pyobo 0.12.9__py3-none-any.whl → 0.12.11__py3-none-any.whl
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.
- pyobo/__init__.py +6 -0
- pyobo/api/__init__.py +11 -1
- pyobo/api/alts.py +18 -4
- pyobo/api/embedding.py +108 -9
- pyobo/api/names.py +28 -6
- pyobo/api/xrefs.py +26 -1
- pyobo/constants.py +38 -2
- pyobo/getters.py +8 -3
- pyobo/ner/api.py +14 -10
- pyobo/ner/scispacy_utils.py +15 -21
- pyobo/sources/__init__.py +2 -0
- pyobo/sources/antibodyregistry.py +3 -3
- pyobo/sources/bigg/bigg_compartment.py +1 -1
- pyobo/sources/complexportal.py +3 -3
- pyobo/sources/conso.py +3 -3
- pyobo/sources/famplex.py +3 -3
- pyobo/sources/goldbook.py +86 -0
- pyobo/sources/hgnc/hgnc.py +157 -96
- pyobo/sources/hgnc/hgncgenefamily.py +14 -13
- pyobo/sources/msigdb.py +3 -3
- pyobo/sources/omim_ps.py +8 -2
- pyobo/sources/reactome.py +3 -3
- pyobo/sources/rgd.py +7 -11
- pyobo/sources/slm.py +3 -3
- pyobo/sources/uniprot/uniprot.py +3 -3
- pyobo/sources/wikipathways.py +7 -2
- pyobo/struct/__init__.py +2 -2
- pyobo/struct/functional/macros.py +1 -1
- pyobo/struct/functional/obo_to_functional.py +7 -3
- pyobo/struct/obo/reader.py +1 -1
- pyobo/struct/struct.py +88 -18
- pyobo/struct/struct_utils.py +19 -5
- pyobo/struct/typedef.py +16 -3
- pyobo/struct/vocabulary.py +4 -3
- pyobo/utils/path.py +5 -4
- pyobo/version.py +1 -1
- {pyobo-0.12.9.dist-info → pyobo-0.12.11.dist-info}/METADATA +8 -1
- {pyobo-0.12.9.dist-info → pyobo-0.12.11.dist-info}/RECORD +41 -40
- {pyobo-0.12.9.dist-info → pyobo-0.12.11.dist-info}/WHEEL +0 -0
- {pyobo-0.12.9.dist-info → pyobo-0.12.11.dist-info}/entry_points.txt +0 -0
- {pyobo-0.12.9.dist-info → pyobo-0.12.11.dist-info}/licenses/LICENSE +0 -0
pyobo/utils/path.py
CHANGED
|
@@ -84,7 +84,7 @@ def ensure_df(
|
|
|
84
84
|
dtype=str,
|
|
85
85
|
verify: bool = True,
|
|
86
86
|
backend: Literal["requests", "urllib"] | None = None,
|
|
87
|
-
**kwargs,
|
|
87
|
+
**kwargs: Any,
|
|
88
88
|
) -> pd.DataFrame:
|
|
89
89
|
"""Download a file and open as a dataframe."""
|
|
90
90
|
_path = ensure_path(
|
|
@@ -107,12 +107,11 @@ def ensure_json(
|
|
|
107
107
|
version: VersionHint = None,
|
|
108
108
|
name: str | None = None,
|
|
109
109
|
force: bool = False,
|
|
110
|
-
sep: str = "\t",
|
|
111
110
|
dtype=str,
|
|
112
111
|
verify: bool = True,
|
|
113
112
|
backend: Literal["requests", "urllib"] | None = None,
|
|
114
|
-
**kwargs,
|
|
115
|
-
) ->
|
|
113
|
+
**kwargs: Any,
|
|
114
|
+
) -> Any:
|
|
116
115
|
"""Download a file and open as JSON."""
|
|
117
116
|
_path = ensure_path(
|
|
118
117
|
prefix,
|
|
@@ -151,6 +150,8 @@ class CacheArtifact(enum.Enum):
|
|
|
151
150
|
prefixes = "prefixes.json"
|
|
152
151
|
metadata = "metadata.json"
|
|
153
152
|
|
|
153
|
+
embeddings = "embeddings.tsv.gz"
|
|
154
|
+
|
|
154
155
|
|
|
155
156
|
def get_cache_path(
|
|
156
157
|
ontology: str,
|
pyobo/version.py
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
Metadata-Version: 2.4
|
|
2
2
|
Name: pyobo
|
|
3
|
-
Version: 0.12.
