bioversions 0.6.25__tar.gz → 0.6.26__tar.gz

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.
Files changed (109) hide show
  1. {bioversions-0.6.25 → bioversions-0.6.26}/PKG-INFO +1 -1
  2. {bioversions-0.6.25 → bioversions-0.6.26}/docs/_data/versions.yml +9 -2
  3. bioversions-0.6.26/docs/failures.md +360 -0
  4. {bioversions-0.6.25 → bioversions-0.6.26}/docs/img/has_release_url.svg +1 -1
  5. {bioversions-0.6.25 → bioversions-0.6.26}/docs/img/version_date_types.svg +1 -1
  6. {bioversions-0.6.25 → bioversions-0.6.26}/docs/img/version_types.svg +1 -1
  7. {bioversions-0.6.25 → bioversions-0.6.26}/docs/source/conf.py +1 -1
  8. {bioversions-0.6.25 → bioversions-0.6.26}/pyproject.toml +2 -2
  9. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/resources/versions.json +15 -2
  10. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/version.py +1 -1
  11. bioversions-0.6.25/docs/failures.md +0 -145
  12. {bioversions-0.6.25 → bioversions-0.6.26}/.cruft.json +0 -0
  13. {bioversions-0.6.25 → bioversions-0.6.26}/.github/CODE_OF_CONDUCT.md +0 -0
  14. {bioversions-0.6.25 → bioversions-0.6.26}/.github/CONTRIBUTING.md +0 -0
  15. {bioversions-0.6.25 → bioversions-0.6.26}/.github/codecov.yml +0 -0
  16. {bioversions-0.6.25 → bioversions-0.6.26}/.github/workflows/cruft.yml +0 -0
  17. {bioversions-0.6.25 → bioversions-0.6.26}/.github/workflows/tests.yml +0 -0
  18. {bioversions-0.6.25 → bioversions-0.6.26}/.github/workflows/update.yml +0 -0
  19. {bioversions-0.6.25 → bioversions-0.6.26}/.gitignore +0 -0
  20. {bioversions-0.6.25 → bioversions-0.6.26}/.readthedocs.yml +0 -0
  21. {bioversions-0.6.25 → bioversions-0.6.26}/LICENSE +0 -0
  22. {bioversions-0.6.25 → bioversions-0.6.26}/MANIFEST.in +0 -0
  23. {bioversions-0.6.25 → bioversions-0.6.26}/README.md +0 -0
  24. {bioversions-0.6.25 → bioversions-0.6.26}/docs/_config.yml +0 -0
  25. {bioversions-0.6.25 → bioversions-0.6.26}/docs/_includes/footer.html +0 -0
  26. {bioversions-0.6.25 → bioversions-0.6.26}/docs/_includes/head.html +0 -0
  27. {bioversions-0.6.25 → bioversions-0.6.26}/docs/download.md +0 -0
  28. {bioversions-0.6.25 → bioversions-0.6.26}/docs/index.md +0 -0
  29. {bioversions-0.6.25 → bioversions-0.6.26}/docs/source/cli.rst +0 -0
  30. {bioversions-0.6.25 → bioversions-0.6.26}/docs/source/index.rst +0 -0
  31. {bioversions-0.6.25 → bioversions-0.6.26}/docs/source/installation.rst +0 -0
  32. {bioversions-0.6.25 → bioversions-0.6.26}/docs/source/logo.png +0 -0
  33. {bioversions-0.6.25 → bioversions-0.6.26}/docs/source/usage.rst +0 -0
  34. {bioversions-0.6.25 → bioversions-0.6.26}/docs/summary.md +0 -0
  35. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/__init__.py +0 -0
  36. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/__main__.py +0 -0
  37. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/charts.py +0 -0
  38. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/cli.py +0 -0
  39. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/py.typed +0 -0
  40. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/resources/__init__.py +0 -0
  41. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/resources/update.py +0 -0
  42. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/slack_client.py +0 -0
  43. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/__init__.py +0 -0
  44. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/antibodyregistry.py +0 -0
  45. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/bigg.py +0 -0
  46. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/biogrid.py +0 -0
  47. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/cellosaurus.py +0 -0
  48. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/chebi.py +0 -0
  49. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/chembl.py +0 -0
  50. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/chemidplus.py +0 -0
  51. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/civic.py +0 -0
  52. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/complexportal.py +0 -0
  53. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/daily.py +0 -0
  54. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/depmap.py +0 -0
  55. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/dgi.py +0 -0
  56. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/disgenet.py +0 -0
  57. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/drugbank.py +0 -0
  58. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/drugcentral.py +0 -0
  59. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/ensembl.py +0 -0
  60. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/expasy.py +0 -0
  61. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/flybase.py +0 -0
  62. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/gtdb.py +0 -0
  63. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/guidetopharmacology.py +0 -0
  64. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/hgnc.py +0 -0
