Re: Multiple versions of mesa libraries in cmake runtime search path

[Jake <jforst.mailman@gmail.com>]

If the problem is that qtbase-5 is propagating a different mesa than the
one we can install (i.e. a different /gnu/store entry), let's try
installing qtbase-5 and using its propagated mesa instead of installing
mesa ourselves.

#+begin_src sh

    guix shell geant4-vis cmake make gcc-toolchain qtbase@5

#+end_src

Alas, we still have 2 different mesa versions:

#+begin_example

CMake Warning at CMakeLists.txt:35 (add_executable):
  Cannot generate a safe runtime search path for target exampleA1 because
  files in some directories may conflict with libraries in implicit
  directories:

    runtime library [libEGL.so.1] in
/gnu/store/6imr8p8j0d59s4r0912xy8mficw8kc2y-profile/lib may be hidden by
files in:
      /gnu/store/2rzdlwb0f7ksj7a78kjn7a7qs22avi8l-mesa-23.3.2/lib
    runtime library [libGL.so.1] in
/gnu/store/6imr8p8j0d59s4r0912xy8mficw8kc2y-profile/lib may be hidden by
files in:
      /gnu/store/2rzdlwb0f7ksj7a78kjn7a7qs22avi8l-mesa-23.3.2/lib

  Some of these libraries may not be found correctly.

#+end_example

The installed qtbase-5 propagates the same mesa as the one we can install:

/gnu/store/6imr8p8j0d59s4r0912xy8mficw8kc2y-profile/lib/libEGL.so ->
/gnu/store/clnk1arbkc6v21a93gxnirvsbjaz5v07-mesa-23.3.2/lib/libEGL.so

So then, where is this other mesa coming from (2rzdlwb...), if not qtbase-5?

I've included possibly relevant lines from the generated CMakeCache.txt

#+begin_example

//Path to a file.
OPENGL_EGL_INCLUDE_DIR:PATH=/gnu/store/6imr8p8j0d59s4r0912xy8mficw8kc2y-profile/
include

//Path to a file.
OPENGL_GLX_INCLUDE_DIR:PATH=/gnu/store/6imr8p8j0d59s4r0912xy8mficw8kc2y-profile/
include

//Path to a file.
OPENGL_INCLUDE_DIR:PATH=/gnu/store/2rzdlwb0f7ksj7a78kjn7a7qs22avi8l-mesa-23.3.2/
include

//Path to a library.
OPENGL_egl_LIBRARY:FILEPATH=/gnu/store/6imr8p8j0d59s4r0912xy8mficw8kc2y-profile/
lib/libEGL.so

//Path to a library.
OPENGL_gl_LIBRARY:FILEPATH=/gnu/store/2rzdlwb0f7ksj7a78kjn7a7qs22avi8l-mesa-23.3
.2/lib/libGL.so

#+end_example

Cheers
Jake

On Thu, Mar 14, 2024 at 3:25 AM Jake <jforst.mailman@gmail.com> wrote:

