maintain&fix: blis do not compile from source, use uv for installs, update dockerfile

.flake8

@@ -1,5 +0,0 @@
-[flake8]
-extend-ignore = E203, F401, E402, E501, W503
-exclude = .git,__pycache__,.ipynb_checkpoints
-max-line-length = 90
-max-complexity = 18

.flake8_nb

@@ -1,5 +0,0 @@
-[flake8_nb]
-extend-ignore = E203, F401, E402, E501
-exclude = .git,__pycache__,.ipynb_checkpoints
-max-line-length = 90
-max-complexity = 18

.github/workflows/ci.yml

@@ -26,9 +26,9 @@ jobs:
         python-version: ${{ matrix.python-version }}
     - name: Install dependencies
       run: |
-        pip install -e .[dev]
-        # python -m pip install uv
-        # uv pip install --system -e .
+        python -m pip install uv
+        uv pip install spacy --no-binary blis # do not compile blis from source
+        uv pip install -e .[dev]
     - name: Run pytest 
       run: |
         cd ammico

.github/workflows/docs.yml

@@ -17,7 +17,8 @@ jobs:
         fetch-depth: 0 # otherwise, you will failed to push refs to dest repo
     - name: install ammico
       run: |
-        pip install -e .[dev]
+        python -m pip install uv
+        uv pip install -e .[dev]
     - name: set google auth
       uses: 'google-github-actions/auth@v0.4.0'
       with:

Dockerfile

@@ -2,7 +2,8 @@ FROM jupyter/base-notebook
 
 # Install system dependencies for computer vision packages
 USER root
-RUN apt update && apt install -y build-essential libgl1 libglib2.0-0 libsm6 libxrender1 libxext6
+RUN apt update && apt install -y build-essential libgl1 libglib2.0-0 libsm6 libxext6 libxrender1 \
+	&& rm -rf /var/lib/apt/lists/*
 USER $NB_USER
 
 # Copy the repository into the container
@@ -18,12 +19,5 @@ ENV JUPYTER_ENABLE_LAB=yes
 ENV XDG_DATA_HOME=/opt/ammico/data
 
 # Copy notebooks into the home directory
-RUN rm -rf $HOME/work
-RUN cp /opt/ammico/notebooks/*.ipynb $HOME
-
-ARG GOOGLE_CREDS
-ENV GOOGLE_APPLICATION_CREDENTIALS=credentials.json
-RUN echo ${GOOGLE_CREDS} > $GOOGLE_APPLICATION_CREDENTIALS
-# Bundle the pre-built models (that are downloaded on demand) into the
-# Docker image.
-RUN ammico_prefetch_models
+RUN rm -rf "$HOME"/work && \
+	cp /opt/ammico/notebooks/*.ipynb "$HOME"