Hotfix version python in dockerfile (#254)

* macapype_env 0.2 and 0.2-spm * python and pip are already configured and shortcuted in macapype _env
Macatools · Mar 20, 2024 · 9f0e181 · 9f0e181
1 parent d7c32f4
commit 9f0e181
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diff --git a/Dockerfile b/Dockerfile
@@ -9,7 +9,7 @@
 #
 # Timestamp: 2020/12/02 18:33:44 UTC
 
-FROM macatools/macapype_env:v0.1.2-spm
+FROM macatools/macapype_env:v0.2-spm
 
 USER root
 
@@ -18,17 +18,16 @@ ARG DEBIAN_FRONTEND="noninteractive"
 MAINTAINER David Meunier "[email protected]"
 ######################## Python packages
 
-RUN apt-get update && apt-get install -y git python3-pip libpng-dev libfreetype6-dev libxft-dev libblas-dev liblapack-dev libatlas-base-dev gfortran libxml2-dev libxslt1-dev wget graphviz
+RUN apt-get update && apt-get install -y git libpng-dev libfreetype6-dev libxft-dev libblas-dev liblapack-dev libatlas-base-dev gfortran libxml2-dev libxslt1-dev wget graphviz
 
 RUN apt-get install -y python3-pil python3-pil.imagetk
 
 
-RUN python3 -m pip install -U pip
-RUN python3 -m pip install -U pillow
+RUN python -m pip install -U pillow
 #RUN pip3 install pillow
 
 #RUN apt-get install libx11-6 libxext6 libxt6 # matlab
-RUN pip3 install xvfbwrapper \
+RUN pip install xvfbwrapper \
     psutil \
     numpy \
     scipy \
@@ -57,11 +56,6 @@ RUN pip3 install xvfbwrapper \
 
 ############################################# install macapype
 
-RUN echo $(which python) && \
-    echo $(which python3) && \
-    ln -s /usr/bin/python3 /usr/bin/python && \
-    ln -s /usr/bin/pip3 /usr/bin/pip
-
 RUN  pip install --pre macapype && python -c "import macapype; print(macapype.__version__)"
 
 ################################################## Finishing

diff --git a/Dockerfile_macapype_env b/Dockerfile_macapype_env
@@ -132,7 +132,6 @@ RUN apt-get install -y -q --no-install-recommends \
            tcsh \
            xfonts-base \
            xvfb
-
 RUN curl -sSL --retry 5 -o /tmp/toinstall.deb http://snapshot.debian.org/archive/debian-security/20160113T213056Z/pool/updates/main/libp/libpng/libpng12-0_1.2.49-1%2Bdeb7u2_amd64.deb
 RUN dpkg -i /tmp/toinstall.deb
 RUN rm /tmp/toinstall.deb
@@ -163,6 +162,45 @@ RUN echo "Downloading ANTs ..." \
     && curl -fsSL --retry 5 https://dl.dropbox.com/s/1xfhydsf4t4qoxg/ants-Linux-centos6_x86_64-v2.3.1.tar.gz \
     | tar -xz -C /opt/ants-2.3.1 --strip-components 1
 
+######################## NiftiReg
+RUN apt-get install --yes --no-install-recommends \
+        ca-certificates cmake gcc g++ git make \
+    && git clone https://github.com/KCL-BMEIS/niftyreg.git /tmp/niftyreg-src \
+    && mkdir /tmp/niftyreg-build \
+    && cd /tmp/niftyreg-build \
+    && cmake -DCMAKE_INSTALL_PREFIX=/opt/niftyreg /tmp/niftyreg-src \
+    && make \
+    && make install
+ENV PATH=/opt/niftyreg/bin:$PATH
+
+
+####################### new: python 3.10
+
+RUN wget https://www.python.org/ftp/python/3.10.8/Python-3.10.8.tgz
+RUN tar xzf Python-3.10.8.tgz
+#RUN cd Python-3.10.8
+#RUN echo $(pwd)
+RUN Python-3.10.8/configure --enable-optimizations
+#RUN Python-3.10.8/make altinstall
+RUN apt-get install zlib1g-dev
+RUN make altinstall
+
+RUN echo $(which python3.10)
+
+RUN echo $(python3.10 -V )
+
+RUN echo $(which pip3.10)
+RUN echo $(pip3.10 -V )
+
+RUN echo $(which python) && \
+    echo $(which python3.10) && \
+    ln -s /usr/local/bin/python3.10 /usr/bin/python && \
+    ln -s /usr/local/bin/pip3.10 /usr/bin/pip
+
+RUN echo $(which python)
+RUN echo $(which pip)
+
+
 ################################################## Install SPM12 as MCR
 RUN  apt-get -y install unzip xorg wget
 