  65. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/homologene.py +0 -0
  66. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/icd10.py +0 -0
  67. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/icd11.py +0 -0
  68. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/icf.py +0 -0
  69. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/intact.py +0 -0
  70. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/interpro.py +0 -0
  71. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/itis.py +0 -0
  72. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/kegg.py +0 -0
  73. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/mesh.py +0 -0
  74. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/mgi.py +0 -0
  75. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/mirbase.py +0 -0
  76. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/moalmanac.py +0 -0
  77. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/msigdb.py +0 -0
  78. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/ncit.py +0 -0
  79. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/npass.py +0 -0
  80. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/obo.py +0 -0
  81. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/ols.py +0 -0
  82. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/omim.py +0 -0
  83. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/oncotree.py +0 -0
  84. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/pathbank.py +0 -0
  85. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/pathwaycommons.py +0 -0
  86. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/pfam.py +0 -0
  87. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/pombase.py +0 -0
  88. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/pr.py +0 -0
  89. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/pubchem.py +0 -0
  90. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/reactome.py +0 -0
  91. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/rfam.py +0 -0
  92. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/rgd.py +0 -0
  93. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/rhea.py +0 -0
  94. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/rxnorm.py +0 -0
  95. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/sgd.py +0 -0
  96. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/slm.py +0 -0
  97. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/stringdb.py +0 -0
  98. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/umls.py +0 -0
  99. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/uniprot.py +0 -0
  100. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/unversioned.py +0 -0
  101. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/wikipathways.py +0 -0
  102. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/sources/zfin.py +0 -0
  103. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/templates/base.html +0 -0
  104. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/templates/home.html +0 -0
  105. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/twitter_client.py +0 -0
  106. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/utils.py +0 -0
  107. {bioversions-0.6.25 → bioversions-0.6.26}/src/bioversions/wsgi.py +0 -0
  108. {bioversions-0.6.25 → bioversions-0.6.26}/tests/test_bioversions.py +0 -0
  109. {bioversions-0.6.25 → bioversions-0.6.26}/tox.ini +0 -0
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: bioversions
3
- Version: 0.6.25
3
+ Version: 0.6.26
4
4
  Summary: Get the current version for biological databases
5
5
  Project-URL: Bug Tracker, https://github.com/biopragmatics/bioversions/issues
6
6
  Project-URL: Homepage, https://github.com/biopragmatics/bioversions
@@ -1,7 +1,7 @@
1
1
  annotations:
2
2
  author: runner
3
- date: '2025-01-02'
4
- revision: 889
3
+ date: '2025-01-03'
4
+ revision: 890
5
5
  database:
6
6
  - name: A nomenclatural ontology for biological names
7
7
  prefix: nomen
@@ -5176,6 +5176,9 @@ database:
5176
5176
  - date: '2024-12-30'
5177
5177
  retrieved: '2025-01-01'
5178
5178
  version: December 30, 2024
5179
+ - date: '2025-01-01'
5180
+ retrieved: '2025-01-03'
5181
+ version: January 1, 2025
5179
5182
  vtype: date
5180
5183
  - name: 'OntoAvida: ontology for Avida digital evolution platform'
5181
5184
  prefix: ontoavida
@@ -8273,6 +8276,8 @@ database:
8273
8276
  version: '2025-01-01'
8274
8277
  - retrieved: '2025-01-02'
8275
8278
  version: '2025-01-02'
8279
+ - retrieved: '2025-01-03'
8280
+ version: '2025-01-03'
8276
8281
  vtype: date
8277
8282
  - name: SWO (The Software Ontology)
8278
8283
  prefix: swo
@@ -11034,6 +11039,8 @@ database:
11034
11039
  version: '2024-12-30'
11035
11040
  - retrieved: '2025-01-02'
11036
11041
  version: '2024-12-31'
11042
+ - retrieved: '2025-01-03'
11043
+ version: '2025-01-01'
11037
11044
  vtype: date
11038
11045
  - name: Zebrafish Phenotype Ontology
11039
11046
  prefix: zp
@@ -0,0 +1,360 @@
1
+ # Summary of Errors
2
+
3
