Skip to content

Move leidenalg to the extra denpendency of doc #152

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
wants to merge 1 commit into
base: main
Choose a base branch
from
Open

Move leidenalg to the extra denpendency of doc #152

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
6 changes: 6 additions & 0 deletions README.md
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -14,10 +14,16 @@ Information of CellTypist can be also found in our CellTypist portal. [![Website

# Install CellTypist
### Using pip [![PyPI](https://img.shields.io/pypi/v/celltypist.svg?color=brightgreen&style=flat)](https://pypi.org/project/celltypist)
Install the core package:
```console
pip install celltypist
```

To include additional dependencies for tutorials and documentation, install with the [doc] extras:
```console
pip install celltypist[doc]
```

### Using conda [![install with bioconda](https://img.shields.io/conda/vn/bioconda/celltypist.svg?color=brightgreen&style=flat)](https://anaconda.org/bioconda/celltypist)
```console
conda install -c bioconda -c conda-forge celltypist
Expand Down
1 change: 1 addition & 0 deletions requirements-doc.txt
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
leidenalg>=0.9.0
1 change: 0 additions & 1 deletion requirements.txt
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -5,4 +5,3 @@ openpyxl>=3.0.4
click>=7.1.2
requests>=2.23.0
scanpy>=1.7.0
leidenalg>=0.9.0
9 changes: 6 additions & 3 deletions setup.py
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -4,8 +4,8 @@ def get_readme():
with open("README.md", "rt", encoding="utf-8") as fh:
return fh.read()

def get_requirements():
with open("requirements.txt", "rt", encoding="utf-8") as fh:
def get_requirements(requirements_file: str):
with open(requirements_file, "rt", encoding="utf-8") as fh:
return [line.strip() for line in fh.readlines()]

def get_version():
Expand All @@ -26,7 +26,10 @@ def get_version():
long_description_content_type="text/markdown",
url="https://github.com/Teichlab/celltypist",
packages=setuptools.find_packages(),
install_requires=get_requirements(),
install_requires=get_requirements("requirements.txt"),
extras_require={
"doc": get_requirements("requirements-doc.txt"),
},
include_package_data=True,
entry_points={
'console_scripts': ['celltypist=celltypist.command_line:main'],
Expand Down