|
|
3
|
+
Version: 0.12.11
|
|
4
4
|
Summary: A python package for handling and generating OBO
|
|
5
5
|
Keywords: snekpack,cookiecutter,ontologies,biomedical ontologies,life sciences,natural sciences,bioinformatics,cheminformatics,Open Biomedical Ontologies,OBO
|
|
6
6
|
Author: Charles Tapley Hoyt
|
|
@@ -55,10 +55,15 @@ Requires-Dist: nih-reporter-downloader>=0.0.1
|
|
|
55
55
|
Requires-Dist: typing-extensions
|
|
56
56
|
Requires-Dist: rdflib
|
|
57
57
|
Requires-Dist: obographs>=0.0.8
|
|
58
|
+
Requires-Dist: sssom-pydantic
|
|
58
59
|
Requires-Dist: psycopg2-binary ; extra == 'drugcentral'
|
|
59
60
|
Requires-Dist: ssslm[gilda] ; extra == 'gilda'
|
|
60
61
|
Requires-Dist: ssslm[gilda-slim] ; extra == 'gilda-slim'
|
|
62
|
+
Requires-Dist: grape ; extra == 'grape'
|
|
63
|
+
Requires-Dist: embiggen ; extra == 'grape'
|
|
64
|
+
Requires-Dist: ensmallen ; extra == 'grape'
|
|
61
65
|
Requires-Dist: protmapper ; extra == 'pid'
|
|
66
|
+
Requires-Dist: pykeen ; extra == 'pykeen'
|
|
62
67
|
Requires-Dist: scispacy ; python_full_version < '3.13' and extra == 'scispacy'
|
|
63
68
|
Requires-Dist: spacy ; python_full_version < '3.13' and extra == 'scispacy'
|
|
64
69
|
Requires-Dist: scipy<1.11 ; python_full_version < '3.13' and extra == 'scispacy'
|
|
@@ -74,7 +79,9 @@ Project-URL: Repository, https://github.com/biopragmatics/pyobo.git
|
|
|
74
79
|
Provides-Extra: drugcentral
|
|
75
80
|
Provides-Extra: gilda
|
|
76
81
|
Provides-Extra: gilda-slim
|
|
82
|
+
Provides-Extra: grape
|
|
77
83
|
Provides-Extra: pid
|
|
84
|
+
Provides-Extra: pykeen
|
|
78
85
|
Provides-Extra: scispacy
|
|
79
86
|
Provides-Extra: sources
|
|
80
87
|
Description-Content-Type: text/markdown
|
|
@@ -1,28 +1,28 @@
|
|
|
1
1
|
pyobo/.DS_Store,sha256=icmyUcy152KPoCV2jHO6ZiHzdoYZ79aYVdPXzcGzMEQ,8196
|
|
2
|
-
pyobo/__init__.py,sha256=
|
|
2
|
+
pyobo/__init__.py,sha256=WQCfhng88j77GTYJKw5YmTv6p0U7sRA5RVMMts1DWSc,4063
|
|
3
3
|
pyobo/__main__.py,sha256=cOYQ2OELxF-9T6nuZ9xnLSu9bLHk6einrsSoz7EcD9M,83
|
|
4
|
-
pyobo/api/__init__.py,sha256=
|
|
5
|
-
pyobo/api/alts.py,sha256=
|
|
4
|
+
pyobo/api/__init__.py,sha256=noKWkj7WTMRUnkFAPRxv7LoaTOwjJOpS4y6BLxILOdE,3334
|
|
5
|
+
pyobo/api/alts.py,sha256=v177QYdo5LVmlau0CF6FiN3vGYisuWBHFJnzZVpWv68,3477
|
|
6
6
|
pyobo/api/combine.py,sha256=7T8Qj8W1wWQ1KgKJsO1kFRHZxkQcrfKM1hBrhqHsEkU,1106
|
|
7
7
|
pyobo/api/edges.py,sha256=SEm2gJx6LoOkhXGj11V42uLg4FidFa9jJqW9Hznlfwk,1974
|
|
8
|
-
pyobo/api/embedding.py,sha256=
|
|
8
|
+
pyobo/api/embedding.py,sha256=lLJDj_QsL7eqjHq_qaoJ4Dzhi3ucWtMoMfduDsUp1PU,8291
|
|
9
9
|
pyobo/api/hierarchy.py,sha256=Ek1Rkr7qwTinz5DfCIlSXNLe4geMH_6Zta9dgoQIVXs,10318
|
|
10
10
|
pyobo/api/metadata.py,sha256=stJaiX_l7x0R1V77TNwHvPtokuZ-Eoqb9HMRL70NiWs,1029