+ - DepMap - failed to resolve DepMap
4
+ - DisGeNet - failed to resolve DisGeNet
5
+ - Antibody Registry - failed to resolve Antibody Registry
6
+ - ChEBI - failed to resolve ChEBI
7
+ - DrugBank - failed to resolve DrugBank
8
+
9
+ ## DepMap
10
+
11
+ Using class: `DepMapGetter`
12
+
13
+ ```python-traceback
14
+ Traceback (most recent call last):
15
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 534, in _make_request
16
+ response = conn.getresponse()
17
+ ^^^^^^^^^^^^^^^^^^
18
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connection.py", line 516, in getresponse
19
+ httplib_response = super().getresponse()
20
+ ^^^^^^^^^^^^^^^^^^^^^
21
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/http/client.py", line 1428, in getresponse
22
+ response.begin()
23
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/http/client.py", line 331, in begin
24
+ version, status, reason = self._read_status()
25
+ ^^^^^^^^^^^^^^^^^^^
26
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/http/client.py", line 292, in _read_status
27
+ line = str(self.fp.readline(_MAXLINE + 1), "iso-8859-1")
28
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
29
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/socket.py", line 720, in readinto
30
+ return self._sock.recv_into(b)
31
+ ^^^^^^^^^^^^^^^^^^^^^^^
32
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/ssl.py", line 1251, in recv_into
33
+ return self.read(nbytes, buffer)
34
+ ^^^^^^^^^^^^^^^^^^^^^^^^^
35
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/ssl.py", line 1103, in read
36
+ return self._sslobj.read(len, buffer)
37
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
38
+ TimeoutError: The read operation timed out
39
+
40
+ The above exception was the direct cause of the following exception:
41
+
42
+ Traceback (most recent call last):
43
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/adapters.py", line 667, in send
44
+ resp = conn.urlopen(
45
+ ^^^^^^^^^^^^^
46
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 841, in urlopen
47
+ retries = retries.increment(
48
+ ^^^^^^^^^^^^^^^^^^
49
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/util/retry.py", line 474, in increment
50
+ raise reraise(type(error), error, _stacktrace)
51
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
52
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/util/util.py", line 39, in reraise
53
+ raise value
54
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 787, in urlopen
55
+ response = self._make_request(
56
+ ^^^^^^^^^^^^^^^^^^^
57
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 536, in _make_request
58
+ self._raise_timeout(err=e, url=url, timeout_value=read_timeout)
59
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 367, in _raise_timeout
60
+ raise ReadTimeoutError(
61
+ urllib3.exceptions.ReadTimeoutError: HTTPSConnectionPool(host='depmap.org', port=443): Read timed out. (read timeout=15)
62
+
63
+ During handling of the above exception, another exception occurred:
64
+
65
+ Traceback (most recent call last):
66
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 216, in _iter_versions
67
+ yv = resolve(cls.name)
68
+ ^^^^^^^^^^^^^^^^^
69
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 169, in resolve
70
+ return _resolve_helper_cached(name)
71
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
72
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 258, in func_wrapper
73
+ return _calc_entry(core, key, func, args, kwds)
74
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
75
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 61, in _calc_entry
76
+ func_res = func(*args, **kwds)
77
+ ^^^^^^^^^^^^^^^^^^^
78
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 176, in _resolve_helper_cached
79
+ return _resolve_helper(name)
80
+ ^^^^^^^^^^^^^^^^^^^^^
81
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 182, in _resolve_helper
82
+ return getter.resolve()
83
+ ^^^^^^^^^^^^^^^^
84
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 216, in resolve
85
+ version=cls.version,
86
+ ^^^^^^^^^^^
87
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 94, in version
88
+ if isinstance(cls._cache_prop, str):
89
+ ^^^^^^^^^^^^^^^
90
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 88, in _cache_prop
91
+ cls._cache = cls().get()
92
+ ^^^^^^^^^^^
93
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/depmap.py", line 22, in get
94
+ res = requests.get(URL, timeout=15)
95
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
96
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/api.py", line 73, in get
97
+ return request("get", url, params=params, **kwargs)
98
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
99
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/api.py", line 59, in request
100
+ return session.request(method=method, url=url, **kwargs)
101
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
102
