pyseg_system

[root@rockylinux9 ~]# cat /etc/redhat-release
Rocky Linux release 9.5 (Blue Onyx)
 
(dockerのインストールと起動)
[root@rockylinux9 ~]# dnf config-manager --add-repo https://download.docker.com/linux/centos/docker-ce.repo
[root@rockylinux9 ~]# dnf install docker-ce -y
[root@rockylinux9 ~]# systemctl start docker.service
[root@rockylinux9 ~]# docker info
Client: Docker Engine - Community
 Version:    28.0.4
 Context:    defaul
  :
[root@rockylinux9 ~]#
 
(pyseg_system の取得とdokcer image作成)
[root@rockylinux9 ~]# cd /apps/src/
[root@rockylinux9 src]# git clone https://github.com/anmartinezs/pyseg_system
 
[root@rockylinux9 src]# cd pyseg_system
 
[root@rockylinux9 pyseg_system]# git log -1
commit 6baf5f9aaa11ad41b99796e548e51fafa9b4330b (HEAD -> master, origin/master, origin/HEAD)
Author: anmartinezs <an.martinez.s.sw@gmail.com>
Date:   Fri Nov 8 13:10:41 2024 +0100
 
    Update README.md
 
    DOI correction
 
[root@rockylinux9 pyseg_system]# docker build . -t pyseg:latest
 :
251.7 + /usr/local/pyseg_system/sys/soft/miniconda3/bin/conda install --yes --solver=libmamba --channel conda-forge --channel anaconda python=3.7 opencv=4.2.0 graph-tool=2.29 future=0.18.2=py37_0 pip=23.3
252.9 Channels:
252.9  - conda-forge
252.9  - anaconda
252.9  - defaults
252.9 Platform: linux-64
252.9 Collecting package metadata (repodata.json): ...working... done
265.8 Solving environment: ...working... failed
508.0
508.0 LibMambaUnsatisfiableError: Encountered problems while solving:
508.0   - nothing provides openssl >=1.1.1,<1.1.2.0a0 needed by python-3.7.1-h0371630_3
508.0   - nothing provides libopencv 4.2.0 py36_5 needed by opencv-4.2.0-py36_5
 :
Dockerfile:22
--------------------
  21 |
  22 | >>> RUN cd sys && chmod u+x *.sh && ./install_ubuntu_apt_pkgs_docker.sh && ./install_third_parties.sh  \
  23 | >>>     && ./install_miniconda.sh && ./install_conda_pkgs.sh
  24 |     RUN cd sys && ./set_bashrc_env.sh
--------------------
ERROR: failed to solve: process "/bin/sh -c cd sys && chmod u+x *.sh && ./install_ubuntu_apt_pkgs_docker.sh && ./install_third_parties.sh      && ./install_miniconda.sh && ./install_conda_pkgs.sh" did not complete successfully: exit code: 1
[root@rockylinux9 pyseg_system]#

[root@rockylinux9 ~]# cat /etc/redhat-release
Rocky Linux release 9.5 (Blue Onyx)
 
[root@rockylinux9 ~]#

[root@rockylinux9 ~]# cd /apps
[root@rockylinux9 apps]# git clone https://github.com/anmartinezs/pyseg_system
[root@rockylinux9 apps]# cd pyseg_system/
[root@rockylinux9 pyseg_system]#

/apps/pyseg_system/sys/soft   /disperse/latest/build      <-- $buildFold 
                                              /infrstr    <-- $infrFold
                 ./sys/install/disperse/latest/sources/cfitsio_3.380.tar.gz
                                               /cfitsio
                 ./sys/install/cgal/4.7/sources/CGAL-4.7.tar.gz
 
cp /apps/pyseg_system/sys/install/disperse/latest/sources/cfitsio_3.380.tar.gz   /apps/src
cd /apps/src
 
tar xf cfitsio_3.380.tar.gz
cd cfitsio/
./configure --enable-shared --enable-static --prefix=/apps/pyseg_system/sys/soft/disperse/latest/infrstr
make; make install
 
dnf install CGAL-devel CGAL-qt5-devel
dnf --enablerepo=devel install  SDL_image-devel
 
mathgl-2.4.4.tar.gz         mathgl-1が必要みたい
tar xf mathgl-2.4.4.tar.gz
cd mathgl-2.4.4
mkdir build ; cd build
cmake  -DCMAKE_INSTALL_PREFIX=/apps/local ..
vi CMakeCache.txt
  enable-qt5:BOOL=ON
make; make install
 
 
cd /apps/src
git clone https://github.com/thierry-sousbie/DisPerSE
cd DisPerSE
mkdir build; cd build
cmake . -DCMAKE_INSTALL_PREFIX=$buildFold -DCFITSIO_DIR=$infrFold
cmake .. -DCMAKE_INSTALL_PREFIX=/apps/pyseg_system/sys/soft/disperse/latest/build -DCFITSIO_DIR=/apps/pyseg_system/sys/soft/disperse/latest/infrstr
make; make install
ls /apps/src/pyseg_system/sys/soft/disperse/latest/build/bin/
    fieldconv  mse  netconv  skelconv
 
 
 
conda create -n pyseg python=3.7 opencv=4.2 graph-tool=2.29 future=0.18 "setuptools<58" vtk=8 -c conda-forge
 
conda activate pyseg
 
conda install beautifulsoup4=4.9 lxml=4.6 pillow=6.2 pywavelets=1.1 scikit-image=0.14 scikit-learn=0.20 scikit-fmm=2021.2 scipy=1.2 astropy=4.1 imageio=2.9  -c conda-forge
 
pip install pyfits==3.5
 
PATH=/apps/pyenv/versions/anaconda3-2024.10-1/envs/pyseg/bin:/apps/src/pyseg_system/sys/soft/disperse/latest/build/bin/
PYTHONPATH=/apps/src/pyseg_system/code