From 5866d77bd6a7d67a6d5768a1212793cac5a1f479 Mon Sep 17 00:00:00 2001 From: peterdeweirdt Date: Sun, 14 Sep 2025 10:37:45 -0400 Subject: [PATCH 1/5] bug: fix sklearn version --- .gitignore | 1 + settings.ini | 2 +- 2 files changed, 2 insertions(+), 1 deletion(-) diff --git a/.gitignore b/.gitignore index 9ca0988..671bfc7 100644 --- a/.gitignore +++ b/.gitignore @@ -139,3 +139,4 @@ checklink/cookies.txt # .gitconfig is now autogenerated .gitconfig +conda/ \ No newline at end of file diff --git a/settings.ini b/settings.ini index 9ba5b96..58cd339 100644 --- a/settings.ini +++ b/settings.ini @@ -15,7 +15,7 @@ language = English custom_sidebar = False license = apache2 status = 2 -requirements = joblib>=1.0.1 pandas>=1.0.0 lightgbm>=3.0.0,<=3.3.5 sglearn>=1.2.5 tqdm>=4.61.2 pyarrow>=4.0.1 biopython>=1.78 scikit-learn>=0.24.2 requests>=2.25.1 +requirements = joblib>=1.0.1 pandas>=1.0.0 lightgbm>=3.0.0,<=3.3.5 sglearn>=1.2.5 tqdm>=4.61.2 pyarrow>=4.0.1 biopython>=1.78 scikit-learn==0.24.2 requests>=2.25.1 dev_requirements = gpplot>=0.5.0 seaborn>=0.11.0 scipy>=1.0.1 jupyterlab>=3.0.0 nbdev>=1.1.14,<2.0.0 matplotlib>=3.3.4 tabulate>=0.8.9 jupyter-client<=6.1.12 nbs_path = . doc_path = docs From c95960cf9619e7f387f4f0c821aebbe59e2e4673 Mon Sep 17 00:00:00 2001 From: peterdeweirdt Date: Sun, 14 Sep 2025 10:40:04 -0400 Subject: [PATCH 2/5] bug: update python version --- .github/workflows/main.yml | 2 +- setup.py | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml index 91fdd9c..d67f8e6 100644 --- a/.github/workflows/main.yml +++ b/.github/workflows/main.yml @@ -7,7 +7,7 @@ jobs: - uses: actions/checkout@v1 - uses: actions/setup-python@v1 with: - python-version: '3.7' + python-version: '3.10' architecture: 'x64' - name: Install the library run: | diff --git a/setup.py b/setup.py index 408fd84..95a0e01 100644 --- a/setup.py +++ b/setup.py @@ -30,7 +30,7 @@ } statuses = [ '1 - Planning', '2 - Pre-Alpha', '3 - Alpha', '4 - Beta', '5 - Production/Stable', '6 - Mature', '7 - Inactive' ] -py_versions = '2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 3.0 3.1 3.2 3.3 3.4 3.5 3.6 3.7 3.8'.split() +py_versions = '2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 3.0 3.1 3.2 3.3 3.4 3.5 3.6 3.7 3.8 3.9 3.10'.split() lic = licenses.get(cfg['license'].lower(), (cfg['license'], None)) min_python = cfg['min_python'] From 0b8c266d64b4606bf99914d4bda06be9ad1a58c3 Mon Sep 17 00:00:00 2001 From: peterdeweirdt Date: Sun, 14 Sep 2025 10:45:35 -0400 Subject: [PATCH 3/5] bug: update python version --- .github/workflows/main.yml | 2 +- setup.py | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml index d67f8e6..fb2c7ab 100644 --- a/.github/workflows/main.yml +++ b/.github/workflows/main.yml @@ -7,7 +7,7 @@ jobs: - uses: actions/checkout@v1 - uses: actions/setup-python@v1 with: - python-version: '3.10' + python-version: '3.9' architecture: 'x64' - name: Install the library run: | diff --git a/setup.py b/setup.py index 95a0e01..336d3e8 100644 --- a/setup.py +++ b/setup.py @@ -30,7 +30,7 @@ } statuses = [ '1 - Planning', '2 - Pre-Alpha', '3 - Alpha', '4 - Beta', '5 - Production/Stable', '6 - Mature', '7 - Inactive' ] -py_versions = '2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 3.0 3.1 3.2 3.3 3.4 3.5 3.6 3.7 3.8 3.9 3.10'.split() +py_versions = '2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 3.0 3.1 3.2 3.3 3.4 3.5 3.6 3.7 3.8 3.9'.split() lic = licenses.get(cfg['license'].lower(), (cfg['license'], None)) min_python = cfg['min_python'] From e6b5e3365754dd404eb5a93bbd8a3babe64bf05d Mon Sep 17 00:00:00 2001 From: peterdeweirdt Date: Sun, 14 Sep 2025 10:56:13 -0400 Subject: [PATCH 4/5] bug: update python version --- settings.ini | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/settings.ini b/settings.ini index 58cd339..c3fc2e9 100644 --- a/settings.ini +++ b/settings.ini @@ -15,7 +15,7 @@ language = English custom_sidebar = False license = apache2 status = 2 -requirements = joblib>=1.0.1 pandas>=1.0.0 lightgbm>=3.0.0,<=3.3.5 sglearn>=1.2.5 tqdm>=4.61.2 pyarrow>=4.0.1 biopython>=1.78 scikit-learn==0.24.2 requests>=2.25.1 +requirements = joblib>=1.0.1 pandas>=1.0.0,<2.0.0 lightgbm>=3.0.0,<=3.3.5 sglearn>=1.2.5 tqdm>=4.61.2 pyarrow>=4.0.1 biopython>=1.78 scikit-learn==0.24.2 requests>=2.25.1 numpy<2.0.0 dev_requirements = gpplot>=0.5.0 seaborn>=0.11.0 scipy>=1.0.1 jupyterlab>=3.0.0 nbdev>=1.1.14,<2.0.0 matplotlib>=3.3.4 tabulate>=0.8.9 jupyter-client<=6.1.12 nbs_path = . doc_path = docs From ab0f24b1827bfa9cbc7d640b26acd81146523092 Mon Sep 17 00:00:00 2001 From: peterdeweirdt Date: Sun, 14 Sep 2025 11:43:01 -0400 Subject: [PATCH 5/5] docs: update package version --- rs3/__init__.py | 2 +- settings.ini | 2 +- 2 files changed, 2 insertions(+), 2 deletions(-) diff --git a/rs3/__init__.py b/rs3/__init__.py index d62d967..1f658a4 100644 --- a/rs3/__init__.py +++ b/rs3/__init__.py @@ -1 +1 @@ -__version__ = "0.0.16" +__version__ = "0.0.17" diff --git a/settings.ini b/settings.ini index c3fc2e9..f3c9158 100644 --- a/settings.ini +++ b/settings.ini @@ -8,7 +8,7 @@ author = Peter Deweirdt author_email = petedeweirdt@gmail.com copyright = Genetic Perturbation Platform, Broad Institute branch = master -version = 0.0.16 +version = 0.0.17 min_python = 3.7 audience = Developers language = English