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/sessions.py", line 589, in request
103
+ resp = self.send(prep, **send_kwargs)
104
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
105
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/sessions.py", line 703, in send
106
+ r = adapter.send(request, **kwargs)
107
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
108
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/adapters.py", line 713, in send
109
+ raise ReadTimeout(e, request=request)
110
+ requests.exceptions.ReadTimeout: HTTPSConnectionPool(host='depmap.org', port=443): Read timed out. (read timeout=15)
111
+
112
+ ```
113
+
114
+ ## DisGeNet
115
+
116
+ Using class: `DisGeNetGetter`
117
+
118
+ ```python-traceback
119
+ Traceback (most recent call last):
120
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/models.py", line 974, in json
121
+ return complexjson.loads(self.text, **kwargs)
122
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
123
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/json/__init__.py", line 346, in loads
124
+ return _default_decoder.decode(s)
125
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^
126
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/json/decoder.py", line 338, in decode
127
+ obj, end = self.raw_decode(s, idx=_w(s, 0).end())
128
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
129
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/json/decoder.py", line 356, in raw_decode
130
+ raise JSONDecodeError("Expecting value", s, err.value) from None
131
+ json.decoder.JSONDecodeError: Expecting value: line 1 column 1 (char 0)
132
+
133
+ During handling of the above exception, another exception occurred:
134
+
135
+ Traceback (most recent call last):
136
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 216, in _iter_versions
137
+ yv = resolve(cls.name)
138
+ ^^^^^^^^^^^^^^^^^
139
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 169, in resolve
140
+ return _resolve_helper_cached(name)
141
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
142
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 258, in func_wrapper
143
+ return _calc_entry(core, key, func, args, kwds)
144
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
145
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 61, in _calc_entry
146
+ func_res = func(*args, **kwds)
147
+ ^^^^^^^^^^^^^^^^^^^
148
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 176, in _resolve_helper_cached
149
+ return _resolve_helper(name)
150
+ ^^^^^^^^^^^^^^^^^^^^^
151
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 182, in _resolve_helper
152
+ return getter.resolve()
153
+ ^^^^^^^^^^^^^^^^
154
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 216, in resolve
155
+ version=cls.version,
156
+ ^^^^^^^^^^^
157
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 94, in version
158
+ if isinstance(cls._cache_prop, str):
159
+ ^^^^^^^^^^^^^^^
160
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 88, in _cache_prop
161
+ cls._cache = cls().get()
162
+ ^^^^^^^^^^^
163
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/disgenet.py", line 24, in get
164
+ res_json = res.json()
165
+ ^^^^^^^^^^
166
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/models.py", line 978, in json
167
+ raise RequestsJSONDecodeError(e.msg, e.doc, e.pos)
168
+ requests.exceptions.JSONDecodeError: Expecting value: line 1 column 1 (char 0)
169
+
170
+ ```
171
+
172
+ ## Antibody Registry
173
+
174
+ Using class: `AntibodyRegistryGetter`
175
+
176
+ ```python-traceback
177
+ Traceback (most recent call last):
178
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 216, in _iter_versions
179
+ yv = resolve(cls.name)
180
+ ^^^^^^^^^^^^^^^^^
181
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 169, in resolve
182
+ return _resolve_helper_cached(name)
183
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
184
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 258, in func_wrapper
185
+ return _calc_entry(core, key, func, args, kwds)
186
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
187
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 61, in _calc_entry
188
+ func_res = func(*args, **kwds)
189
+ ^^^^^^^^^^^^^^^^^^^
190
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 176, in _resolve_helper_cached
191
+ return _resolve_helper(name)
192
+ ^^^^^^^^^^^^^^^^^^^^^
193
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 182, in _resolve_helper
194
+ return getter.resolve()
195
+ ^^^^^^^^^^^^^^^^
196
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 216, in resolve
197
+ version=cls.version,
198
+ ^^^^^^^^^^^
199
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 94, in version
200
+ if isinstance(cls._cache_prop, str):
201
+ ^^^^^^^^^^^^^^^
202
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 88, in _cache_prop
203
+ cls._cache = cls().get()
204
+ ^^^^^^^^^^^
205
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/antibodyregistry.py", line 21, in get
