file_name
12251225
if not Path(output_file_path).exists():
12261226
_download(
1227-
url="https://zenodo.org/record/7278143/files/TianKampmann2019_day7neuron.h5ad?download=1",
1227+
url="https://zenodo.org/records/10044268/files/TianKampmann2019_day7neuron.h5ad?download=1",
12281228
output_file_name=output_file_name,
12291229
output_path=settings.datasetdir,
12301230
is_zip=False,
@@ -1256,7 +1256,7 @@ def tian_2019_ipsc() -> AnnData: # pragma: no cover
12561256
output_file_path = settings.datasetdir / output_file_name
12571257
if not Path(output_file_path).exists():
12581258
_download(
1259-
url="https://zenodo.org/record/7278143/files/TianKampmann2019_iPSC.h5ad?download=1",
1259+
url="https://zenodo.org/records/10044268/files/TianKampmann2019_iPSC.h5ad?download=1",
12601260
output_file_name=output_file_name,
12611261
output_path=settings.datasetdir,
12621262
is_zip=False,
@@ -1286,7 +1286,7 @@ def tian_2021_crispra() -> AnnData: # pragma: no cover
12861286
output_file_path = settings.datasetdir / output_file_name
12871287
if not Path(output_file_path).exists():
12881288
_download(
1289-
url="https://zenodo.org/record/7278143/files/TianKampmann2021_CRISPRa.h5ad?download=1",
1289+
url="https://zenodo.org/records/10044268/files/TianKampmann2021_CRISPRa.h5ad?download=1",
12901290
output_file_name=output_file_name,
12911291
output_path=settings.datasetdir,
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is_zip=False,
@@ -1316,7 +1316,7 @@ def tian_2021_crispri() -> AnnData: # pragma: no cover
13161316
output_file_path = settings.datasetdir / output_file_name
13171317
if not Path(output_file_path).exists():
13181318
_download(
1319-
url="https://zenodo.org/record/7278143/files/TianKampmann2021_CRISPRi.h5ad?download=1",
1319+
url="https://zenodo.org/records/10044268/files/TianKampmann2021_CRISPRi.h5ad?download=1",
13201320
output_file_name=output_file_name,
13211321
output_path=settings.datasetdir,
13221322
is_zip=False,
@@ -1343,7 +1343,7 @@ def weinreb_2020() -> AnnData: # pragma: no cover
13431343
output_file_path = settings.datasetdir / output_file_name
13441344
if not Path(output_file_path).exists():
13451345
_download(
1346-
url="https://zenodo.org/record/7278143/files/WeinrebKlein2020.h5ad?download=1",
1346+
url="https://zenodo.org/records/10044268/files/WeinrebKlein2020.h5ad?download=1",
13471347
output_file_name=output_file_name,
13481348
output_path=settings.datasetdir,
13491349
is_zip=False,
@@ -1371,7 +1371,7 @@ def xie_2017() -> AnnData: # pragma: no cover
13711371
output_file_path = settings.datasetdir / output_file_name
13721372
if not Path(output_file_path).exists():
13731373
_download(
1374-
url="https://zenodo.org/record/7278143/files/XieHon2017.h5ad?download=1",
1374+
url="https://zenodo.org/records/10044268/files/XieHon2017.h5ad?download=1",
13751375
output_file_name=output_file_name,
13761376
output_path=settings.datasetdir,
13771377
is_zip=False,
@@ -1401,7 +1401,7 @@ def zhao_2021() -> AnnData: # pragma: no cover
14011401
output_file_path = settings.datasetdir / output_file_name
14021402
if not Path(output_file_path).exists():
14031403
_download(
1404-
url="https://zenodo.org/record/7278143/files/ZhaoSims2021.h5ad?download=1",
1404+
url="https://zenodo.org/records/10044268/files/ZhaoSims2021.h5ad?download=1",
14051405
output_file_name=output_file_name,
14061406
output_path=settings.datasetdir,
14071407
is_zip=False,

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