rectanglepy 1.4.0__tar.gz → 1.4.1__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 (57) hide show
  1. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.bumpversion.cfg +1 -1
  2. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/CHANGELOG.md +16 -0
  3. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/PKG-INFO +2 -2
  4. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/README.md +1 -1
  5. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/pyproject.toml +1 -1
  6. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/tl/deconvolution.py +2 -2
  7. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.cruft.json +0 -0
  8. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.editorconfig +0 -0
  9. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.github/ISSUE_TEMPLATE/bug_report.yml +0 -0
  10. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.github/ISSUE_TEMPLATE/config.yml +0 -0
  11. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.github/ISSUE_TEMPLATE/feature_request.yml +0 -0
  12. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.github/PULL_REQUEST_TEMPLATE.md +0 -0
  13. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.github/workflows/build.yaml +0 -0
  14. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.github/workflows/release.yaml +0 -0
  15. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.github/workflows/release_testpypi.yaml +0 -0
  16. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.github/workflows/test.yaml +0 -0
  17. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.gitignore +0 -0
  18. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.pre-commit-config.yaml +0 -0
  19. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/.readthedocs.yaml +0 -0
  20. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/LICENCE_COM +0 -0
  21. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/LICENSE +0 -0
  22. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/Makefile +0 -0
  23. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/_static/.gitkeep +0 -0
  24. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/_static/rec_logo.001.png +0 -0
  25. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/_templates/.gitkeep +0 -0
  26. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/_templates/autosummary/class.rst +0 -0
  27. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/api.md +0 -0
  28. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/changelog.md +0 -0
  29. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/conf.py +0 -0
  30. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/contributing.md +0 -0
  31. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/extensions/typed_returns.py +0 -0
  32. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/index.md +0 -0
  33. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/installation.md +0 -0
  34. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/make.bat +0 -0
  35. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/notebooks/example.ipynb +0 -0
  36. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/references.bib +0 -0
  37. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/references.md +0 -0
  38. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/tutorials.md +0 -0
  39. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/__init__.py +0 -0
  40. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/data/hao1_annotations_small.zip +0 -0
  41. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/data/hao1_counts_small.zip +0 -0
  42. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/data/small_fino_bulks.zip +0 -0
  43. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/pp/__init__.py +0 -0
  44. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/pp/create_signature.py +0 -0
  45. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/pp/rectangle_signature.py +0 -0
  46. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/rectangle.py +0 -0
  47. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/tl/__init__.py +0 -0
  48. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/data/TIL10_signature.txt +0 -0
  49. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/data/bulk_small.csv +0 -0
  50. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/data/cell_annotations_small.txt +0 -0
  51. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/data/quanTIseq_SimRNAseq_mixture_smaller.csv +0 -0
  52. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/data/quanTIseq_SimRNAseq_read_fractions_small.txt +0 -0
  53. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/data/sc_object_small.csv +0 -0
  54. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/data/signature_hao1.csv +0 -0
  55. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/test_pp.py +0 -0
  56. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/test_rectangle.py +0 -0
  57. {rectanglepy-1.4.0 → rectanglepy-1.4.1}/tests/test_tl.py +0 -0
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/.bumpversion.cfg RENAMED
@@ -1,5 +1,5 @@
1
1
  [bumpversion]
2
- current_version = 1.4.0
2
+ current_version = 1.4.1
3
3
  tag = True
4
4
  commit = True
5
5
 
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/CHANGELOG.md RENAMED
@@ -10,6 +10,22 @@ and this project adheres to [Semantic Versioning][].
10
10
 
11
11
  ## [Unreleased]
12
12
 
13
+ ## [1.4.1] - 2026-04-23
14
+
15
+ ### Changed
16
+
17
+ - Wider QP tolerances
18
+
19
+ ## [1.4.0] - 2026-03-10
20
+
21
+ ### Changed
22
+
23
+ - **Licensing: Rectangle is now available under a dual licence.**
24
+ - Non-commercial use: GNU General Public Licence v3 (GPLv3).
25
+ - Commercial use: A proprietary licence is available for companies wishing to use Rectangle in closed-source or proprietary applications. For enquiries, contact innovation-psb@uibk.ac.at.
26
+ - See [LICENCE_COM](LICENCE_COM) for full commercial licence terms.
27
+ - Added Contributor License Agreement (CLA) for external contributions.
28
+
13
29
  ## [1.2.0] - 2026-01-31
14
30
 
15
31
  ### Changed
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/PKG-INFO RENAMED
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.4
2
2
  Name: rectanglepy
3
- Version: 1.4.0
3
+ Version: 1.4.1
4
4
  Summary: Hierarchical deconvolution of bulk transcriptomics
5
5
  Project-URL: Documentation, https://rectanglepy.readthedocs.io/
6
6
  Project-URL: Source, https://github.com/ComputationalBiomedicineGroup/Rectangle
@@ -735,7 +735,7 @@ Please refer to the [documentation][link-docs]. In particular, the
735
735
 
736
736
  ## Installation
737
737
 
738
- You need to have Python 3.10 or higher installed on your system.
738
+ You need Python 3.10–3.12 installed on your system.
739
739
 
740
740
  How to install Rectangle:
741
741
 
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/README.md RENAMED
@@ -23,7 +23,7 @@ Please refer to the [documentation][link-docs]. In particular, the
23
23
 
24
24
  ## Installation
25
25
 
26
- You need to have Python 3.10 or higher installed on your system.
26
+ You need Python 3.10–3.12 installed on your system.
27
27
 
28
28
  How to install Rectangle:
29
29
 
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/pyproject.toml RENAMED
@@ -4,7 +4,7 @@ requires = ["hatchling"]
4
4
 
5
5
  [project]
6
6
  name = "rectanglepy"
7
- version = "1.4.0"
7
+ version = "1.4.1"
8
8
  description = "Hierarchical deconvolution of bulk transcriptomics"
9
9
  readme = "README.md"
10
10
  requires-python = ">=3.10"
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/src/rectanglepy/tl/deconvolution.py RENAMED
@@ -143,8 +143,8 @@ def solve_qp(
143
143
  l=l,
144
144
  u=u,
145
145
  verbose=False,
146
- eps_abs=1e-8,
147
- eps_rel=1e-8,
146
+ eps_abs=1e-7,
147
+ eps_rel=1e-7,
148
148
  max_iter=50000,
149
149
  polish=True,
150
150
  warm_start=False,
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/.cruft.json RENAMED
File without changes
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/.editorconfig RENAMED
File without changes
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/.gitignore RENAMED
File without changes
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/LICENCE_COM RENAMED
File without changes
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/LICENSE RENAMED
File without changes
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/Makefile RENAMED
File without changes
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/api.md RENAMED
File without changes
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/conf.py RENAMED
File without changes
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/index.md RENAMED
File without changes
{rectanglepy-1.4.0 → rectanglepy-1.4.1}/docs/make.bat RENAMED
File without changes