@@ -193,16 +231,6 @@ RUN wget --no-check-certificate --progress=bar:force -P /opt https://www.fil.ion
  && chmod +x /opt/spm${SPM_VERSION}/spm${SPM_VERSION}
 ENV SPM_DIR /opt/spm${SPM_VERSION}
 
-######################## NiftiReg
-RUN apt-get install --yes --no-install-recommends \
-        ca-certificates cmake gcc g++ git make \
-    && git clone https://github.com/KCL-BMEIS/niftyreg.git /tmp/niftyreg-src \
-    && mkdir /tmp/niftyreg-build \
-    && cd /tmp/niftyreg-build \
-    && cmake -DCMAKE_INSTALL_PREFIX=/opt/niftyreg /tmp/niftyreg-src \
-    && make \
-    && make install
-ENV PATH=/opt/niftyreg/bin:$PATH
 
 ################################################## Finishing
 RUN apt-get clean \

diff --git a/Dockerfile_macapype_env_nomcr b/Dockerfile_macapype_env_nomcr
@@ -173,6 +173,35 @@ RUN apt-get install --yes --no-install-recommends \
     && make install
 ENV PATH=/opt/niftyreg/bin:$PATH
 
+
+####################### new: python 3.10
+
+RUN wget https://www.python.org/ftp/python/3.10.8/Python-3.10.8.tgz
+RUN tar xzf Python-3.10.8.tgz
+#RUN cd Python-3.10.8
+#RUN echo $(pwd)
+RUN Python-3.10.8/configure --enable-optimizations
+#RUN Python-3.10.8/make altinstall
+RUN apt-get install zlib1g-dev
+RUN make altinstall
+
+RUN echo $(which python3.10)
+
+RUN echo $(python3.10 -V )
+
+RUN echo $(which pip3.10)
+RUN echo $(pip3.10 -V )
+
+RUN echo $(which python) && \
+    echo $(which python3.10) && \
+    ln -s /usr/local/bin/python3.10 /usr/bin/python && \
+    ln -s /usr/local/bin/pip3.10 /usr/bin/pip
+
+RUN echo $(which python)
+RUN echo $(which pip)
+
+
+
 ################################################## Finishing
 RUN apt-get clean \
     && rm -rf /var/lib/apt/lists/*

diff --git a/Dockerfile_nomcr b/Dockerfile_nomcr
@@ -9,7 +9,7 @@
 #
 # Timestamp: 2020/12/02 18:33:44 UTC
 
-FROM macatools/macapype_env:v0.1.2
+FROM macatools/macapype_env:v0.2
 
 USER root
 
@@ -18,17 +18,16 @@ ARG DEBIAN_FRONTEND="noninteractive"
 MAINTAINER David Meunier "[email protected]"
 ######################## Python packages
 
-RUN apt-get update && apt-get install -y git python3-pip libpng-dev libfreetype6-dev libxft-dev libblas-dev liblapack-dev libatlas-base-dev gfortran libxml2-dev libxslt1-dev wget graphviz
+RUN apt-get update && apt-get install -y git libpng-dev libfreetype6-dev libxft-dev libblas-dev liblapack-dev libatlas-base-dev gfortran libxml2-dev libxslt1-dev wget graphviz
 
 RUN apt-get install -y python3-pil python3-pil.imagetk
 
 
-RUN python3 -m pip install -U pip
-RUN python3 -m pip install -U pillow
+RUN python -m pip install -U pillow
 #RUN pip3 install pillow
 
 #RUN apt-get install libx11-6 libxext6 libxt6 # matlab
-RUN pip3 install xvfbwrapper \
+RUN pip install xvfbwrapper \
     psutil \
     numpy \
     scipy \
@@ -57,11 +56,6 @@ RUN pip3 install xvfbwrapper \
 
