github-flatpak.yaml

# vim:set expandtab shiftwidth=2:
id: edu.ucsf.rbvi.ChimeraX
runtime: org.freedesktop.Platform
runtime-version: '23.08'
sdk: org.freedesktop.Sdk
command: ChimeraX

build-options:
  build_args:
  # need to fetch files from https://cxtoolshed.rbvi.ucsf.edu/prereqs
  - --share=network
  #? FontConfig error while running ChimeraX --nogui
  #? - --ro-bind /usr/share/fonts /run/host/fonts

finish-args:
  # X11 + Xshm access
  - --share=ipc
  - --socket=x11
  # fallback-x11 to use X11 if wayland is not found
  # -- currently, we need X11
  #- --socket=fallback-x11
  # Wayland access
  - --socket=wayland
  # OpenGL rendering
  - --device=dri
  # Network access
  - --share=network
  # Share setup with other installations of ChimeraX
  - --filesystem=xdg-cache/ChimeraX:create
  - --filesystem=xdg-config/ChimeraX:create
  - --filesystem=xdg-data/ChimeraX:create
  - --filesystem=xdg-download/ChimeraX:create
  # Want "Spin Movie" icon to be able to save to Desktop
  - --filesystem=xdg-desktop
  # Want to be able to open files in current directory on command
  # line (both in shell and within ChimeraX)
  # --fileystem=home allows for files in the home directory tree
  # --fileystem=host allows for files in /tmp, /var/tmp, etc.
  #   This makes the previous filesystem entries redundent
  #   unless these permissions are turned off (with the
  #   FlatSeal flatpak application).
  - --filesystem=home
  - --filesystem=host

modules:
  - name: rsync
    cleanup: /share/man
    no-autogen: true
    sources:
      - type: archive
        url: https://download.samba.org/pub/rsync/src/rsync-3.4.1.tar.gz
        sha256: 2924bcb3a1ed8b551fc101f740b9f0fe0a202b115027647cf69850d65fd88c52

  - name: chimerax
    builddir: true
    buildsystem: simple
    sources:
      - type: dir
        path: .
    build-commands:
      - mkdir -p /app
      - NO_PREBUILT=1 FLATPAK_DIST=1 make -C prereqs install
      - NO_PREBUILT=1 FLATPAK_DIST=1 make -C prereqs app-install
      # TODO Move FLATPAK_APPNAME to config.mk and define it if FLATPAK_DIST is defined
      - FLATPAK_DIST=1 FLATPAK_APPNAME=edu.ucsf.rbvi.ChimeraX make -C src/apps/ChimeraX install FLATPAK_DIST=23.08 FLATPAK_APPNAME=edu.ucsf.rbvi.ChimeraX
      - cp -rp include /app
      - /app/bin/python3.* -m pip install wheels/*.whl
      - FLATPAK_DIST=1 make -C src/apps install
      - make -C docs install
      - /app/bin/ChimeraX --nogui --exit --cmd "linux flatpak-files edu.ucsf.rbvi.ChimeraX"
      - install -Dm644 -t /app/share/metainfo edu.ucsf.rbvi.ChimeraX.metainfo.xml
      - install -Dm644 -t /app/share/applications edu.ucsf.rbvi.ChimeraX.desktop

  # libQt6Network.so.6 from the Qt Group needs
  # libgssapi_krb5.so.2, but is not in flatpak runtime environment
  - name: krb5
    buildsystem: simple
    sources:
    - type: archive
      url: https://cxtoolshed.rbvi.ucsf.edu/prereqs/krb5/krb5-1.21.2.tar.gz
      sha256: 9560941a9d843c0243a71b17a7ac6fe31c7cebb5bce3983db79e52ae7e850491
    build-commands:
      - cd src && ./configure
      - make -j -C src/util
      - make -j -C src/include
      # need rpath to point to installation directory, not /usr/local/lib
      - (cd lib; for m in $(find . -name Makefile); do sed -i "s/SHLIB_RDIRS=.*/SHLIB_RDIRS='\$\$ORIGIN'/" $m; done)
      - make -j -C src/lib
      - cd src/lib && cp libkrb5.so.3 libk5crypto.so.3 libcom_err.so.3 libkrb5support.so.0 libgssapi_krb5.so.2 /app/lib/python3*/site-packages/PyQt6/Qt6/lib/

cleanup:
  - '/bin/rsync*'