gnu: emacs-elpy: More aggressively trim nondeterministic tests.

More failing tests keep appearing sparingly, a few at a time.  With the
following change, the build succeeded 20 rounds.

* gnu/packages/emacs-xyz.scm (emacs-elpy)
[phases]{disable-broken-tests}: Disable whole tests families affected by
nondeterministic failures rather than individual tests.

gnu: perl-cworld-dekker: Use GUIX_PYTHONPATH.

* gnu/packages/bioinformatics.scm (perl-cworld-dekker)[arguments]: Use
GUIX_PYTHONPATH.

gnu: python-scanpy: Use GUIX_PYTHONPATH.

* gnu/packages/bioinformatics.scm (python-scanpy)[arguments]: Use
GUIX_PYTHONPATH instead of PYTHONPATH.

gnu: python-numpy: Alias to python-numpy-1.20.

Numpy 1.20 is required by numba and umap-learn.  Attempts to rename numpy 1.20
to allow it to coexist with numpy 1.21 in the same environment have not been
successful.

* gnu/packages/python-xyz.scm (python-numpy): Rename to...
(python-numpy-next): ...this variable.
(python2-numpy): Use python-numpy-next package as parent.
(python-numpy-1.20): Inherit from python-numpy-next.
(python-numpy): New variable pointing to python-numpy-1.20.
(python-numba)[propagated-inputs]: Replace python-numpy-1.20 with
python-numpy.

gnu: multiqc: Remove sanity check.

* gnu/packages/bioinformatics.scm (multiqc)[arguments]: Delete 'sanity-check phase.

gnu: multiqc: Use GUIX_PYTHONPATH.

* gnu/packages/bioinformatics.scm (multiqc)[arguments]: Replace PYTHONPATH
with GUIX_PYTHONPATH.

gnu: libmp4v2: Build with '-std=c++03'.

* gnu/packages/video.scm (libmp4v2)[arguments]: Add #:configure-flags.

gnu: python-qtconsole: Add dependency on python-pyqt.

* gnu/packages/python-xyz.scm (python-qtconsole)[propagated-inputs]: Add
PYTHON-PYQT.

vm: <virtual-machine> defaults to using 'qemu-minimal'.

'qemu-minimal' is enough for system tests, which is the main (only?) use
of <virtual-machine>.

* gnu/system/vm.scm (<virtual-machine>)[qemu]: Default to QEMU-MINIMAL.

gnu: tcp-wrappers: Allow compilation with glibc 2.33.

* gnu/packages/networking.scm (tcp-wrappers)[source]: Add 'snippet'.

gnu: grafx2: Build with '-fcommon'.

* gnu/packages/game-development.scm (grafx2)[arguments]: Add '-fcommon'
to #:make-flags.

gnu: grafx2: Add 'file-name' field to source.

Without a file name ending in ".tgz" (or similar), the 'unpack' phase
wouldn't extract it (as implemented in commit
cfcead2e515c0dae02127e5a76496463898be6b6).

* gnu/packages/game-development.scm (grafx2)[source]: Add 'file-name'
field.

gnu: ledger: Remove failing test output.

* gnu/packages/finance.scm (ledger)[source]: Add snippet to remove a failing
  test.

Signed-off-by: Guillaume Le Vaillant <glv@posteo.net>

gnu: sdrangel: Update to 6.17.3.

* gnu/packages/radio.scm (sdrangel): Update to 6.17.3.
  [arguments]: Add 'fix-boost-compatibility' phase.

gnu: opencpn: Update to 5.2.4.

* gnu/packages/geo.scm (opencpn): Update to 5.2.4.
  [arguments]: Update 'configure-flag' and 'fix-build' phase.

gnu: python-scikit-learn: Update to 1.0.1.

* gnu/packages/machine-learning.scm (python-scikit-learn): Update to 1.0.1.
[arguments]: Disable one failing network test.

gnu: python-scikit-learn: Run tests conditionally.

* gnu/packages/machine-learning.scm (python-scikit-learn)[arguments]: Respect
TESTS? in 'check phase.

gnu: python-joblib: Update to 1.1.0.

* gnu/packages/python-xyz.scm (python-joblib): Update to 1.1.0.
[arguments]: Disable one test.

gnu: python2-joblib: Do not inherit source from python-joblib.

* gnu/packages/python-xyz.scm (python2-joblib)[version]: Explicitly set to
0.14.1.
[source]: Do not inherit.

gnu: gtk: Guard against timeouts in the test suite.

This change piggy backs on the improvements to the meson-build-system made in
dfcc96d8f48716ae5aefb383c58b153d5bcb407c; it's motivated by timeouts that
occurred in the GTK test suite while building on a heavily loaded machine.

* gnu/packages/gtk.scm (gtk)[parallel-tests]: New argument.
[test-options]: New argument, which now includes --suite=gtk and
--no-suite=gsk-compare-broadway, to match what upstream uses.
[phases]{check}: Remove override.