discotoolkit 1.3.2__tar.gz → 1.3.3__tar.gz

{discotoolkit-1.3.2 → discotoolkit-1.3.3}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: discotoolkit
-Version: 1.3.2
+Version: 1.3.3
 Summary: DISCOtoolkit is an python package that allows users to access data and use the tools provided by the DISCO database.
 Home-page: https://disco.bii.a-star.edu.sg/
 Author: Li Mengwei, Rom Uddamvathanak
@@ -11,17 +11,17 @@ Project-URL: Issues, https://github.com/JinmiaoChenLab/DISCOtoolkit_py/issues
 Project-URL: DISCO, https://disco.bii.a-star.edu.sg/v1/
 Requires-Python: >=3.9
 Description-Content-Type: text/markdown
-Requires-Dist: pandas>=1.4.2
-Requires-Dist: numpy>=1.21.6
-Requires-Dist: scanpy>=1.9.3
-Requires-Dist: scipy>=1.10.1
-Requires-Dist: joblib>=1.1.0
-Requires-Dist: requests>=2.28.1
-Requires-Dist: colorcet>=3.0.1
-Requires-Dist: leidenalg
-Requires-Dist: h5py>=3.8
-Requires-Dist: matplotlib>=3.5
-Requires-Dist: seaborn>=0.12
+Requires-Dist: pandas<4,>=1.4.2
+Requires-Dist: numpy<3,>=1.21.6
+Requires-Dist: scanpy<2,>=1.9.3
+Requires-Dist: scipy<2,>=1.10.1
+Requires-Dist: joblib<2,>=1.1.0
+Requires-Dist: requests<3,>=2.28.1
+Requires-Dist: colorcet<4,>=3.0.1
+Requires-Dist: leidenalg<0.14
+Requires-Dist: h5py<4,>=3.8
+Requires-Dist: matplotlib<4,>=3.5
+Requires-Dist: seaborn<0.15,>=0.12
 Dynamic: author
 Dynamic: author-email
 Dynamic: description
@@ -42,7 +42,7 @@ Dynamic: summary
 -->
 [![Documentation](https://img.shields.io/badge/docs-disco.bii.a--star.edu.sg-blue)](https://disco.bii.a-star.edu.sg/v1/docs/toolkit/guide/) [![Downloads](https://static.pepy.tech/personalized-badge/discotoolkit?period=total&units=international_system&left_color=black&right_color=orange&left_text=Downloads)](https://pepy.tech/project/discotoolkit) [![PyPI version](https://img.shields.io/pypi/v/discotoolkit)](https://pypi.org/project/discotoolkit)
 
-# DISCOtoolkit 1.3.2
+# DISCOtoolkit 1.3.3
 
 DISCOtoolkit is a Python package for accessing the data and tools of the [DISCO database](https://disco.bii.a-star.edu.sg/) (DISCO v1). Read the documentation, with tutorials and the API reference, at [disco.bii.a-star.edu.sg/v1/docs/toolkit/guide](https://disco.bii.a-star.edu.sg/v1/docs/toolkit/guide/).
 

{discotoolkit-1.3.2 → discotoolkit-1.3.3}/README.md

@@ -8,7 +8,7 @@
 -->
 [![Documentation](https://img.shields.io/badge/docs-disco.bii.a--star.edu.sg-blue)](https://disco.bii.a-star.edu.sg/v1/docs/toolkit/guide/) [![Downloads](https://static.pepy.tech/personalized-badge/discotoolkit?period=total&units=international_system&left_color=black&right_color=orange&left_text=Downloads)](https://pepy.tech/project/discotoolkit) [![PyPI version](https://img.shields.io/pypi/v/discotoolkit)](https://pypi.org/project/discotoolkit)
 
-# DISCOtoolkit 1.3.2
+# DISCOtoolkit 1.3.3
 
 DISCOtoolkit is a Python package for accessing the data and tools of the [DISCO database](https://disco.bii.a-star.edu.sg/) (DISCO v1). Read the documentation, with tutorials and the API reference, at [disco.bii.a-star.edu.sg/v1/docs/toolkit/guide](https://disco.bii.a-star.edu.sg/v1/docs/toolkit/guide/).
 