206
+ return soup.find(**{"class": "footer"}).find("a").text.lstrip("v")
207
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
208
+ AttributeError: 'NoneType' object has no attribute 'find'
209
+
210
+ ```
211
+
212
+ ## ChEBI
213
+
214
+ Using class: `ChEBIGetter`
215
+
216
+ ```python-traceback
217
+ Traceback (most recent call last):
218
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 534, in _make_request
219
+ response = conn.getresponse()
220
+ ^^^^^^^^^^^^^^^^^^
221
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connection.py", line 516, in getresponse
222
+ httplib_response = super().getresponse()
223
+ ^^^^^^^^^^^^^^^^^^^^^
224
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/http/client.py", line 1428, in getresponse
225
+ response.begin()
226
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/http/client.py", line 331, in begin
227
+ version, status, reason = self._read_status()
228
+ ^^^^^^^^^^^^^^^^^^^
229
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/http/client.py", line 292, in _read_status
230
+ line = str(self.fp.readline(_MAXLINE + 1), "iso-8859-1")
231
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
232
+ File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/socket.py", line 720, in readinto
233
+ return self._sock.recv_into(b)
234
+ ^^^^^^^^^^^^^^^^^^^^^^^
235
+ TimeoutError: timed out
236
+
237
+ The above exception was the direct cause of the following exception:
238
+
239
+ Traceback (most recent call last):
240
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/adapters.py", line 667, in send
241
+ resp = conn.urlopen(
242
+ ^^^^^^^^^^^^^
243
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 841, in urlopen
244
+ retries = retries.increment(
245
+ ^^^^^^^^^^^^^^^^^^
246
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/util/retry.py", line 474, in increment
247
+ raise reraise(type(error), error, _stacktrace)
248
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
249
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/util/util.py", line 39, in reraise
250
+ raise value
251
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 787, in urlopen
252
+ response = self._make_request(
253
+ ^^^^^^^^^^^^^^^^^^^
254
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 536, in _make_request
255
+ self._raise_timeout(err=e, url=url, timeout_value=read_timeout)
256
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/urllib3/connectionpool.py", line 367, in _raise_timeout
257
+ raise ReadTimeoutError(
258
+ urllib3.exceptions.ReadTimeoutError: HTTPConnectionPool(host='ftp.ebi.ac.uk', port=80): Read timed out. (read timeout=60)
259
+
260
+ During handling of the above exception, another exception occurred:
261
+
262
+ Traceback (most recent call last):
263
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 216, in _iter_versions
264
+ yv = resolve(cls.name)
265
+ ^^^^^^^^^^^^^^^^^
266
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 169, in resolve
267
+ return _resolve_helper_cached(name)
268
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
269
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 258, in func_wrapper
270
+ return _calc_entry(core, key, func, args, kwds)
271
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
272
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 61, in _calc_entry
273
+ func_res = func(*args, **kwds)
274
+ ^^^^^^^^^^^^^^^^^^^
275
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 176, in _resolve_helper_cached
276
+ return _resolve_helper(name)
277
+ ^^^^^^^^^^^^^^^^^^^^^
278
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 182, in _resolve_helper
279
+ return getter.resolve()
280
+ ^^^^^^^^^^^^^^^^
281
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 216, in resolve
282
+ version=cls.version,
283
+ ^^^^^^^^^^^
284
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 94, in version
285
+ if isinstance(cls._cache_prop, str):
286
+ ^^^^^^^^^^^^^^^
287
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 88, in _cache_prop
288
+ cls._cache = cls().get()
289
+ ^^^^^^^^^^^
290
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 282, in get
291
+ return self.process(get_obo_version(url))
292
+ ^^^^^^^^^^^^^^^^^^^^
293
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 255, in get_obo_version
294
+ with requests.get(url, stream=True, timeout=60) as res:
295
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
296
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/api.py", line 73, in get
297
+ return request("get", url, params=params, **kwargs)
298
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
299
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/api.py", line 59, in request
300
+ return session.request(method=method, url=url, **kwargs)
301
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
302
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/sessions.py", line 589, in request
303
