gnu: python2-numpy: Do not inherit native-inputs.

* gnu/packages/python-xyz.scm (python2-numpy)[native-inputs]: Do not inherit
from Python 3 variant; use only python2-cython, python2-pytest, and gfortran.
[arguments]: Add phase 'delete-failing-test.

gnu: petsc-{complex,openmpi,complex-openmpi}: Use gexps.

This is a followup to 07ac13a26a0d7c8319afb42c55fc2116ec44668f, which
omitted to switch to gexps in packages that inherit from 'petsc'.

Reported by Mathieu Othacehe <othacehe@gnu.org>.

* gnu/packages/maths.scm (petsc-complex)[arguments]: Use gexps.
(petsc-openmpi)[arguments]: Likewise.
(petsc-complex-openmpi)[arguments]: Likewise.

gnu: scalapack: Update to 2.1.0.

* gnu/packages/maths.scm (scalapack): Update to 2.1.0.
[source]: Remove "scalapack-blacs-mpi-deprecations.patch" and add
"scalapack-gcc-10-compilation.patch".
[arguments]: Add 'skip-faulty-test' phase.
* gnu/packages/patches/scalapack-blacs-mpi-deprecations.patch: Remove.
* gnu/packages/patches/scalapack-gcc-10-compilation.patch: New file.
* gnu/local.mk (dist_patch_DATA): Adjust accordingly.

gnu: tor: Fix build issue on some architectures.

* gnu/packages/tor.scm (tor)[arguments]: Add phase to remove sandbox
during one of the tests.

gnu: gnome-builder: Use libsoup 2.

* gnu/packages/gnome.scm (gnome-builder) [phase 'patch-meson]: Don’t search
for webkit2gtk-4.1.
[inputs]: Replace devhelp with devhelp-with-libsoup2 and
webkit with webkit-with-libsoup2.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>

gnu: devhelp: Add a libsoup 2 variant.

* gnu/packages/gnome.scm (devhelp-with-libsoup2): New variable.

Signed-off-by: Mathieu Othacehe <othacehe@gnu.org>

gnu: freecad: Fix build.

* gnu/packages/patches/freecad-boost-serialization.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/engineering.scm (freecad) [source]: Use it.
[arguments]{#:configure-flags}: Turn it into a GEXP and adapt it.

gnu: Remove vtk-8.

* gnu/packages/image-processing.scm (vtk-8): Remove it.

gnu: freecad: Switch to vtk-9.

Switch to vtk-9 with the relevant patch to be able to get rid of vtk-8.

* gnu/packages/patches/freecad-vtk9.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/engineering.scm (freecad)[source]: Use it.

gnu: ghc: Fix build on i686-linux.

* gnu/packages/haskell.scm (ghc-8.10)[arguments]<#:phases>: Disable
failing test.

Signed-off-by: Lars-Dominik Braun <lars@6xq.net>

gnu: agg: Fix build.

* gnu/packages/patches/agg-2.5-gcc8.patch: New file.
* gnu/local.mk (dist_patch_DATA): Add it.
* gnu/packages/graphics.scm (agg)[source]: Use it.

gnu: darktable: Build with OpenEXR 3.

* gnu/packages/photo.scm (darktable)[arguments]<#:phases>: Rename
'set-LDFLAGS-and-CPATH to 'set-LDFLAGS. Don't set CPATH.
[inputs]: Remove ilmbase. Add imath. Replace openexr-2 with openexr.

Signed-off-by: Leo Famulari <leo@famulari.name>

gnu: darktable: Build with libsoup 2.

* gnu/packages/photo.scm (darktable)[inputs]: Change libsoup to
libsoup-minimal-2.

Signed-off-by: Leo Famulari <leo@famulari.name>

gnu: slepc: Update to 3.16.1.

* gnu/packages/maths.scm (slepc): Update to 3.16.1.
[native-inputs]: Use PYTHON instead of PYTHON-2.  Add WHICH.
[properties]: New field.

gnu: petsc: Update to 3.16.1.

* gnu/packages/maths.scm (petsc): Update to 3.16.1.
[native-inputs]: Use PYTHON instead of PYTHON-2.  Add WHICH.
[arguments]: Rewrite using gexps.  Pass '--with-openblas-dir'.  In
'configure' phase, modify "config/example_template.py".

gnu: python2-requests: Remove dependency on python-charset-normalizer.

The python-charset-normalizer package is Python 3 only.

* gnu/packages/python-web.scm (python-requests)[properties]: New field.
(python2-requests): Rewrite to remove 'python-charset-normalizer' from
'propagated-inputs'.

gnu: python-notify2: Propagate python-dbus.

* gnu/packages/python-xyz.scm (python-notify2)[native-inputs]: Rename to...
[propagated-inputs]: ... this.

gnu: python-dbus: Register 'python2-dbus' as the Python 2 variant.

This allows things like 'python2-notify2' to actually use the Python 2
variant of 'python-dbus'.

* gnu/packages/python-xyz.scm (python-dbus)[properties]: New field.
(python2-dbus)[inputs]: Remove unnecessary 'alist-delete' argument.

gnu: krfb: Use latest pipewire.

* gnu/packages/kde-systemtools.scm (krfb)[inputs]: Replace pipewire with
pipewire-0.3.

gnu: pipewire-0.3: Add optional inputs.

* gnu/packages/linux.scm (pipewire-0.3)[inputs]: Add avahi and ldacbt.