|
|
11
|
-
pyobo/api/names.py,sha256=
|
|
11
|
+
pyobo/api/names.py,sha256=Jr5ECN0KQmq3PwZ7pmcYuTDztSKuH4lFAgbRo7UM7-I,11591
|
|
12
12
|
pyobo/api/properties.py,sha256=2LFERWJtvopI8OtfTrmPLj_SdeVvVHP4DcpQf8TO9tk,6944
|
|
13
13
|
pyobo/api/relations.py,sha256=Kebguj5khScU2c0Pm8dJrewu8je9DnKlNenRtmYWGKI,5875
|
|
14
14
|
pyobo/api/species.py,sha256=YxzJeClfuKI-pjYLpu5797jdDeyTkXpjQDgdmc9MKwo,2376
|
|
15
15
|
pyobo/api/typedefs.py,sha256=HTui0kl_VELxgji0vfBr-NBG3zrrpCU8tmuQOSWK6fw,1262
|
|
16
16
|
pyobo/api/utils.py,sha256=SCMsy4QyYVhn-QK0h90Ef1XUMbyHKR1fvteRESzs-bk,5192
|
|
17
|
-
pyobo/api/xrefs.py,sha256=
|
|
17
|
+
pyobo/api/xrefs.py,sha256=oQ7D2p9mrzb-LtLkXlJ_LYRArs5eqq9Zwwx9_0Yov_o,6053
|
|
18
18
|
pyobo/cli/__init__.py,sha256=pTiLuzjjpi0P69yVjQ2kE6nBUmZuYFnqdJNDZLDkgvk,71
|
|
19
19
|
pyobo/cli/cli.py,sha256=5bY_7ZVZOoHwhZtCxx-AYL5ybyBzjS65NU5v5X9DsLA,2842
|
|
20
20
|
pyobo/cli/database.py,sha256=grPVG1d78yhog5lvEAu3wwHkBASKhtmabwmvx49WRIc,12121
|
|
21
21
|
pyobo/cli/database_utils.py,sha256=jQ7qSg-oZk-Q-RC121NkUbqXeNg0K8fV96igXaK3ra4,5540
|
|
22
22
|
pyobo/cli/lookup.py,sha256=GxG753GXnDRf-N9JRWKRmQC5XiN8fEN5l1le5C3jHHY,9163
|
|
23
23
|
pyobo/cli/utils.py,sha256=nmtXsxG0TWEIjjIe-jh_aqzr09bTN7-NHFifuHGzME0,1738
|
|
24
|
-
pyobo/constants.py,sha256=
|
|
25
|
-
pyobo/getters.py,sha256=
|
|
24
|
+
pyobo/constants.py,sha256=vqaf3xj0Sv39PETE3PJuuZ5SZTpoprsngKOzwpca1CU,7129
|
|
25
|
+
pyobo/getters.py,sha256=exZNjlseRoWhshQYArWwN2KLvkk4NmCQnHM88YUYf-w,18340
|
|
26
26
|
pyobo/gilda_utils.py,sha256=uThAArALSNzJi-hrR9lUvtQci5VIw4Cqq2L6mtkp0Ko,1990
|
|
27
27
|
pyobo/identifier_utils/__init__.py,sha256=iSHAZhOwqWZmYpOfpXNLuKouSYj7ZSViaX7BF5uT8so,793
|
|
28
28
|
pyobo/identifier_utils/api.py,sha256=fik5crIOOhsHIuH-ia_oOQeKZeX5bBMj5S6occWaMeY,9365
|
|
@@ -34,9 +34,9 @@ pyobo/identifier_utils/relations/data_rdf.json,sha256=T1PNoYwrqgwDVLtfmj7L5e0Sq0
|
|
|
34
34
|
pyobo/identifier_utils/relations/data_rdfs.json,sha256=bjpxZte3g4WvrGJsmHuAJN_cg_faxqIa9tCL7auHdqQ,86
|
|
35
35
|
pyobo/mocks.py,sha256=j545K9P_DPsDBuYHDrhyTLjmlPoNlRdEtcRlLhXlbXI,2440
|
|
36
36
|
pyobo/ner/__init__.py,sha256=7Os84d8_gZktUxyUW9Tn2dW33rYFWSO8cviJJef-ZeE,373
|
|
37
|
-
pyobo/ner/api.py,sha256=
|
|
37
|
+
pyobo/ner/api.py,sha256=dy51kXQbfx7C8ZIwxlsu78HjsdYtdgdkbF0KuaDJoG4,2396
|
|
38
38
|
pyobo/ner/normalizer.py,sha256=pdvwFG9elriK83FKqjQfT2s-ZuC-QZZuMPudjfay21w,954
|
|
39
|
-
pyobo/ner/scispacy_utils.py,sha256=
|
|
39
|
+
pyobo/ner/scispacy_utils.py,sha256=4NRGJ1JJB-OmlVthHhyms1iPMwJYrkVMQP1jgZfJ18U,8170
|
|
40
40
|
pyobo/plugins.py,sha256=wEr-NpyZ7Z6uEr0uGDNOeXLOGZokGbFmo3e-z2PNKJM,1232
|
|
41
41
|
pyobo/py.typed,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
|
|
42
42
|