+ resp = self.send(prep, **send_kwargs)
304
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
305
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/sessions.py", line 724, in send
306
+ history = [resp for resp in gen]
307
+ ^^^
308
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/sessions.py", line 265, in resolve_redirects
309
+ resp = self.send(
310
+ ^^^^^^^^^^
311
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/sessions.py", line 703, in send
312
+ r = adapter.send(request, **kwargs)
313
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
314
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/adapters.py", line 713, in send
315
+ raise ReadTimeout(e, request=request)
316
+ requests.exceptions.ReadTimeout: HTTPConnectionPool(host='ftp.ebi.ac.uk', port=80): Read timed out. (read timeout=60)
317
+
318
+ ```
319
+
320
+ ## DrugBank
321
+
322
+ Using class: `DrugBankGetter`
323
+
324
+ ```python-traceback
325
+ Traceback (most recent call last):
326
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 216, in _iter_versions
327
+ yv = resolve(cls.name)
328
+ ^^^^^^^^^^^^^^^^^
329
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 169, in resolve
330
+ return _resolve_helper_cached(name)
331
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
332
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 258, in func_wrapper
333
+ return _calc_entry(core, key, func, args, kwds)
334
+ ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
335
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 61, in _calc_entry
336
+ func_res = func(*args, **kwds)
337
+ ^^^^^^^^^^^^^^^^^^^
338
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 176, in _resolve_helper_cached
339
+ return _resolve_helper(name)
340
+ ^^^^^^^^^^^^^^^^^^^^^
341
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 182, in _resolve_helper
342
+ return getter.resolve()
343
+ ^^^^^^^^^^^^^^^^
344
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 216, in resolve
345
+ version=cls.version,
346
+ ^^^^^^^^^^^
347
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 94, in version
348
+ if isinstance(cls._cache_prop, str):
349
+ ^^^^^^^^^^^^^^^
350
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 88, in _cache_prop
351
+ cls._cache = cls().get()
352
+ ^^^^^^^^^^^
353
+ File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/drugbank.py", line 28, in get
354
+ res.raise_for_status()
355
+ File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/models.py", line 1024, in raise_for_status
356
+ raise HTTPError(http_error_msg, response=self)
357
+ requests.exceptions.HTTPError: 403 Client Error: Forbidden for url: https://go.drugbank.com/releases.json
358
+
359
+ ```
360
+
@@ -6,7 +6,7 @@
6
6
  <rdf:RDF xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:cc="http://creativecommons.org/ns#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
7
7
  <cc:Work>
8
8
  <dc:type rdf:resource="http://purl.org/dc/dcmitype/StillImage"/>
9
- <dc:date>2025-01-02T01:00:58.617048</dc:date>
9
+ <dc:date>2025-01-03T01:02:50.333861</dc:date>
10
10
  <dc:format>image/svg+xml</dc:format>
11
11
  <dc:creator>
12
12
  <cc:Agent>
@@ -6,7 +6,7 @@
6
6
  <rdf:RDF xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:cc="http://creativecommons.org/ns#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
7
7
  <cc:Work>
8
8
  <dc:type rdf:resource="http://purl.org/dc/dcmitype/StillImage"/>
9
- <dc:date>2025-01-02T01:00:58.571606</dc:date>
9
+ <dc:date>2025-01-03T01:02:50.289129</dc:date>
10
10
  <dc:format>image/svg+xml</dc:format>
11
11
  <dc:creator>
12
12
  <cc:Agent>
@@ -6,7 +6,7 @@
6
6
  <rdf:RDF xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:cc="http://creativecommons.org/ns#" xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#">
7
7
  <cc:Work>
8
8
  <dc:type rdf:resource="http://purl.org/dc/dcmitype/StillImage"/>
9
- <dc:date>2025-01-02T01:00:58.423310</dc:date>
9
+ <dc:date>2025-01-03T01:02:50.144967</dc:date>
10
10
  <dc:format>image/svg+xml</dc:format>
11
11
  <dc:creator>
12
12
  <cc:Agent>
@@ -26,7 +26,7 @@ copyright = f"{date.today().year}, Charles Tapley Hoyt"
26
26
  author = "Charles Tapley Hoyt"
27
27
 
28
28
  # The full version, including alpha/beta/rc tags.
29
- release = "0.6.25"
29
+ release = "0.6.26"
30
30
 
31
31
  # The short X.Y version.
32
32
  parsed_version = re.match(
@@ -4,7 +4,7 @@ build-backend = "hatchling.build"
4
4
 
5
5
  [project]
6
6
  name = "bioversions"
7
- version = "0.6.25"
7
+ version = "0.6.26"
8
8
  description = "Get the current version for biological databases"
9
9
  readme = "README.md"
10
10
  authors = [
@@ -222,7 +222,7 @@ known-first-party = [
222
222
  docstring-code-format = true
223
223
 
224
224
  [tool.bumpversion]
225
- current_version = "0.6.25"
225
+ current_version = "0.6.26"
226
226
  parse = "(?P<major>\\d+)\\.(?P<minor>\\d+)\\.(?P<patch>\\d+)(?:-(?P<release>[0-9A-Za-z-]+(?:\\.[0-9A-Za-z-]+)*))?(?:\\+(?P<build>[0-9A-Za-z-]+(?:\\.[0-9A-Za-z-]+)*))?"