> Hello
>
> In short, I have the mesa package installed and another package I
> installed appears to have a different mesa in /gnu/store/ as a runtime
> dependency.
> As a result, cmake is unable to generate a safe runtime search path,
> because there are 2 different libGL.so.1 and libEGL.so.1 files in the path,
> one from the mesa I installed and another from the other mesa that was
> brought in as a runtime dependency.
>
> Here is the cmake warning:
>
> #+begin_src sh
>
>   CMake Warning at CMakeLists.txt:35 (add_executable):
>     Cannot generate a safe runtime search path for target exampleA1 because
>     files in some directories may conflict with libraries in implicit
>     directories:
>
>       runtime library [libEGL.so.1] in /home/jake/.guix-profile/lib may be
> hidden by files in:
>         /gnu/store/2rzdlwb0f7ksj7a78kjn7a7qs22avi8l-mesa-23.3.2/lib
>       runtime library [libGL.so.1] in /home/jake/.guix-profile/lib may be
> hidden by files in:
>         /gnu/store/2rzdlwb0f7ksj7a78kjn7a7qs22avi8l-mesa-23.3.2/lib
>
>     Some of these libraries may not be found correctly.
>
> #+end_src
>
> I think the guix package definition below is somewhere introducing the
> additional mesa at /gnu/store/2rzdlwb0f7ksj7a78kjn7a7qs22avi8l-mesa-23.3.2.
> The input clhep-2.4.6.2 and native inputs are omitted for brevity because
> I don't think they're relevant, but the full package definition and inputs
> can be found at
> https://github.com/jakeforster/guix-channel/blob/master/jforst/packages/geant4.scm
>
> #+begin_src scheme
>
>   (define-public geant4-vis-11-1-1
>     (package
>       (name "geant4-vis")
>       (version "11.1.1")
>       (source
>        (origin
>          (method git-fetch)
>          (uri (git-reference
>                (url "https://gitlab.cern.ch/geant4/geant4")
>                (commit (string-append "v" version))))
>          (file-name (git-file-name name version))
>          (sha256
>           (base32
> "141fhmh0w8sbp6cckccf3dswn596ds4vgqwc3gz6i53ypyxmv2fw"))))
>       (build-system cmake-build-system)
>       (inputs (list coreutils
>                     gcc-toolchain
>                     xerces-c
>                     expat
>                     clhep-2.4.6.2
>                     python-2
>                     python-3.10
>                     perl
>                     tcsh
>                     qtbase-5
>                     libxmu
>                     libxt))
>       (arguments
>        `(#:configure-flags (let* ((out (assoc-ref %outputs "out"))
>                                   (qt-path (string-append (assoc-ref
>                                                            %build-inputs
>                                                            "qtbase")
>
> "/lib/cmake/Qt5")))
>                              (list (string-append
> "-DCMAKE_INSTALL_PREFIX=" out)
>                                    (string-append "-DCMAKE_PREFIX_PATH="
> qt-path)
>                                    "-DCMAKE_INSTALL_LIBDIR=lib"
>                                    "-DGEANT4_BUILD_MULTITHREADED=ON"
>                                    "-DGEANT4_ENABLE_TESTING=OFF"
>                                    "-DGEANT4_INSTALL_DATA=OFF"
>                                    "-DGEANT4_USE_GDML=ON" ;xerces-c is
> needed for GDML
>                                    "-DGEANT4_USE_SYSTEM_CLHEP=ON"
>                                    "-DGEANT4_USE_SYSTEM_EXPAT=ON"
>                                    "-DGEANT4_USE_OPENGL_X11=ON"
>                                    "-DGEANT4_USE_QT=ON"
>                                    (let ((datadir (string-append out
>                                                    "/share/geant4/data")))
>                                      (string-append
> "-DGEANT4_INSTALL_DATADIR="
>                                                     datadir
> "/share/geant4/data"))))
>          #:phases (modify-phases %standard-phases
>                     (add-after 'install 'install-data
>                       (lambda* (#:key inputs outputs #:allow-other-keys)
>                         (let ((G4NDL (assoc-ref inputs "G4NDL"))
>                               (G4EMLOW (assoc-ref inputs "G4EMLOW"))
>                               (G4PhotonEvaporation (assoc-ref inputs
>                                                     "G4PhotonEvaporation"))
>                               (G4RadioactiveDecay (assoc-ref inputs
>                                                    "G4RadioactiveDecay"))
>                               (G4PARTICLEXS (assoc-ref inputs
> "G4PARTICLEXS"))
>                               (G4PII (assoc-ref inputs "G4PII"))
>                               (G4RealSurface (assoc-ref inputs
> "G4RealSurface"))
>                               (G4SAIDDATA (assoc-ref inputs "G4SAIDDATA"))
>                               (G4ABLA (assoc-ref inputs "G4ABLA"))
>                               (G4INCL (assoc-ref inputs "G4INCL"))
>                               (G4ENSDFSTATE (assoc-ref inputs
> "G4ENSDFSTATE"))