pyobo/resource_utils.py,sha256=bloSKbHfMLz0hB8AkhMkfLOGqw6FyO8CEU6LNg0PVMk,4406
|
|
@@ -48,11 +48,11 @@ pyobo/resources/ro.tsv,sha256=YvlBLPAKy2w4IheYzO9ox1Yg6WkHdMVzMQTikIlECog,26586
|
|
|
48
48
|
pyobo/resources/so.py,sha256=S-vmQ7L8AJE08FfGVDIJqNQNaLPUmuJ6HC5F4hWHMrA,1466
|
|
49
49
|
pyobo/resources/so.tsv,sha256=UJZKFTEAv_XszYYbun4Wf6b4jovDjSKc1RWRQRcTzDw,82068
|
|
50
50
|
pyobo/sources/README.md,sha256=ApbwpI2hbYQiw4N6KE_VAApfOmTQHkeTbrNEExIbX4I,901
|
|
51
|
-
pyobo/sources/__init__.py,sha256=
|
|
51
|
+
pyobo/sources/__init__.py,sha256=ZQnId3SEss43nc4gsAnKl3-k5BUSNptm2cHOGGFt2aw,5088
|
|
52
52
|
pyobo/sources/agrovoc.py,sha256=SJsbJ7KtxdJUG9Rimmb2CfLfzpK9eOzP0wx59gj-6s4,787
|
|
53
|
-
pyobo/sources/antibodyregistry.py,sha256=
|
|
53
|
+
pyobo/sources/antibodyregistry.py,sha256=GbmW9vJ1TXul5mSJ4TkdI3uwMhjz7My-ROi2doV9v4g,3361
|
|
54
54
|
pyobo/sources/bigg/__init__.py,sha256=4pK-71Bx0Iv93PqmZecUKX9LcapbW9wm7zBN9vhbpYI,349
|
|
55
|
-
pyobo/sources/bigg/bigg_compartment.py,sha256=
|
|
55
|
+
pyobo/sources/bigg/bigg_compartment.py,sha256=lvhAZGyMiCLIcr2JJvht4cINofOvrp9oMfHu5Io5fGk,3399
|
|
56
56
|
pyobo/sources/bigg/bigg_metabolite.py,sha256=zs53CxPX7XTZpVOty6MWlxT3v0wLgWHaPI4-0vnbPpo,7728
|
|
57
57
|
pyobo/sources/bigg/bigg_model.py,sha256=n43ZgHbCUS6KBmmstfFUu39hlkPsDhBpf2OB-kAF7YA,1287
|
|
58
58
|
pyobo/sources/bigg/bigg_reaction.py,sha256=45SIIae32GtDxzL_gpF7p1TKVfh6t3UgHpF4flVBO9I,2459
|
|
@@ -68,8 +68,8 @@ pyobo/sources/chembl/chembl_target.py,sha256=BRo7ZeXvcBXSxKoqcu0VmkufaEULTVYhkj-
|
|
|
68
68
|
pyobo/sources/chembl/chembl_tissue.py,sha256=gxYceIooVJ10i2_nUIi48SXzw-1lG17vIs9NRwRqwds,1938
|
|
69
69
|
pyobo/sources/civic_gene.py,sha256=AWOdgOobFlbU95T1hA_Co2JNoNKd5MJSuF4jnYSkgw8,3096
|
|
70
70
|
pyobo/sources/clinicaltrials.py,sha256=_MWExCo9GkOq0SD547yFD0THwRxr2L8TMKjZyXcQjgc,5459
|
|
71
|
-
pyobo/sources/complexportal.py,sha256=
|
|
72
|
-
pyobo/sources/conso.py,sha256=
|
|
71
|
+
pyobo/sources/complexportal.py,sha256=SqeC7GRXNYIumrmE93c9jM0MP2qeo6tNap2Diivh99I,7653
|
|
72
|
+
pyobo/sources/conso.py,sha256=1Wo63PQJUOvsESMptsZ6HmACu98TJfSZ4VB_13ZoEys,2328
|
|
73
73
|
pyobo/sources/cpt.py,sha256=b7hcULlvu_xa6URwoD37Gc_8VAs8mxawAlXflL1e1LU,1466
|
|
74
74
|
pyobo/sources/credit.py,sha256=IKmHuLFbAzdy0N4HI9OaUAzTXCM27QQ5hkPdfYBg2rg,2175
|
|
75
75
|
pyobo/sources/cvx.py,sha256=l9Csuudr9Uyo0PNcjJTbNG62EOUcrAVoij0vJhNzhVE,3595
|
|
@@ -80,7 +80,7 @@ pyobo/sources/drugbank/drugbank.py,sha256=WiFsy_6INZkgetmbUYkE1vPpg5dLwjBfz3cVJj
|
|
|
80
80
|
pyobo/sources/drugbank/drugbank_salt.py,sha256=abVl_igLemmMw4ULi3_ItTgfCaq3uybjqnsT9Rh7C1k,1646
|
|
81
81
|
pyobo/sources/drugcentral.py,sha256=xIG_sPebbV-_S1vUQLzOuLqHa_RM-zAOfZ8oqr1aqbc,4052
|
|
82
82
|