227
227
  serialize = [
228
228
  "{major}.{minor}.{patch}-{release}+{build}",
@@ -1,7 +1,7 @@
1
1
  {
2
2
  "annotations": {
3
- "revision": 889,
4
- "date": "2025-01-02",
3
+ "revision": 890,
4
+ "date": "2025-01-03",
5
5
  "author": "runner"
6
6
  },
7
7
  "database": [
@@ -9340,6 +9340,11 @@
9340
9340
  "retrieved": "2025-01-01",
9341
9341
  "version": "December 30, 2024",
9342
9342
  "date": "2024-12-30"
9343
+ },
9344
+ {
9345
+ "retrieved": "2025-01-03",
9346
+ "version": "January 1, 2025",
9347
+ "date": "2025-01-01"
9343
9348
  }
9344
9349
  ],
9345
9350
  "name": "Online Mendelian Inheritance in Man",
@@ -15198,6 +15203,10 @@
15198
15203
  {
15199
15204
  "retrieved": "2025-01-02",
15200
15205
  "version": "2025-01-02"
15206
+ },
15207
+ {
15208
+ "retrieved": "2025-01-03",
15209
+ "version": "2025-01-03"
15201
15210
  }
15202
15211
  ],
15203
15212
  "name": "SwissLipids",
@@ -20266,6 +20275,10 @@
20266
20275
  {
20267
20276
  "retrieved": "2025-01-02",
20268
20277
  "version": "2024-12-31"
20278
+ },
20279
+ {
20280
+ "retrieved": "2025-01-03",
20281
+ "version": "2025-01-01"
20269
20282
  }
20270
20283
  ],
20271
20284
  "name": "Zebrafish Information Network",
@@ -7,7 +7,7 @@ __all__ = [
7
7
  "VERSION",
8
8
  ]
9
9
 
10
- VERSION = "0.6.25"
10
+ VERSION = "0.6.26"
11
11
 
12
12
 
13
13
  def get_git_hash() -> str:
@@ -1,145 +0,0 @@
1
- # Summary of Errors
2
-
3
- - DisGeNet - failed to resolve DisGeNet
4
- - Antibody Registry - failed to resolve Antibody Registry
5
- - DrugBank - failed to resolve DrugBank
6
-
7
- ## DisGeNet
8
-
9
- Using class: `DisGeNetGetter`
10
-
11
- ```python-traceback
12
- Traceback (most recent call last):
13
- File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/models.py", line 974, in json
14
- return complexjson.loads(self.text, **kwargs)
15
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
16
- File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/json/__init__.py", line 346, in loads
17
- return _default_decoder.decode(s)
18
- ^^^^^^^^^^^^^^^^^^^^^^^^^^
19
- File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/json/decoder.py", line 338, in decode
20
- obj, end = self.raw_decode(s, idx=_w(s, 0).end())
21
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
22
- File "/opt/hostedtoolcache/Python/3.12.8/x64/lib/python3.12/json/decoder.py", line 356, in raw_decode
23
- raise JSONDecodeError("Expecting value", s, err.value) from None
24
- json.decoder.JSONDecodeError: Expecting value: line 1 column 1 (char 0)
25
-
26
- During handling of the above exception, another exception occurred:
27
-
28
- Traceback (most recent call last):
29
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 216, in _iter_versions
30
- yv = resolve(cls.name)
31
- ^^^^^^^^^^^^^^^^^
32
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 169, in resolve
33
- return _resolve_helper_cached(name)
34
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
35
- File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 258, in func_wrapper
36
- return _calc_entry(core, key, func, args, kwds)
37
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
38
- File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 61, in _calc_entry
39
- func_res = func(*args, **kwds)
40
- ^^^^^^^^^^^^^^^^^^^
41
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 176, in _resolve_helper_cached
42
- return _resolve_helper(name)
43
- ^^^^^^^^^^^^^^^^^^^^^
44
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 182, in _resolve_helper
45
- return getter.resolve()
46
- ^^^^^^^^^^^^^^^^
47
- File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 216, in resolve
48
- version=cls.version,
49
- ^^^^^^^^^^^
50
- File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 94, in version
51
- if isinstance(cls._cache_prop, str):
52
- ^^^^^^^^^^^^^^^
53
- File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 88, in _cache_prop
54
- cls._cache = cls().get()
55
- ^^^^^^^^^^^
56
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/disgenet.py", line 24, in get
57
- res_json = res.json()
58
- ^^^^^^^^^^
59
