Docker fail to build image

[isce-framework]

Docker fail to build image

[yohaimagen]

Hi I am getting the same error
after doing
$ git clone https://github.com/isce-framework/isce2.git
$ cd isce2
$ docker build --rm --force-rm -t hysds/isce2:latest -f docker/Dockerfile .

is there any solve? or updates?

[nickygb]

I couldn't make it work, so I have forked the repo and create a dockerfile based on ubuntu image. Here https://github.com/nickygb/isce2/blob/docker/docker/Dockerfile.ubuntu

[yohaimagen]

I think the issue is incompatibility with some of the packages and python 3.8 which is the now the default of Anaconda. a work around that I found is to downgrade the python version to 3.7 by changing the following commands in the Dockerfile:

at line 22

RUN set -ex \
 && . /opt/conda/bin/activate root \
 && conda install --yes \
      cython \
      gdal \
      git \
      h5py \
      libgdal \
      pytest \
      numpy \
      fftw \
      scipy \
      scons \
      hdf4 \
      hdf5 \
      netcdf4 \
      libgcc \
      libstdcxx-ng \
      cmake \
      opencv \
 && yum install -y uuid-devel x11-devel motif-devel jq \
 && ln -sf /opt/conda/bin/cython /opt/conda/bin/cython3 \
 && mkdir -p /opt/isce2/src 

to

RUN set -ex \
 && . /opt/conda/bin/activate root \
 && conda install python=3.7 \
 &&  conda install --yes \
      cython \
      gdal \
      git \
      h5py \
      libgdal \
      pytest \
      numpy \
      fftw \
      scipy \
      scons \
      hdf4 \
      hdf5 \
      netcdf4 \
      libgcc \
      libstdcxx-ng \
      cmake \
      opencv \
 && yum install -y uuid-devel x11-devel motif-devel jq \
 && ln -sf /opt/conda/bin/cython /opt/conda/bin/cython3 \
 && mkdir -p /opt/isce2/src

and at line 93

RUN set -ex \
 && sudo /opt/conda/bin/conda install --yes \
      gdal \
      h5py \
      libgdal \
      pytest \
      numpy \
      fftw \
      scipy \
      hdf4 \
      hdf5 \
      netcdf4 \
 && sudo yum update -y \
 && sudo yum install -y uuid-devel x11-devel motif-devel gcc-gfortran \
 && cd /opt/conda/lib \
 && sudo unlink libuuid.so \
 && sudo unlink libuuid.so.1 \
 && sudo ln -s /lib64/libuuid.so.1.3.0 libuuid.so \
 && sudo ln -s /lib64/libuuid.so.1.3.0 libuuid.so.1 \
 && cd /lib64 \
 && ( test -f libgfortran.so || sudo ln -sv libgfortran.so.*.* libgfortran.so ) \
 && sudo yum install -y /tmp/isce-2.3-1.x86_64.rpm \
 && sudo yum clean all \
 && sudo rm -rf /var/cache/yum \
 && sudo rm /tmp/isce-2.3-1.x86_64.rpm

to

RUN set -ex \
 && sudo /opt/conda/bin/conda install python=3.7 \
 && sudo /opt/conda/bin/conda install --yes \
      gdal \
      h5py \
      libgdal \
      pytest \
      numpy \
      fftw \
      scipy \
      hdf4 \
      hdf5 \
      netcdf4 \
 && sudo yum update -y \
 && sudo yum install -y uuid-devel x11-devel motif-devel gcc-gfortran \
 && cd /opt/conda/lib \
 && sudo unlink libuuid.so \
 && sudo unlink libuuid.so.1 \
 && sudo ln -s /lib64/libuuid.so.1.3.0 libuuid.so \
 && sudo ln -s /lib64/libuuid.so.1.3.0 libuuid.so.1 \
 && cd /lib64 \
 && ( test -f libgfortran.so || sudo ln -sv libgfortran.so.*.* libgfortran.so ) \
 && sudo yum install -y /tmp/isce-2.3-1.x86_64.rpm \
 && sudo yum clean all \
 && sudo rm -rf /var/cache/yum \
 && sudo rm /tmp/isce-2.3-1.x86_64.rpm

[rtburns-jpl]

Looks like you've already found a workaround, but you can also check out #185. The gist of that is to drop netcdf4, and install opencv via the system package manager, since conda's opencv doesn't support py38 yet. That's the setup we're planning to use for our testing.