update python install

Author: QPod0

docker_atom/work/script-setup.sh

@@ -16,15 +16,24 @@ setup_mamba() {
 
 
 setup_conda_postprocess() {
+  ln -sf ${CONDA_PREFIX}/bin/python3 /usr/bin/python
+
   # If python exists, set pypi source
   if [ -f "$(which python)" ]; then
     cat >/etc/pip.conf <<EOF
 [global]
 progress_bar=off
 root-user-action=ignore
+# retries=5
+# timeout=10
+trusted-host=pypi.python.org pypi.org files.pythonhosted.org
+# index-url=https://pypi.python.org/simple
 EOF
   fi
 
+  export PATH=$PATH:${CONDA_PREFIX}/bin
+  printenv | sort
+
      conda config --system --prepend channels conda-forge \
   && conda config --system --set auto_update_conda false  \
   && conda config --system --set show_channel_urls true   \
@@ -42,15 +51,17 @@ EOF
 }
 
 setup_conda_with_mamba() {
+  mkdir -pv ${CONDA_PREFIX}
   VERSION_PYTHON=$1; shift 1;
   mamba install -y --root-prefix="${CONDA_PREFIX}" --prefix="${CONDA_PREFIX}" -c "conda-forge" conda pip python="${VERSION_PYTHON:-3.10}"
-  rm -rf /opt/conda/pkgs/*
+  rm -rf ${CONDA_PREFIX}/pkgs/*
   setup_conda_postprocess
 }
 
 setup_conda_download() {
+  mkdir -pv ${CONDA_PREFIX}
   wget -qO- "https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-$(arch).sh" -O /tmp/conda.sh
-  bash /tmp/conda.sh -f -b -p /opt/conda
+  bash /tmp/conda.sh -f -b -p ${CONDA_PREFIX}/
   rm -rf /tmp/conda.sh
   setup_conda_postprocess
 }

docker_base/Dockerfile

@@ -6,18 +6,17 @@ FROM ${BASE_NAMESPACE:+$BASE_NAMESPACE/}${BASE_IMG}
 
 LABEL maintainer="haobibo@gmail.com"
 
-ENV CONDA_PREFIX=/opt/conda/ \
-    PATH=/opt/conda/bin:$PATH
+ENV CONDA_PREFIX=/opt/conda \
+    PATH=$PATH:${CONDA_PREFIX}/bin
 
-RUN source /opt/utils/script-utils.sh \
- && source /opt/utils/script-setup.sh \
+RUN source /opt/utils/script-setup.sh \
+ ## source /opt/utils/script-utils.sh # already included in the `script-setup.sh`
  && install_apt /opt/utils/install_list_base.apt \
  && echo "Install tini" \
  && setup_tini \
  && echo "Install Mamba, Python, and Conda:" \
- && mkdir -pv ${CONDA_PREFIX} \
- && setup_mamba && setup_conda_with_mamba && install__clean \
- && ln -sf /opt/conda/bin/python3 /usr/bin/python
+ && setup_mamba && setup_conda_with_mamba && install__clean
+
 #&& echo "Replace system Python3 with Conda's Python - note that /bin and /sbin are symlinks of /usr/bin in docker image ubuntu" \
 #&& ln -sf /opt/conda/lib/python3.10 /opt/conda/lib/python3 \
 #&& cp --verbose -rn /usr/lib/python3.*/* /opt/conda/lib/python3/ \