pyobo/sources/expasy.py,sha256=o0KcbRxF5GNupSjUBe9BznnfrW60sZr7Df2Eo4noOB4,11057
|
|
83
|
-
pyobo/sources/famplex.py,sha256=
|
|
83
|
+
pyobo/sources/famplex.py,sha256=FPkIH_NNvG6muNyujdwdScJ64GNDXIsw6a7qF7o1sM4,5636
|
|
84
84
|
pyobo/sources/flybase.py,sha256=gUS39NF_qc723R2SAbhQYqPg6UOiwKwPXhXQ1JwC68Q,5666
|
|
85
85
|
pyobo/sources/gard.py,sha256=9oRvpNdt94cUqSYF529PFz9QCvF4sP-JBfhWkJroEZc,1768
|
|
86
86
|
pyobo/sources/geonames/__init__.py,sha256=JQhpe8BKBSQ1P83vtQMSbAKa6xJ2tvX64OMDiD5WM7s,177
|
|
@@ -89,13 +89,14 @@ pyobo/sources/geonames/geonames.py,sha256=FI7YnOoLjoT8w90S6GXigUPsmrmGrmYn4hAJD4
|
|
|
89
89
|
pyobo/sources/geonames/utils.py,sha256=iUiFMeo_U8FoAlijMoX7NhyEaG9MfppzEtVbiyUuza4,4012
|
|
90
90
|
pyobo/sources/gmt_utils.py,sha256=zLkbHGLxBUPHxW7jCOHaZTW11YzPj8ON-E4QfPQTHxE,1327
|
|
91
91
|
pyobo/sources/go.py,sha256=b3zbPGKd6wDclw68fA4Iq9awEZTIVRx37iXeruKQqmk,1536
|
|
92
|
+
pyobo/sources/goldbook.py,sha256=d4ednC3aWkIJD8VBRQpssMOiKZepUiduG9FMjV0769o,2502
|
|
92
93
|
pyobo/sources/gtdb.py,sha256=LrJfruJCkEUs1NCCPQUpHyL6r2dzMttToNPgmqudIr0,5222
|
|
93
94
|
pyobo/sources/gwascentral/__init__.py,sha256=VdHIgBVR-36B7gLuhR4XV5UXn_EgNZ0-i1g9NjhOjY0,231
|
|
94
95
|
pyobo/sources/gwascentral/gwascentral_phenotype.py,sha256=SvMCF3sYqc3F5nNXCf76AzIhNT698ZHHnTpO0IGft8o,1788
|
|
95
96
|
pyobo/sources/gwascentral/gwascentral_study.py,sha256=fzDiRuWU84085gclzuWNLbxDEsIdVysqXScMU0BdXnM,2672
|
|
96
97
|
pyobo/sources/hgnc/__init__.py,sha256=1QhM7GdP6_AxCMzaBz2k3SRLkDTOkS2hUhPMLETSGWM,157
|
|
97
|
-
pyobo/sources/hgnc/hgnc.py,sha256=
|
|
98
|
-
pyobo/sources/hgnc/hgncgenefamily.py,sha256=
|
|
98
|
+
pyobo/sources/hgnc/hgnc.py,sha256=jaCEZZR2YzjrrZNFtvEbfhrVu9HTLX7_sWkshgi022M,20332
|
|
99
|
+
pyobo/sources/hgnc/hgncgenefamily.py,sha256=NGkQXlyac0283WHeYXr3_o__Ak-hpbNnB0NIr2J0QGo,3912
|
|
99
100
|
pyobo/sources/iana_media_type.py,sha256=X20G2a1ozF-JPaqNs3tUrNoeSb7jv_YsClKSTPH-8io,5024
|
|
100
101
|
pyobo/sources/icd/__init__.py,sha256=DrZVl76P8essJ4tlZPcauFVrXVkIIZB6sJ0c6Km6SWI,142
|
|
101
102
|
pyobo/sources/icd/icd10.py,sha256=YatVzgr229J_WeJca4FQAHqWrx7c7N4fHbhb1cQ1TeU,2587
|
|
@@ -117,7 +118,7 @@ pyobo/sources/mirbase/mirbase.py,sha256=9huL0PWAVcEDk-4unZw-GInyEE1C_FXwRxN65HG3
|
|
|
117
118
|
pyobo/sources/mirbase/mirbase_constants.py,sha256=5DjcwX_FRSzFYbTf50yvkPamSIH70Rw3I8q-Ds0zHVs,1998
|
|
118
119
|
pyobo/sources/mirbase/mirbase_family.py,sha256=TIWKhhF0pn6dhQTTgLg4lYrJKtu-ILltrHFZD0qeZb4,1974
|
|
119
120
|
pyobo/sources/mirbase/mirbase_mature.py,sha256=Jj65xVqtjquzqZGTi8cnMmLdyfUfmthM_ka1SZ2-rzE,1302
|
|
120
|
-
pyobo/sources/msigdb.py,sha256=
|
|
121
|
+
pyobo/sources/msigdb.py,sha256=CXXN4YZc99twaleFAvknMyx_AQlGYxgb-veKh_SLmhM,6818
|
|
121
122
|
pyobo/sources/ncbi/__init__.py,sha256=SuPBRF4ZG0X6PsPauWvlYWx95YUGSODdjyCr5YyQzmk,156