 ############################################# install macapype
 
-RUN echo $(which python) && \
-    echo $(which python3) && \
-    ln -s /usr/bin/python3 /usr/bin/python && \
-    ln -s /usr/bin/pip3 /usr/bin/pip
-
 RUN  pip install --pre macapype && python -c "import macapype; print(macapype.__version__)"
 
 ################################################## Finishing

diff --git a/Dockerfile_testpypi b/Dockerfile_testpypi
@@ -17,17 +17,16 @@ ARG DEBIAN_FRONTEND="noninteractive"
 MAINTAINER David Meunier "[email protected]"
 ######################## Python packages
 
-RUN apt-get update && apt-get install -y git python3-pip libpng-dev libfreetype6-dev libxft-dev libblas-dev liblapack-dev libatlas-base-dev gfortran libxml2-dev libxslt1-dev wget graphviz
+RUN apt-get update && apt-get install -y git libpng-dev libfreetype6-dev libxft-dev libblas-dev liblapack-dev libatlas-base-dev gfortran libxml2-dev libxslt1-dev wget graphviz
 
 RUN apt-get install -y python3-pil python3-pil.imagetk
 
 
-RUN python3 -m pip install -U pip
-RUN python3 -m pip install -U pillow
-#RUN pip3 install pillow
+RUN python -m pip install -U pillow
+#RUN pip install pillow
 
 #RUN apt-get install libx11-6 libxext6 libxt6 # matlab
-RUN pip3 install xvfbwrapper \
+RUN pip install xvfbwrapper \
     psutil \
     numpy \
     scipy \
@@ -55,12 +54,6 @@ RUN pip3 install xvfbwrapper \
     brain-slam
 
 ############################################# install macapype
-
-RUN echo $(which python) && \
-    echo $(which python3) && \
-    ln -s /usr/bin/python3 /usr/bin/python && \
-    ln -s /usr/bin/pip3 /usr/bin/pip
-
 RUN pip install --no-deps --index-url https://test.pypi.org/simple/ --pre macapype && python -c "import macapype; print(macapype.__version__)"
 
 ################################################## Finishing

diff --git a/Dockerfile_testpypi_nomcr b/Dockerfile_testpypi_nomcr
@@ -9,7 +9,7 @@
 #
 # Timestamp: 2020/12/02 18:33:44 UTC
 
-FROM macatools/macapype_env:v0.1.2
+FROM macatools/macapype_env:v0.2
 
 USER root
 
@@ -18,17 +18,15 @@ ARG DEBIAN_FRONTEND="noninteractive"
 MAINTAINER David Meunier "[email protected]"
 ######################## Python packages
 
-RUN apt-get update && apt-get install -y git python3-pip libpng-dev libfreetype6-dev libxft-dev libblas-dev liblapack-dev libatlas-base-dev gfortran libxml2-dev libxslt1-dev wget graphviz
+RUN apt-get update && apt-get install -y git libpng-dev libfreetype6-dev libxft-dev libblas-dev liblapack-dev libatlas-base-dev gfortran libxml2-dev libxslt1-dev wget graphviz
 
 RUN apt-get install -y python3-pil python3-pil.imagetk
 
-
-RUN python3 -m pip install -U pip
-RUN python3 -m pip install -U pillow
+RUN python -m pip install -U pillow
 #RUN pip3 install pillow
 
 #RUN apt-get install libx11-6 libxext6 libxt6 # matlab
-RUN pip3 install xvfbwrapper \
+RUN pip install xvfbwrapper \
     psutil \
     numpy \
     scipy \
@@ -57,11 +55,6 @@ RUN pip3 install xvfbwrapper \
 
 ############################################# install macapype
 
-RUN echo $(which python) && \
-    echo $(which python3) && \
-    ln -s /usr/bin/python3 /usr/bin/python && \
-    ln -s /usr/bin/pip3 /usr/bin/pip
-
 RUN pip install --no-deps --index-url https://test.pypi.org/simple/ --pre macapype && python -c "import macapype; print(macapype.__version__)"
 
 ################################################## Finishing