Update sqlite installtion on publish workflow (#8)

* use custom sql installation
* update README

.github/workflows/pypi-publish.yml

@@ -9,43 +9,64 @@ on:
 
 jobs:
   build:
-
     runs-on: ubuntu-latest
 
     steps:
-    - uses: actions/checkout@v2
-    - name: Set up Python 3.9
-      uses: actions/setup-python@v2
-      with:
-        python-version: 3.9
-    - name: Install dependencies
-      run: |
-        python -m pip install --upgrade pip
-        pip install flake8 pytest tox
-    # - name: Lint with flake8
-    #   run: |
-    #     # stop the build if there are Python syntax errors or undefined names
-    #     flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
-    #     # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
-    #     # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
-    - name: Test with tox
-      run: |
-        tox
-    - name: Build docs
-      run: |
-        tox -e docs
-    - run: touch ./docs/_build/html/.nojekyll
-    - name: GH Pages Deployment
-      uses: JamesIves/[email protected]
-      with:
-        branch: gh-pages # The branch the action should deploy to.
-        folder: ./docs/_build/html
-        clean: true # Automatically remove deleted files from the deploy branch
-    - name: Build Project and Publish
-      run: |
-        python -m tox -e clean,build
-    - name: Publish package
-      uses: pypa/gh-action-pypi-publish@27b31702a0e7fc50959f5ad993c78deac1bdfc29
-      with:
-        user: __token__
-        password: ${{ secrets.PYPI_PASSWORD }}
+      - uses: actions/checkout@v2
+
+      - name: Set up Python 3.9
+        uses: actions/setup-python@v2
+        with:
+          python-version: 3.9
+
+      # build SQLite from source, because I need 3.35<=
+      - name: Download SQLite3
+        run: |
+          wget https://www.sqlite.org/2024/sqlite-autoconf-3450300.tar.gz
+          tar -xvf sqlite-autoconf-3450300.tar.gz
+
+      - name: Install SQLite3
+        run: |
+          ./configure
+          make
+          sudo make install
+          export PATH="/usr/local/lib:$PATH"
+        working-directory: sqlite-autoconf-3450300
+
+      - name: Install dependencies
+        run: |
+          python -m pip install --upgrade pip
+          pip install flake8 pytest tox
+      # - name: Lint with flake8
+      #   run: |
+      #     # stop the build if there are Python syntax errors or undefined names
+      #     flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
+      #     # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
+      #     # flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+
+      - name: Test with tox
+        run: |
+          tox
+
+      - name: Build docs
+        run: |
+          tox -e docs
+
+      - run: touch ./docs/_build/html/.nojekyll
+
+      - name: GH Pages Deployment
+        uses: JamesIves/[email protected]
+        with:
+          branch: gh-pages # The branch the action should deploy to.
+          folder: ./docs/_build/html
+          clean: true # Automatically remove deleted files from the deploy branch
+
+      - name: Build Project and Publish
+        run: |
+          python -m tox -e clean,build
+
+      - name: Publish package
+        uses: pypa/gh-action-pypi-publish@27b31702a0e7fc50959f5ad993c78deac1bdfc29
+        with:
+          user: __token__
+          password: ${{ secrets.PYPI_PASSWORD }}

README.md

@@ -15,15 +15,15 @@
 
 # scrnaseq
 
-The `scRNAseq` package provides convenient access to several publicly available single-cell datasets in the form of [SingleCellExperiment](https://github.com/biocpy/singlecellexperiment) objects. Users can obtain a `SingleCellExperiment` and transform it into analysis-ready representations for immediate use.
+The `scrnaseq` package provides convenient access to several publicly available single-cell datasets in the form of [SingleCellExperiment](https://github.com/biocpy/singlecellexperiment) objects. Users can obtain a `SingleCellExperiment` and transform it into analysis-ready representations for immediate use.
 
 To enable discovery, each dataset is decorated with metadata such as the study title/abstract, the species, the number of cells, etc. Users can also contribute their own published datasets to enable re-use by the wider Bioconductor/BiocPy community.
 
 **Also check out the R version of this library [here@scRNAseq](https://bioconductor.org/packages/devel/data/experiment/html/scRNAseq.html) published to Bioconductor.**
 
 ## Installation
 
-package is published to [PyPI](https://pypi.org/project/scrnaseq/),
+Package is published to [PyPI](https://pypi.org/project/scrnaseq/),
 
 ```shell
 pip install scrnaseq