|
|
122
123
|
pyobo/sources/ncbi/ncbi_gc.py,sha256=uGgrt7fFy7m5Evre-NLvuJa4jftUZNC4utNDVMnk5rs,5470
|
|
123
124
|
pyobo/sources/ncbi/ncbigene.py,sha256=zpuMe59DRZfczyxJfdSlIaIzDc9MDfMlAY3S_GZK97A,5096
|
|
@@ -127,7 +128,7 @@ pyobo/sources/nlm/nlm_catalog.py,sha256=ogXDh4zyRx69_YbGguH0yWEU5-3SvHnLBvEyxtgA
|
|
|
127
128
|
pyobo/sources/nlm/nlm_publisher.py,sha256=lr6Cjo2Mdlad3JTkn3crafWKL1lcHX2tFuKdnIoKa5w,984
|
|
128
129
|
pyobo/sources/nlm/utils.py,sha256=bEBXzz2fjjnFFcjrq_q8mfr1f0_RiKZoQ7H18gpV4HA,4861
|
|
129
130
|
pyobo/sources/npass.py,sha256=oJaCo43CIGy2tAuMxIPT8PfSRRazJQw51PJAjqMPsH8,2742
|
|
130
|
-
pyobo/sources/omim_ps.py,sha256=
|
|
131
|
+
pyobo/sources/omim_ps.py,sha256=cqtM98a0ZW-hY8flbRKte0ODzQUR5Ob4IY1qrhK60SI,1618
|
|
131
132
|
pyobo/sources/pathbank.py,sha256=SW4mEdWCX2MZYG1VJp8yLEzyBu_OmaZTtSGreldoDtQ,5387
|
|
132
133
|
pyobo/sources/pfam/__init__.py,sha256=A6y2b2e0LCir4sAg5TCL5YDi6cVhl9Rk3loF5VBaxeM,150
|
|
133
134
|
pyobo/sources/pfam/pfam.py,sha256=mdbR6Ak_myNpnwXQssGh6HMY_uvSk0OHM5e8RpfOG0c,1718
|
|
@@ -142,8 +143,8 @@ pyobo/sources/pharmgkb/utils.py,sha256=SFtRAg_Uxou5YpfqPTsF9we0wBMsalwybdUAm5ZS-
|
|
|
142
143
|
pyobo/sources/pid.py,sha256=PcLNxQq-n2ETnXpmCNa4yCZKZmO9Ou-WPBotK9qJPxg,4460
|
|
143
144
|
pyobo/sources/pombase.py,sha256=9ngHwyAXjIl9AKsFqUPRIbFWgvkCwcs8V2r1O_vbOyk,3696
|
|
144
145
|
pyobo/sources/pubchem.py,sha256=lTsc0dgrSJ5kxlcaUcUXJydi-xsMf2fI2EcWsbW8xTU,5153
|
|
145
|
-
pyobo/sources/reactome.py,sha256=
|
|
146
|
-
pyobo/sources/rgd.py,sha256=
|
|
146
|
+
pyobo/sources/reactome.py,sha256=yzeCCy19Hxr7KFUrg1tePjN40eZLN9G4dm4q0A7izbI,5842
|
|
147
|
+
pyobo/sources/rgd.py,sha256=I6HC7_GZqFPXlRIuuroOgZM7wG85jcE3Po-sry8a1XU,5194
|
|
147
148
|
pyobo/sources/rhea.py,sha256=dbhyVJ1yoAQoxoWp47OKegLAmMh6qoe-7_DafJDeWrk,8164
|
|
148
149
|
pyobo/sources/ror.py,sha256=IS_KUtMeKgAndrbLjhcoK8ilp-jOeiDwzGTy5R9cIwk,8882
|
|
149
150
|
pyobo/sources/selventa/__init__.py,sha256=cIIDlWL9znL2r0aZIJ2r1FN3NM9io74w-He2egzJwX8,254
|
|
@@ -155,7 +156,7 @@ pyobo/sources/sgd.py,sha256=nqsETsbnF0LtwZNdf-D2F2czSBGZQnYBSamLynQmuNc,2073
|
|
|
155
156
|
pyobo/sources/signor/__init__.py,sha256=beb_FRqsoqLVMXtDeRZAXf9Xg9UBIHBO05uPU98NajI,139
|
|
156
157
|
pyobo/sources/signor/download.py,sha256=rkDJVEA6ld0z4iG14tMOcAcuRljQQ9SAJAaLdaxagz8,1053
|
|
157
158
|
pyobo/sources/signor/signor_complexes.py,sha256=BGNM_kG0jtpR-i6rDSMF5XKeCllWO34zZ2Kq4FMtBk0,3802
|
|
158
|
-
pyobo/sources/slm.py,sha256=
|
|
159
|
+
pyobo/sources/slm.py,sha256=inQ8KpWyisRx3XpF6bOtc7OD_7Y0hjYrdDFXClrCcMs,4254
|
|
159
160
|
pyobo/sources/spdx.py,sha256=JjVDNUmN6Nc8bT_2_OoqJpeKnZzuwPmdUEynTl_YAVM,2530
|
|
160
161
|
pyobo/sources/umls/__init__.py,sha256=ENgNXQKhze9zyxsXjkn73-BdqmdntL4Zy1qR42GDtP8,141
