gnu: Add petsc-openmpi.

* gnu/packages/maths.scm (petsc-openmpi): New variable.
  (petsc-complex-openmpi): New variable.

gnu: petsc: Clean some more leaked chroot references

* gnu/packages/maths.scm (petsc)[arguments]: Scrub some
  config-generated header files before build.  Only remove files if
  they exist.

gnu: Add missing import in (gnu packages maths).

* gnu/packages/maths.scm: Use (guix utils), which was needed since
  b9100e2f.

gnu: Add missing copyright line

* gnu/packages/maths.scm: Add copyright line missing from 3de01d3.

gnu: petsc: Add input superlu.

* gnu/packages/maths.scm (petsc): Configure with superlu support.

gnu: Add superlu

* gnu/packages/maths.scm (superlu): New variable

gnu: Add petsc

* gnu/packages/maths.scm (petsc): New variable.
  (petsc-complex): New variable.
* gnu/packages/patches/petsc-fix-threadcomm.patch: New patch.
* gnu-system.am (dist_patch_DATA): Add it.

gnu: gmsh: Fix typos

* gnu/packages/maths.scm (gmsh): Fix typo and space aftern
  end-of-sentence.

gnu: Add gmsh

* gnu/packages/maths.scm (gmsh): New variable

guix: cmake: Add input and package libraries to the rpath, and adapt package
  definitions accordingly.

* guix/build/cmake-build-system.scm (configure): Add flags.
* gnu/packages/maths.scm (lapack): Drop special code.
* gnu/packages/ssh.scm (libssh): Drop special code.
* gnu/packages/slim.scm (slim): Drop special code and enable shared library.

Co-authored-by: Eric Bavier <bavier@member.fsf.org>

gnu: lapack: Augment library rpath

* gnu/packages/maths.scm (lapack) [arguments]: New post-installation
  phase to augment the rpath of installed libraries.

gnu: lapack: Build shared libraries

* gnu/packages/maths.scm (lapack) [arguments]: Add -DBUILD_SHARED_LIBS to
  #:configure-flags

gnu: Synchronize synopses and descriptions with the Womb.

* gnu/packages/gnunet.scm (gnunet): Synchronize description and synopsis
  with upstream.
* gnu/packages/maths.scm (units): Likewise.
* gnu/packages/grub.scm (grub): Likewise.
* gnu/packages/pretty-print.scm (enscript): Likewise.

gnu: units: Upgrade to 2.11.

* gnu/packages/maths.scm (units): Upgrade to 2.11.

gnu: glpk: Upgrade to 4.54.

* gnu/packages/maths.scm (glpk): Upgrade to 4.54.

gnu: Remove unused lambda arguments and prefer separate phases over
augmented phases.

* gnu/packages/compression.scm (sharutils) [arguments]: Remove unused
  lambda args.
* gnu/packages/gl.scm (mesa) [arguments]: Same
* gnu/packages/fltk.scm [arguments]: Same.  Substitute const check
  phase with #:tests? #f.  Add pre-configure phase.
* gnu/packages/ghostscript.scm (ghostscript) [arguments]: Put makefile
  patches in separate phase.  Put so steps oinseparate phases.
* gnu/packages/glib.scm (gobject-introspection) [arguments]: Remove
  unused lambda args.  Put patches in pre-configure phase.
* gnu/packages/gnupg.scm (gnupg) [arguments]: Put patch in
  pre-configure phase.
  (pius) [arguments]: Delete const #t configure and build phases.
  (signing-party) [arguments]: Factor patches into post-unpack phase.
  (paperkey) [arguments]: Remove unused lambda args.  Factor out
  patches into pre-check phase.
* gnu/packages/icu4c.scm [arguments]: Change source dir after standard
  unpack phase.  Factor configure patches into pre-configure phase.
* gnu/packages/lsof.scm [arguments]: Remove unused lambda args.
  Remove unnecessary apply.
* gnu/packages/lvm.scm (lvm2) [arguments]: Factor out patches into
  pre-configure phase.
* gnu/packages/libtiff.scm [arguments]: Same
* gnu/packages/maths.scm (hdf5) [arguments]: Same
* gnu/packages/gtk.scm (gtk+-2) [arguments]: Same
* gnu/packages/mp3.scm (libmad) [arguments]: Same
  (id3lib) [arguments]: Same
* gnu/packages/python.scm (python-2) [arguments]: Same
* gnu/packages/texlive.scm (texlive) [arguments]: Same
* gnu/packages/pretty-print.scm (a2ps) [arguments]: Same
  (trueprint) [arguments]: Same
  (source-highlight) [arguments]: Same.  Remove unused lambda args.
* gnu/packages/netpbm.scm [arguments]: Remove unused lambda args.
  Factor out test patches into pre-check phase.  Condense calls to
  substitute*
* gnu/packages/openldap.scm [arguments]: Factor out libtool copy into
  post-configure phases. [synopsis] Remove package name.
* gnu/packages/ssh.scm (openssh) [arguments]: Factor out patches into
  separate phases.
* gnu/packages/tcsh.scm [arguments]: Factor out test patches into
  pre-check phase.
* gnu/packages/version-control.scm (git) [arguments]: Factor out
  patches into post-configure phase.
* gnu/packages/vim.scm [arguments]: Same. [synopsis] Remove package
  name.
* gnu/packages/vpn.scm (openconnect) [arguments]: Put configure flags
  in #:configure-flags

Merge branch 'master' into core-updates

Conflicts:
	gnu-system.am

gnu: Add hdf5.

* gnu/packages/maths.scm (hdf5): New variable.
* gnu/packages/maths.scm (octave): New input hdf5.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

gnu: Add GNU Octave.

* gnu/packages/maths.scm (octave): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>

gnu: Add gnuplot

* gnu/packages/maths.scm (gnuplot): New variable

Signed-off-by: Ludovic Courtès <ludo@gnu.org>