{discotoolkit-1.3.2 → discotoolkit-1.3.3}/discotoolkit/__init__.py

@@ -5,4 +5,4 @@ from .CELLiD import *
 from .GeneSearch import *
 from .GlobalVariable import set_server, get_server
 
-__version__ = "1.3.2"
+__version__ = "1.3.3"

{discotoolkit-1.3.2 → discotoolkit-1.3.3}/discotoolkit.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: discotoolkit
-Version: 1.3.2
+Version: 1.3.3
 Summary: DISCOtoolkit is an python package that allows users to access data and use the tools provided by the DISCO database.
 Home-page: https://disco.bii.a-star.edu.sg/
 Author: Li Mengwei, Rom Uddamvathanak
@@ -11,17 +11,17 @@ Project-URL: Issues, https://github.com/JinmiaoChenLab/DISCOtoolkit_py/issues
 Project-URL: DISCO, https://disco.bii.a-star.edu.sg/v1/
 Requires-Python: >=3.9
 Description-Content-Type: text/markdown
-Requires-Dist: pandas>=1.4.2
-Requires-Dist: numpy>=1.21.6
-Requires-Dist: scanpy>=1.9.3
-Requires-Dist: scipy>=1.10.1
-Requires-Dist: joblib>=1.1.0
-Requires-Dist: requests>=2.28.1
-Requires-Dist: colorcet>=3.0.1
-Requires-Dist: leidenalg
-Requires-Dist: h5py>=3.8
-Requires-Dist: matplotlib>=3.5
-Requires-Dist: seaborn>=0.12
+Requires-Dist: pandas<4,>=1.4.2
+Requires-Dist: numpy<3,>=1.21.6
+Requires-Dist: scanpy<2,>=1.9.3
+Requires-Dist: scipy<2,>=1.10.1
+Requires-Dist: joblib<2,>=1.1.0
+Requires-Dist: requests<3,>=2.28.1
+Requires-Dist: colorcet<4,>=3.0.1
+Requires-Dist: leidenalg<0.14
+Requires-Dist: h5py<4,>=3.8
+Requires-Dist: matplotlib<4,>=3.5
+Requires-Dist: seaborn<0.15,>=0.12
 Dynamic: author
 Dynamic: author-email
 Dynamic: description
@@ -42,7 +42,7 @@ Dynamic: summary
 -->
 [![Documentation](https://img.shields.io/badge/docs-disco.bii.a--star.edu.sg-blue)](https://disco.bii.a-star.edu.sg/v1/docs/toolkit/guide/) [![Downloads](https://static.pepy.tech/personalized-badge/discotoolkit?period=total&units=international_system&left_color=black&right_color=orange&left_text=Downloads)](https://pepy.tech/project/discotoolkit) [![PyPI version](https://img.shields.io/pypi/v/discotoolkit)](https://pypi.org/project/discotoolkit)
 
-# DISCOtoolkit 1.3.2
+# DISCOtoolkit 1.3.3
 
 DISCOtoolkit is a Python package for accessing the data and tools of the [DISCO database](https://disco.bii.a-star.edu.sg/) (DISCO v1). Read the documentation, with tutorials and the API reference, at [disco.bii.a-star.edu.sg/v1/docs/toolkit/guide](https://disco.bii.a-star.edu.sg/v1/docs/toolkit/guide/).
 

{discotoolkit-1.3.2 → discotoolkit-1.3.3}/discotoolkit.egg-info/SOURCES.txt

@@ -22,6 +22,7 @@ tests/test_docs.py
 tests/test_gene_search.py
 tests/test_metadata_helpers.py
 tests/test_reference_loading.py
+tests/test_requirements.py
 tests/test_server_contract.py
 tests/test_settings.py
 tests/test_version.py

discotoolkit-1.3.3/discotoolkit.egg-info/requires.txt

@@ -0,0 +1,11 @@
+pandas<4,>=1.4.2
+numpy<3,>=1.21.6
+scanpy<2,>=1.9.3
+scipy<2,>=1.10.1
+joblib<2,>=1.1.0
+requests<3,>=2.28.1
+colorcet<4,>=3.0.1
+leidenalg<0.14
+h5py<4,>=3.8
+matplotlib<4,>=3.5
+seaborn<0.15,>=0.12

