Merge staging-next into master (#44009)

* substitute(): --subst-var was silently coercing to "" if the variable does not exist.

* libffi: simplify using `checkInputs`

* pythonPackges.hypothesis, pythonPackages.pytest: simpify dependency cycle fix

* utillinux: 2.32 -> 2.32.1

https://lkml.org/lkml/2018/7/16/532

* busybox: 1.29.0 -> 1.29.1

* bind: 9.12.1-P2 -> 9.12.2

https://ftp.isc.org/isc/bind9/9.12.2/RELEASE-NOTES-bind-9.12.2.html

* curl: 7.60.0 -> 7.61.0

* gvfs: make tests run, but disable

* ilmbase: disable tests on i686. Spooky!

* mdds: fix tests

* git: disable checks as tests are run in installcheck

* ruby: disable tests

* libcommuni: disable checks as tests are run in installcheck

* librdf: make tests run, but disable

* neon, neon_0_29: make tests run, but disable

* pciutils: 3.6.0 -> 3.6.1

Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/pciutils/versions.

* mesa: more include fixes

mostly from void-linux (thanks!)

* npth: 1.5 -> 1.6

minor bump

* boost167: Add lockfree next_prior patch

* stdenv: cleanup darwin bootstrapping

Also gets rid of the full python and some of it's dependencies in the
stdenv build closure.

* Revert "pciutils: use standardized equivalent for canonicalize_file_name"

This reverts commit f8db20fb3a.
Patching should no longer be needed with 3.6.1.

* binutils-wrapper: Try to avoid adding unnecessary -L flags

(cherry picked from commit f3758258b8895508475caf83e92bfb236a27ceb9)
Signed-off-by: Domen Kožar <domen@dev.si>

* libffi: don't check on darwin

libffi usages in stdenv broken darwin. We need to disable doCheck for that case.

* "rm $out/share/icons/hicolor/icon-theme.cache" -> hicolor-icon-theme setup-hook

* python.pkgs.pytest: setupHook to prevent creation of .pytest-cache folder, fixes #40273

When `py.test` was run with a folder as argument, it would not only
search for tests in that folder, but also create a .pytest-cache folder.
Not only is this state we don't want, but it was also causing
collisions.

* parity-ui: fix after merge

* python.pkgs.pytest-flake8: disable test, fix build

* Revert "meson: 0.46.1 -> 0.47.0"

With meson 0.47.0 (or 0.47.1, or git)
things are very wrong re:rpath handling
resulting in at best missing libs but
even corrupt binaries :(.

When we run patchelf it masks the problem
by removing obviously busted paths.
Which is probably why this wasn't noticed immediately.

Unfortunately the binary already
has a long series of paths scribbled
in a space intended for a much smaller string;
in my testing it was something like
lengths were 67 with 300+ written to it.

I think we've reported the relevant issues upstream,
but unfortunately it appears our patches
are what introduces the overwrite/corruption
(by no longer being correct in what they assume)

This doesn't look so bad to fix but it's
not something I can spend more time on
at the moment.

--

Interestingly the overwritten string data
(because it is scribbled past the bounds)
remains in the binary and is why we're suddenly
seeing unexpected references in various builds
-- notably this is is the reason we're
seeing the "extra-utils" breakage
that entirely crippled NixOS on master
(and probably on staging before?).

Fixes #43650.

This reverts commit 305ac4dade.

(cherry picked from commit 273d68eff8f7b6cd4ebed3718e5078a0f43cb55d)
Signed-off-by: Domen Kožar <domen@dev.si>

pkgs/applications/office/gnucash/2.4.nix

@@ -1,7 +1,7 @@
 { fetchurl, stdenv, pkgconfig, libxml2, gconf, glib, gtk2, libgnomeui, libofx
 , libgtkhtml, gtkhtml, libgnomeprint, goffice, enchant, gettext, libbonoboui
 , intltool, perl, guile, slibGuile, swig, isocodes, bzip2, makeWrapper, libglade
-, libgsf, libart_lgpl, perlPackages, aqbanking, gwenhywfar
+, libgsf, libart_lgpl, perlPackages, aqbanking, gwenhywfar, hicolor-icon-theme
 }:
 
 /* If you experience GConf errors when running GnuCash on NixOS, see
@@ -23,6 +23,7 @@ stdenv.mkDerivation rec {
     libgnomeprint goffice enchant gettext intltool perl guile slibGuile
     swig isocodes bzip2 makeWrapper libofx libglade libgsf libart_lgpl
     perlPackages.DateManip perlPackages.FinanceQuote aqbanking gwenhywfar
+    hicolor-icon-theme
   ];
   propagatedUserEnvPkgs = [ gconf ];
 
@@ -49,8 +50,6 @@ stdenv.mkDerivation rec {
         --set GCONF_CONFIG_SOURCE 'xml::~/.gconf'                       \
         --prefix PATH ":" "$out/bin:${stdenv.lib.makeBinPath [ perl gconf ]}"
     done
-
-    rm $out/share/icons/hicolor/icon-theme.cache
   '';
 
   # The following settings fix failures in the test suite. It's not required otherwise.

pkgs/applications/office/gnucash/2.6.nix

@@ -3,7 +3,7 @@
 , glib, gtk2, libofx, aqbanking, gwenhywfar, libgnomecanvas, goffice
 , webkit, glibcLocales, gsettings-desktop-schemas, dconf
 , gettext, swig, slibGuile, enchant, bzip2, isocodes, libdbi, libdbiDrivers
-, pango, gdk_pixbuf
+, pango, gdk_pixbuf, hicolor-icon-theme
 }:
 
 /*
@@ -36,7 +36,7 @@ stdenv.mkDerivation rec {
     libxml2 libxslt glibcLocales gettext swig enchant
     bzip2 isocodes
     # glib, gtk...
-    glib gtk2 goffice webkit
+    glib gtk2 goffice webkit hicolor-icon-theme
     # gnome...
     dconf gconf libgnomecanvas gsettings-desktop-schemas
     # financial
@@ -83,8 +83,6 @@ stdenv.mkDerivation rec {
         --prefix GIO_EXTRA_MODULES : "${stdenv.lib.getLib dconf}/lib/gio/modules"  \
         --prefix PATH ":" "$out/bin:${stdenv.lib.makeBinPath [ perl gconf ]}"
     done
-
-    rm $out/share/icons/hicolor/icon-theme.cache
   '';
 
   # The following settings fix failures in the test suite. It's not required otherwise.