Begin scipy-ml rewrite

images/scipy-ml-notebook/Dockerfile

@@ -1,5 +1,5 @@
 ARG BASE_TAG=latest
-FROM ghcr.io/ucsd-ets/datascience-notebook:$BASE_TAG
+FROM ghcr.io/ucsd-ets/datascience-notebook:2023.4-fix-rstudio-proxy
 
 USER root
 
@@ -49,28 +49,40 @@ RUN mamba install -c "nvidia/label/cuda-11.8.0" cuda-nvcc -y && \
 # install protobuf to avoid weird base type error. seems like if we don't then it'll be installed twice.
 # https://github.com/spesmilo/electrum/issues/7825
 # pip cache purge didnt work here for some reason.
-RUN pip install --no-cache-dir protobuf==3.20.3
+RUN mamba install protobuf=3.20.3
 
 # cuda-python installed to have parity with tensorflow and cudnn
 # Install pillow<7 due to dependency issue https://github.com/pytorch/vision/issues/1712
 # tensorrt installed to fix not having libnvinfer that has caused tensorflow issues.
 # tensorrt installed to fix not having libnvinfer that has caused tensorflow issues.
-RUN pip install datascience \
-    PyQt5 \
-    scapy \
-    nltk \
-    opencv-contrib-python-headless \
-    opencv-python \
-    pycocotools \
-    pillow \
-    nvidia-cudnn-cu11==8.6.0.163 \
-    tensorflow==2.13.* \ 
-    keras==2.13.1 \
-    tensorflow-datasets \
-    tensorrt==8.5.3.1 && \
-    fix-permissions $CONDA_DIR && \ 
-    fix-permissions /home/$NB_USER && \
-    pip cache purge
+RUN mamba install \
+  datascience \
+  pyqt \
+  scapy \
+  nltk_data \
+  opencv \
+  pycocotools \
+  #tensorflow=2.13.1 \
+  #tensorflow-datasets \
+  keras=2.13.1 \
+  -c conda-forge && \
+  fix-permissions $CONDA_DIR && \
+  fix-permissions /home/$NB_USER && \
+  mamba clean -a -y
+
+RUN mamba install \
+  pillow \
+  -c anaconda && \
+  fix-permissions $CONDA_DIR && \
+  fix-permissions /home/$NB_USER && \
+  mamba clean -a -y
+
+RUN pip install nvidia-cudnn-cu11==8.6.0.163 tensorrt==8.5.3.1 && \
+  fix-permissions $CONDA_DIR && \
+  fix-permissions /home/$NB_USER && \
+  mamba clean -a -y
+
+
     # no purge required but no-cache-dir is used. pip purge will actually break the build here!
 
 # torch must be installed separately since it requires a non-pypi repo. See stable version above
@@ -80,7 +92,9 @@ RUN pip install datascience \
 # We already have the lib files imported into LD_LIBRARY_PATH by CUDDN and the cudatoolkit. let's remove these and save some image space.
 # Beware of potentially needing to update these if we update the drivers.
 RUN pip install torch torchvision torchaudio --index-url https://download.pytorch.org/whl/cu118 && \
-  pip cache purge && \
+  fix-permissions $CONDA_DIR && \
+  fix-permissions /home/$NB_USER && \
+  mamba clean -a -y && \
   rm /opt/conda/lib/python3.9/site-packages/torch/lib/libcudnn_cnn_infer.so.8 && \
   rm /opt/conda/lib/python3.9/site-packages/torch/lib/libcublasLt.so.11 && \
   rm /opt/conda/lib/python3.9/site-packages/torch/lib/libcudnn_adv_infer.so.8 && \