discotoolkit-1.3.3/requirements.txt

@@ -0,0 +1,14 @@
+# Every dependency has an upper limit at the next major version (next minor for 0.x packages), so a new
+# major release cannot break a fresh `pip install discotoolkit`. When one arrives and is wanted: raise the
+# limit, let CI and the Docs build run, release. See "Dependency limits" in RELEASING.md.
+pandas>=1.4.2,<4
+numpy>=1.21.6,<3
+scanpy>=1.9.3,<2
+scipy>=1.10.1,<2
+joblib>=1.1.0,<2
+requests>=2.28.1,<3
+colorcet>=3.0.1,<4
+leidenalg<0.14
+h5py>=3.8,<4
+matplotlib>=3.5,<4
+seaborn>=0.12,<0.15

{discotoolkit-1.3.2 → discotoolkit-1.3.3}/setup.py

@@ -2,11 +2,11 @@ from setuptools import setup, find_packages
 
 # Read the contents of the requirements.txt file
 with open("requirements.txt", "r") as f:
-    requirements = f.read().splitlines()
+    requirements = [line.strip() for line in f if line.strip() and not line.lstrip().startswith("#")]
 
 setup(
     name='discotoolkit',
-    version="1.3.2",
+    version="1.3.3",
     url='https://disco.bii.a-star.edu.sg/',
     author='Li Mengwei, Rom Uddamvathanak',
     author_email='uddamvathanak_rom@immunol.a-star.edu.sg',

discotoolkit-1.3.3/tests/test_requirements.py

@@ -0,0 +1,55 @@
+"""
+Every dependency in requirements.txt has an upper limit, so a new major release of pandas, numpy and the
+rest cannot break a fresh install. A new dependency without one fails here. See RELEASING.md.
+
+    python tests/test_requirements.py
+"""
+import os
+import re
+import sys
+
+ROOT = os.path.join(os.path.dirname(__file__), "..")
+
+
+def requirements():
+    with open(os.path.join(ROOT, "requirements.txt"), encoding="utf-8") as handle:
+        return [line.strip() for line in handle if line.strip() and not line.lstrip().startswith("#")]
+
+
+def test_every_dependency_has_an_upper_limit():
+    unlimited = [line for line in requirements() if not re.search(r"<=?\s*\d", line)]
+    assert not unlimited, "no upper limit (add <next major): %s" % unlimited
+
+
+def test_the_limits_leave_room_above_the_minimum():
+    for line in requirements():
+        low = re.search(r">=\s*([\d.]+)", line)
+        high = re.search(r"<\s*([\d.]+)", line)
+        if low and high:
+            as_tuple = lambda text: tuple(int(part) for part in text.split("."))  # noqa: E731
+            assert as_tuple(low.group(1)) < as_tuple(high.group(1)), line
+
+
+def test_every_line_is_a_valid_requirement():
+    from packaging.requirements import Requirement
+
+    for line in requirements():
+        Requirement(line)
+
+
+def _run_all():
+    tests = [(n, f) for n, f in sorted(globals().items()) if n.startswith("test_") and callable(f)]
+    failed = 0
+    for name, fn in tests:
+        try:
+            fn()
+            print("  PASS  %s" % name)
+        except Exception as error:
+            failed += 1
+            print("  FAIL  %s\n          %s: %s" % (name, type(error).__name__, error))
+    print("\n%d/%d passed" % (len(tests) - failed, len(tests)))
+    return 1 if failed else 0
+
+
+if __name__ == "__main__":
+    sys.exit(_run_all())

discotoolkit-1.3.2/discotoolkit.egg-info/requires.txt

@@ -1,11 +0,0 @@
-pandas>=1.4.2
-numpy>=1.21.6
-scanpy>=1.9.3
-scipy>=1.10.1
-joblib>=1.1.0
-requests>=2.28.1
-colorcet>=3.0.1
-leidenalg
-h5py>=3.8
-matplotlib>=3.5
-seaborn>=0.12

discotoolkit-1.3.2/requirements.txt

@@ -1,11 +0,0 @@
-pandas>=1.4.2
-numpy>=1.21.6
-scanpy>=1.9.3
-scipy>=1.10.1
-joblib>=1.1.0
-requests>=2.28.1
-colorcet>=3.0.1
-leidenalg
-h5py>=3.8
-matplotlib>=3.5
-seaborn>=0.12