|
|
161
162
|
pyobo/sources/umls/__main__.py,sha256=NY6XqetgpRd_LPm95VTX2L3rJB_7h3JQttgnDJ9cFhM,108
|
|
@@ -165,46 +166,46 @@ pyobo/sources/umls/synonym_types.tsv,sha256=8TO6sY7_QHNHBGLSnqOpptykIiPUzXcXHXaW
|
|
|
165
166
|
pyobo/sources/umls/umls.py,sha256=W8Lz649airtgWiHPvES04Teyw8JMCnCCXsSm1I3eYCU,4287
|
|
166
167
|
pyobo/sources/unimod.py,sha256=Tvs4aMyp6DKH6mv9OjXK8takGzAc4c-pIhU4DIdYd1M,1292
|
|
167
168
|
pyobo/sources/uniprot/__init__.py,sha256=C0df26Q0qfScCA99I4Rkl9L2oeGoOdP8-oihGcmwptE,200
|
|
168
|
-
pyobo/sources/uniprot/uniprot.py,sha256=
|
|
169
|
+
pyobo/sources/uniprot/uniprot.py,sha256=rrXlYHXYzHU2pr944AWxH3Ksa4tIUdOTVG-8g-VFEm0,6333
|
|
169
170
|
pyobo/sources/uniprot/uniprot_ptm.py,sha256=oTA5fvQeE10KTHpiTw03nHdtDhP4aYcWkPTh-MxNO50,2192
|
|
170
171
|
pyobo/sources/utils.py,sha256=mBIAYsLboAB6w6wPTTv1LDQBzXQu58TUlnNGJLWJwxo,1118
|
|
171
|
-
pyobo/sources/wikipathways.py,sha256=
|
|
172
|
+
pyobo/sources/wikipathways.py,sha256=SPKQaLF1PvuRMR5bySAvXXg1zhGmKgY1OfI3H1ZtQXA,6575
|
|
172
173
|
pyobo/sources/zfin.py,sha256=V9c4YldKu9guAXNoFj_9fm94de7xgKWYJWUD2HNE4W4,5339
|
|
173
174
|
pyobo/ssg/__init__.py,sha256=hQAELjFW_jrNX9VUaw7VIDjYQhUDicUSs-mSZzAvFSo,5224
|
|
174
175
|
pyobo/ssg/base.html,sha256=_vldUCa-gL2YTNY6GgAuxNT3TgaED585vF_q7TrrjYs,2844
|
|
175
176
|
pyobo/ssg/index.html,sha256=2mLBahmPetJGhZnF1-TaTXuB4CoYolpZ2nQaV5dG5nY,4346
|
|
176
177
|
pyobo/ssg/term.html,sha256=tSLIJ3SYDTetK9g2EoDKyu4aHchVo1EUXk_aYhGeOKo,3869
|
|
177
178
|
pyobo/ssg/typedef.html,sha256=KrdqzB6xjt689bG33D26AL-11JrvNuEkoxNNI-EG-Tg,2038
|
|
178
|
-
pyobo/struct/__init__.py,sha256=
|
|
179
|
+
pyobo/struct/__init__.py,sha256=cx6cTB_ZCw84uz-XNV5YkM2xudpo0w2j4y_hFFFFeaU,1522
|
|
179
180
|
pyobo/struct/functional/__init__.py,sha256=1Tbtt_6GoarRlgffPepitJ3QtLsrMPMbhDGoQnAKSZ4,32
|
|
180
181
|
pyobo/struct/functional/dsl.py,sha256=odDX33lzSkKcRjcrsteraFSc00wIOPBHJtxXe9c9RHE,101591
|
|
181
|
-
pyobo/struct/functional/macros.py,sha256=
|
|
182
|
-
pyobo/struct/functional/obo_to_functional.py,sha256=
|
|
182
|
+
pyobo/struct/functional/macros.py,sha256=yYHGmAEMpin47U7U3S7aCC3o02khWyoON4Xgpv-gHN4,13811
|
|
183
|
+
pyobo/struct/functional/obo_to_functional.py,sha256=65OmttFto-tm6-7T0RQlgIKo34swVqTpz2B9ykPLNuw,13727
|
|
183
184
|
pyobo/struct/functional/ontology.py,sha256=-a8jx-61NsI3dgCBEYNP-VeswAy8wWxLBlAEFMJucyI,9342
|
|
184
185
|
pyobo/struct/functional/utils.py,sha256=c-XG2SJ7ChYtz7KU3K0F-T6ocMjYevei0WxlkfkkmtE,3487
|
|
185
186
|
pyobo/struct/obo/__init__.py,sha256=xJAFJ4yueWBQv3BrtTuHHJ7AzOqCgOuHgKY4RQocsW0,157
|
|
186
|
-
pyobo/struct/obo/reader.py,sha256=
|
|
187
|
+
pyobo/struct/obo/reader.py,sha256=fzh1YiNblhmA4rfehOO37WmCfi2r5I4R72ubWwmK4eE,50799