>                               (G4TENDL (assoc-ref inputs "G4TENDL"))
>                               (datadir (string-append (assoc-ref outputs
> "out")
>
> "/share/geant4/data")))
>                           (display (list "Data archives:"
>                                          G4NDL
>                                          G4EMLOW
>                                          G4PhotonEvaporation
>                                          G4RadioactiveDecay
>                                          G4PARTICLEXS
>                                          G4PII
>                                          G4RealSurface
>                                          G4SAIDDATA
>                                          G4ABLA
>                                          G4INCL
>                                          G4ENSDFSTATE))
>                           (newline)
>                           (mkdir-p datadir)
>                           (invoke "tar" "xvf" G4NDL "-C" datadir)
>                           (invoke "tar" "xvf" G4EMLOW "-C" datadir)
>                           (invoke "tar" "xvf" G4PhotonEvaporation "-C"
> datadir)
>                           (invoke "tar" "xvf" G4RadioactiveDecay "-C"
> datadir)
>                           (invoke "tar" "xvf" G4PARTICLEXS "-C" datadir)
>                           (invoke "tar" "xvf" G4PII "-C" datadir)
>                           (invoke "tar" "xvf" G4RealSurface "-C" datadir)
>                           (invoke "tar" "xvf" G4SAIDDATA "-C" datadir)
>                           (invoke "tar" "xvf" G4ABLA "-C" datadir)
>                           (invoke "tar" "xvf" G4INCL "-C" datadir)
>                           (invoke "tar" "xvf" G4ENSDFSTATE "-C" datadir)
>                           (invoke "tar" "xvf" G4TENDL "-C" datadir)))))
>          ;; no tests in Makefile
>          #:tests? #f))
>       (native-inputs `(("G4NDL" ,g4ndl-4.7)
>                        ("G4EMLOW" ,g4emlow-8.2)
>                        ("G4PhotonEvaporation" ,photon-evaporation-5.7)
>                        ("G4RadioactiveDecay" ,radioactive-decay-5.6)
>                        ("G4PARTICLEXS" ,g4particlexs-4.0)
>                        ("G4PII" ,g4pii-1.3)
>                        ("G4RealSurface" ,real-surface-2.2)
>                        ("G4SAIDDATA" ,g4saiddata-2.0)
>                        ("G4ABLA" ,g4abla-3.1)
>                        ("G4INCL" ,g4incl-1.0)
>                        ("G4ENSDFSTATE" ,g4ensdfstate-2.3)
>                        ("G4TENDL" ,g4tendl-1.4)))
>       (home-page "https://geant4.web.cern.ch")
>       (synopsis "Monte Carlo particle track simulations")
>       (description
>        "Geant4 is a toolkit for the simulation of the passage of particles
>   through matter.  Its areas of application include high energy,
>   nuclear and accelerator physics, as well as studies
>   in medical and space science.
>
>   This package supports visualisation with OpenGL and Qt.")
>       (license (license:non-copyleft
>                 "https://geant4.web.cern.ch/download/license"))))
>
> #+end_src
>
> Steps to reproduce the cmake warning given above:
>
> #+begin_src sh
>
>   git clone https://github.com/jakeforster/guix-channel.git
>   guix shell -L ./guix-channel geant4-vis cmake make gcc-toolchain mesa
>
>   # copy an example app
>   INSTALL_DIR=$(guix build geant4-vis)
>   cp -rf $INSTALL_DIR/share/Geant4/examples/basic/B1 .
>
>   # the store is read only
>   chmod -R 751 B1/
>
>   mkdir B1/build
>   cd B1/build
>   cmake ..
>
> #+end_src
>
> I have also reproduced the warning using a guix shell -C --pure. There's
> just some extra hassle with making the build dir first and sharing the B1
> directory containing the CMakeLists.txt file.
>
> If you use your profile instead of a shell, you can confirm the
> libEGL.so.1 and libGL.so.1 libraries in ~/.guix-profile/lib/ point to the
> same mesa in /gnu/store/ that is installed with the following:
>
> #+begin_src sh
>
>   $ guix package -I | grep mesa
>   mesa                 23.3.2           out
> /gnu/store/clnk1arbkc6v21a93gxnirvsbjaz5v07-mesa-23.3.2
>
>   $ ls -l ~/.guix-profile/lib/ | grep libEGL.so.1
>   lrwxrwxrwx 1 root root   71 Jan  1  1970 libEGL.so.1 ->
> /gnu/store/clnk1arbkc6v21a93gxnirvsbjaz5v07-mesa-23.3.2/lib/libEGL.so.1
>
>   $ ls -l ~/.guix-profile/lib/ | grep libGL.so.1
>   lrwxrwxrwx 1 root root   70 Jan  1  1970 libGL.so.1 ->
> /gnu/store/clnk1arbkc6v21a93gxnirvsbjaz5v07-mesa-23.3.2/lib/libGL.so.1
>
> #+end_src
>
> So I'm guessing during the installation of geant4-vis, something is
> bringing in a different mesa from the store
> (/gnu/store/2rzdlwb0f7ksj7a78kjn7a7qs22avi8l-mesa-23.3.2) into the path as
> a runtime dependency.
> I note that qtbase-5 has mesa as a propagated input, so perhaps it's that.
> But it's not clear to me why the mesa propagated for qtbase-5 would be
> different (i.e. has a different /gnu/store/ entry) from the mesa that I
> install in my profile or shell.
> Any suggestions for how to resolve this would be much appreciated.
>
> Thanks!
>
> Jake
>