- File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/models.py", line 978, in json
60
- raise RequestsJSONDecodeError(e.msg, e.doc, e.pos)
61
- requests.exceptions.JSONDecodeError: Expecting value: line 1 column 1 (char 0)
62
-
63
- ```
64
-
65
- ## Antibody Registry
66
-
67
- Using class: `AntibodyRegistryGetter`
68
-
69
- ```python-traceback
70
- Traceback (most recent call last):
71
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 216, in _iter_versions
72
- yv = resolve(cls.name)
73
- ^^^^^^^^^^^^^^^^^
74
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 169, in resolve
75
- return _resolve_helper_cached(name)
76
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
77
- File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 258, in func_wrapper
78
- return _calc_entry(core, key, func, args, kwds)
79
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
80
- File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 61, in _calc_entry
81
- func_res = func(*args, **kwds)
82
- ^^^^^^^^^^^^^^^^^^^
83
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 176, in _resolve_helper_cached
84
- return _resolve_helper(name)
85
- ^^^^^^^^^^^^^^^^^^^^^
86
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 182, in _resolve_helper
87
- return getter.resolve()
88
- ^^^^^^^^^^^^^^^^
89
- File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 216, in resolve
90
- version=cls.version,
91
- ^^^^^^^^^^^
92
- File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 94, in version
93
- if isinstance(cls._cache_prop, str):
94
- ^^^^^^^^^^^^^^^
95
- File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 88, in _cache_prop
96
- cls._cache = cls().get()
97
- ^^^^^^^^^^^
98
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/antibodyregistry.py", line 21, in get
99
- return soup.find(**{"class": "footer"}).find("a").text.lstrip("v")
100
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
101
- AttributeError: 'NoneType' object has no attribute 'find'
102
-
103
- ```
104
-
105
- ## DrugBank
106
-
107
- Using class: `DrugBankGetter`
108
-
109
- ```python-traceback
110
- Traceback (most recent call last):
111
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 216, in _iter_versions
112
- yv = resolve(cls.name)
113
- ^^^^^^^^^^^^^^^^^
114
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 169, in resolve
115
- return _resolve_helper_cached(name)
116
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^
117
- File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 258, in func_wrapper
118
- return _calc_entry(core, key, func, args, kwds)
119
- ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
120
- File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/cachier/core.py", line 61, in _calc_entry
121
- func_res = func(*args, **kwds)
122
- ^^^^^^^^^^^^^^^^^^^
123
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 176, in _resolve_helper_cached
124
- return _resolve_helper(name)
125
- ^^^^^^^^^^^^^^^^^^^^^
126
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/__init__.py", line 182, in _resolve_helper
127
- return getter.resolve()
128
- ^^^^^^^^^^^^^^^^
129
- File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 216, in resolve
130
- version=cls.version,
131
- ^^^^^^^^^^^
132
- File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 94, in version
133
- if isinstance(cls._cache_prop, str):
134
- ^^^^^^^^^^^^^^^
135
- File "/home/runner/work/bioversions/bioversions/src/bioversions/utils.py", line 88, in _cache_prop
136
- cls._cache = cls().get()
137
- ^^^^^^^^^^^
138
- File "/home/runner/work/bioversions/bioversions/src/bioversions/sources/drugbank.py", line 28, in get
139
- res.raise_for_status()
140
- File "/home/runner/work/bioversions/bioversions/.tox/update/lib/python3.12/site-packages/requests/models.py", line 1024, in raise_for_status
141
- raise HTTPError(http_error_msg, response=self)
142
- requests.exceptions.HTTPError: 403 Client Error: Forbidden for url: https://go.drugbank.com/releases.json
143
-
144
- ```
145
-
File without changes
File without changes
File without changes
File without changes
File without changes
File without changes
File without changes