|
|
187
188
|
pyobo/struct/obo/reader_utils.py,sha256=UyQVTQhXbhZ9fCizZg26o5TmeHis9-qZMKvQFwIBRgo,4423
|
|
188
189
|
pyobo/struct/obograph/__init__.py,sha256=B4rNP9OCTnMXm8YpQ0rar1swn4GIw9b4gQD-IVuqHyw,452
|
|
189
190
|
pyobo/struct/obograph/export.py,sha256=yk3MHulDM_SMohfwiFdeB62-XGJ2ZNgRUZGjGjiyonY,9945
|
|
190
191
|
pyobo/struct/obograph/reader.py,sha256=264yVeD8a3jGx9EaGUZVxFbSQ_pwQ_6ckVw9S8wiJfM,8525
|
|
191
192
|
pyobo/struct/obograph/utils.py,sha256=je0kSkC24MU9pWRHq1_K-J5jWhjWESY6NI3TpZqvZ_Q,1516
|
|
192
193
|
pyobo/struct/reference.py,sha256=qgwTa-0VIoDklQ7LjlYH-mf2WG0_uO7KlHt0PSBail4,11744
|
|
193
|
-
pyobo/struct/struct.py,sha256
|
|
194
|
-
pyobo/struct/struct_utils.py,sha256=
|
|
195
|
-
pyobo/struct/typedef.py,sha256=
|
|
194
|
+
pyobo/struct/struct.py,sha256=-JaApTZ7e50bRJ2dXPdAVuJ0ElIVJIJ-HHRsVdaiMxM,96291
|
|
195
|
+
pyobo/struct/struct_utils.py,sha256=tqaUOYKfM3NAa9NfIrWUbaEFJuSOi05_fXPh1cNMY2w,40911
|
|
196
|
+
pyobo/struct/typedef.py,sha256=X5eDKtFsuXXbmFxAS3GxNHQaES5s6UyowAI7_c8Qcao,13364
|
|
196
197
|
pyobo/struct/utils.py,sha256=zkpOE42JQIfkN0rc5qNENK03VIKmkf_57tHojMJK71Y,906
|
|
197
|
-
pyobo/struct/vocabulary.py,sha256=
|
|
198
|
+
pyobo/struct/vocabulary.py,sha256=87VqrkU1BrarSW4C2sVbe3qnkn-4jwztCOrnBXy5Ujs,5262
|
|
198
199
|
pyobo/utils/__init__.py,sha256=CANSY8vGq_6v8rWhWRIdnk-Wo5LA2R9Wjg1nqbWqLOw,17
|
|
199
200
|
pyobo/utils/cache.py,sha256=x7Dnw8vHYsoslXWiV9L9ZdTu5ZueIR1ki5Ncdpb7H10,3136
|
|
200
201
|
pyobo/utils/io.py,sha256=QTvGjNDkaIf78Tca23B5RW_aVweKiSsxmgwSKXcMSNo,3921
|
|
201
202
|
pyobo/utils/iter.py,sha256=rYRbbaFJHxMaE0yU-rQZoCagYIrtev09uY0mxFkf5zY,1524
|
|
202
203
|
pyobo/utils/misc.py,sha256=499pencyDqW9_xm0H0Cq0FhOw0MoNoq-9IVQTKh-eaE,7992
|
|
203
204
|
pyobo/utils/ndex_utils.py,sha256=EokCWS00Wrk_4y8ldeQuUyaaC6yNzBg3DagUl-J2czY,2326
|
|
204
|
-
pyobo/utils/path.py,sha256=
|
|
205
|
-
pyobo/version.py,sha256=
|
|
206
|
-
pyobo-0.12.
|
|
207
|
-
pyobo-0.12.
|
|
208
|
-
pyobo-0.12.
|
|
209
|
-
pyobo-0.12.
|
|
210
|
-
pyobo-0.12.
|
|
205
|
+
pyobo/utils/path.py,sha256=snV58UHxHO6GI2QPPE46ssR4RWozaw83V59sS_I9BY8,4109
|
|
206
|
+
pyobo/version.py,sha256=v0j2YjxitLkr27imJK-XFpLZk5UCOkggapvETMVWd4I,927
|
|
207
|
+
pyobo-0.12.11.dist-info/licenses/LICENSE,sha256=QcgJZKGxlW5BwBNnCBL8VZLVtRvXs81Ch9lJRQSIpJg,1076
|
|
208
|
+
pyobo-0.12.11.dist-info/WHEEL,sha256=Pi5uDq5Fdo_Rr-HD5h9BiPn9Et29Y9Sh8NhcJNnFU1c,79
|
|
209
|
+
pyobo-0.12.11.dist-info/entry_points.txt,sha256=ANgzvuwF_9_1ipCoxJtbBM6A4i2Mkt39gMPzQO6hvGs,42
|
|
210
|
+
pyobo-0.12.11.dist-info/METADATA,sha256=pUsxtOFil50llmHEkOeZi_NcSwly-ezHUMZyZ1EJ2YM,22340
|
|
211
|
+
pyobo-0.12.11.dist-info/RECORD,,
|
|
File without changes
|
|
File without changes
|
|
File without changes
|