gnu: igraph: Update to 0.10.7.

* gnu/packages/graph.scm (igraph): Update to 0.10.7.
[source]: Use git-fetch. Apply patch.
<snippet>: Remove the entire "vendor" and "src/isomorphism/bliss" directories.
Patch CMakeLists.txt to not build and use vendored dependencies.
[arguments]: Add -DIGRAPH_INTEGER_SIZE=64 to #:configure-flags. Add phases to
use unbundled libraries and build documentation.
[native-inputs]: Add bison, docbook-xml-4.3, docbook-xsl, flex, pcg-c, python,
source-highlight and xmlto.
[inputs]: Remove gmp and libxml2. Add bliss and suitesparse-cxsparse.
* gnu/packages/patches/igraph-fix-varargs-integer-size.patch: New file.
* gnu/local.mk (dist_patch_DATA): Register it.

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

1 files changed, 39 insertions, 0 deletions

diff --git a/gnu/packages/patches/igraph-fix-varargs-integer-size.patch b/gnu/packages/patches/igraph-fix-varargs-integer-size.patch
new file mode 100644
index 0000000000..2d7ffd7e68
--- /dev/null
+++ b/gnu/packages/patches/igraph-fix-varargs-integer-size.patch
@@ -0,0 +1,39 @@
+If the size of int is different from IGRAPH_INTEGER_SIZE, the integer size
+passed to these vararg arguments is different from the assumed one,
+leading to undefined behavior.
+Submitted upstream: https://github.com/igraph/igraph/pull/2423
+
+
+diff -ur a/examples/simple/igraph_union.c b/examples/simple/igraph_union.c
+--- a/examples/simple/igraph_union.c
++++ b/examples/simple/igraph_union.c
+@@ -103,7 +103,7 @@
+     igraph_vector_ptr_init(&glist, 10);
+     for (i = 0; i < igraph_vector_ptr_size(&glist); i++) {
+         VECTOR(glist)[i] = calloc(1, sizeof(igraph_t));
+-        igraph_vector_int_init_int_end(&v, -1, i, i + 1, 1, 0, -1);
++        igraph_vector_int_init_int_end(&v, -1, (int) i, (int) i + 1, 1, 0, -1);
+         igraph_create(VECTOR(glist)[i], &v, 0, IGRAPH_DIRECTED);
+         igraph_vector_int_destroy(&v);
+     }
+@@ -123,7 +123,7 @@
+     igraph_vector_ptr_init(&glist, 10);
+     for (i = 0; i < igraph_vector_ptr_size(&glist); i++) {
+         VECTOR(glist)[i] = calloc(1, sizeof(igraph_t));
+-        igraph_vector_int_init_int_end(&v, -1, i, i + 1, 1, 0, -1);
++        igraph_vector_int_init_int_end(&v, -1, (int) i, (int) i + 1, 1, 0, -1);
+         igraph_create(VECTOR(glist)[i], &v, 0, IGRAPH_UNDIRECTED);
+         igraph_vector_int_destroy(&v);
+     }
+diff -ur a/src/core/matrix.pmt b/src/core/matrix.pmt
+--- a/src/core/matrix.pmt
++++ b/src/core/matrix.pmt
+@@ -1863,7 +1863,7 @@
+ #ifdef FPRINTFUNC_ALIGNED
+             FPRINTFUNC_ALIGNED(file, VECTOR(column_width)[j], MATRIX(*m, i, j));
+ #else
+-            fprintf(file, format, VECTOR(column_width)[j], MATRIX(*m, i, j));
++            fprintf(file, format, (int) VECTOR(column_width)[j], MATRIX(*m, i, j));
+ #endif
+         }
+         fprintf(file, "\n");