From 33c1c4c95fc8311606f1d513a06bc365607d4f6c Mon Sep 17 00:00:00 2001
From: Marius Bakke <mbakke@fastmail.com>
Date: Tue, 3 Dec 2019 00:19:20 +0100
Subject: gnu: doxygen: Update to 1.8.16.

* gnu/packages/documentation.scm (doxygen): Update to 1.8.16.
[arguments]: Add phase 'remove-git-requirement'.
* gnu/packages/patches/doxygen-test.patch: Adjust for upstream changes.
---
 gnu/packages/documentation.scm          | 11 ++++++++--
 gnu/packages/patches/doxygen-test.patch | 38 ++++++++++++++++++++++++++-------
 2 files changed, 39 insertions(+), 10 deletions(-)

diff --git a/gnu/packages/documentation.scm b/gnu/packages/documentation.scm
index eda8ca3368..c512a9803b 100644
--- a/gnu/packages/documentation.scm
+++ b/gnu/packages/documentation.scm
@@ -125,7 +125,7 @@ markup) can be customized and extended by the user.")
 (define-public doxygen
   (package
     (name "doxygen")
-    (version "1.8.15")
+    (version "1.8.16")
     (home-page "http://www.doxygen.nl/")
     (source (origin
              (method url-fetch)
@@ -136,7 +136,7 @@ markup) can be customized and extended by the user.")
                                        ".src.tar.gz")))
              (sha256
               (base32
-               "0p94b4yb6bk2dxzs5kyl82xxgq2qakgbx5yy3ssbbadncb20x75x"))
+               "10iwv8bcz5b5cd85gg8pgn0bmyg04n9hs36xn7ggjjnvynv1z67z"))
              (patches (search-patches "doxygen-test.patch"))))
     (build-system cmake-build-system)
     (native-inputs
@@ -157,6 +157,13 @@ markup) can be customized and extended by the user.")
              '())
        #:test-target "tests"
        #:phases (modify-phases %standard-phases
+                  (add-after 'unpack 'remove-git-requirement
+                    (lambda _
+                      ;; TODO: Remove this for > 1.8.16.
+                      (substitute* "cmake/git_watcher.cmake"
+                        (("Git QUIET REQUIRED")
+                         "Git QUIET"))
+                      #t))
                   (add-before 'configure 'patch-sh
                               (lambda* (#:key inputs #:allow-other-keys)
                                 (substitute* "src/portable.cpp"
diff --git a/gnu/packages/patches/doxygen-test.patch b/gnu/packages/patches/doxygen-test.patch
index 8ccb9ec3c4..a2da54a3fa 100644
--- a/gnu/packages/patches/doxygen-test.patch
+++ b/gnu/packages/patches/doxygen-test.patch
@@ -5,19 +5,40 @@ test.
 diff -u -r doxygen-1.8.7.orig/testing/012/citelist.xml doxygen-1.8.7/testing/012/citelist.xml
 --- doxygen-1.8.7.orig/testing/012/citelist.xml	2014-04-24 23:43:34.000000000 +0200
 +++ doxygen-1.8.7/testing/012/citelist.xml	2014-04-24 23:49:43.000000000 +0200
-@@ -6,17 +6,6 @@
+@@ -6,38 +6,6 @@
      <briefdescription>
      </briefdescription>
      <detaileddescription>
 -      <para>
 -        <variablelist>
 -          <varlistentry>
--            <term><anchor id="citelist_1CITEREF_knuth79"/>[1]</term>
+-            <term><anchor id="citelist_1CITEREF_Be09"/>[1]</term>
+-          </varlistentry>
+-          <listitem>
+-            <para>P.<nonbreakablespace/>Belotti. <ulink url="http://doi.org/10.1007/978-1-4614-1927-3_5">Disjunctive cuts for non-convex MINLP</ulink>. In <ulink url="#CITEREF_LeLe12">Lee and Leyffer</ulink> <ulink url="#CITEREF_LeLe12">[4]</ulink>, pages 117<ndash/>144.</para>
+-            <para/>
+-          </listitem>
+-          <varlistentry>
+-            <term><anchor id="citelist_1CITEREF_BertholdHeinzVigerske2009"/>[2]</term>
+-          </varlistentry>
+-          <listitem>
+-            <para>T.<nonbreakablespace/>Berthold, S.<nonbreakablespace/>Heinz, and S.<nonbreakablespace/>Vigerske. <ulink url="http://doi.org/10.1007/978-1-4614-1927-3_15">Extending a CIP framework to solve MIQCPs</ulink>. In <ulink url="#CITEREF_LeLe12">Lee and Leyffer</ulink> <ulink url="#CITEREF_LeLe12">[4]</ulink>, pages 427<ndash/>444.</para>
+-            <para/>
+-          </listitem>
+-          <varlistentry>
+-            <term><anchor id="citelist_1CITEREF_knuth79"/>[3]</term>
 -          </varlistentry>
 -          <listitem>
 -            <para>Donald<nonbreakablespace/>E. Knuth. <emphasis>Tex and Metafont, New Directions in Typesetting</emphasis>. American Mathematical Society and Digital Press, Stanford, 1979.</para>
 -            <para/>
 -          </listitem>
+-          <varlistentry>
+-            <term><anchor id="citelist_1CITEREF_LeLe12"/>[4]</term>
+-          </varlistentry>
+-          <listitem>
+-            <para>Jon Lee and Sven Leyffer, editors. <ulink url="http://doi.org/10.1007/978-1-4614-1927-3"><emphasis>Mixed Integer Nonlinear Programming</emphasis></ulink>, volume 154 of <emphasis>The IMA Volumes in Mathematics and its Applications</emphasis>. Springer, 2012.</para>
+-            <para/>
+-          </listitem>
 -        </variablelist>
 -      </para>
      </detaileddescription>
@@ -26,13 +47,14 @@ diff -u -r doxygen-1.8.7.orig/testing/012/citelist.xml doxygen-1.8.7/testing/012
 diff -u -r doxygen-1.8.7.orig/testing/012/indexpage.xml doxygen-1.8.7/testing/012/indexpage.xml
 --- doxygen-1.8.7.orig/testing/012/indexpage.xml	2014-04-24 23:43:34.000000000 +0200
 +++ doxygen-1.8.7/testing/012/indexpage.xml	2014-04-24 23:44:05.000000000 +0200
-@@ -4,7 +4,7 @@
-     <compoundname>index</compoundname>
-     <title>My Project</title>
+@@ -6,8 +6,8 @@
+     <briefdescription>
+     </briefdescription>
      <detaileddescription>
--      <para>See <ref refid="citelist_1CITEREF_knuth79" kindref="member">[1]</ref> for more info. </para>
-+      <para>See knuth79 for more info. </para>
+-      <para>See <ref refid="citelist_1CITEREF_knuth79" kindref="member">[3]</ref> for more info.</para>
+-      <para>Oter references with crosreference see <ref refid="citelist_1CITEREF_Be09" kindref="member">[1]</ref> and <ref refid="citelist_1CITEREF_BertholdHeinzVigerske2009" kindref="member">[2]</ref> for more info. </para>
++      <para>See knuth79 for more info.</para>
++      <para>Oter references with crosreference see Be09 and BertholdHeinzVigerske2009 for more info. </para>
      </detaileddescription>
    </compounddef>
  </doxygen>
-
-- 
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