Merge branch 'master' into core-updates

10 files changed, 583 insertions, 47 deletions

diff --git a/gnu/packages/ghostscript.scm b/gnu/packages/ghostscript.scm
index 8f10b18074..fcf769fb35 100644
--- a/gnu/packages/ghostscript.scm
+++ b/gnu/packages/ghostscript.scm
@@ -1,6 +1,6 @@
 ;;; GNU Guix --- Functional package management for GNU
 ;;; Copyright © 2013 Andreas Enge <andreas@enge.fr>
-;;; Copyright © 2014, 2015 Mark H Weaver <mhw@netris.org>
+;;; Copyright © 2014, 2015, 2016 Mark H Weaver <mhw@netris.org>
 ;;; Copyright © 2015 Ricardo Wurmus <rekado@elephly.net>
 ;;; Copyright © 2013, 2015, 2016 Ludovic Courtès <ludo@gnu.org>
 ;;;
@@ -127,6 +127,7 @@ printing, and psresize, for adjusting page sizes.")
   (package
    (name "ghostscript")
    (version "9.14.0")
+   (replacement ghostscript/fixed)
    (source (origin
             (method url-fetch)
             (uri (string-append "mirror://gnu/ghostscript/gnu-ghostscript-"
@@ -197,8 +198,22 @@ output file formats and printers.")
    (license license:agpl3+)
    (home-page "http://www.gnu.org/software/ghostscript/")))
 
+(define ghostscript/fixed
+  (package
+    (inherit ghostscript)
+    (replacement #f)  ; Prevent ghostscript/x from inheriting the replacement
+    (source (origin
+              (inherit (package-source ghostscript))
+              (patches (search-patches "ghostscript-CVE-2013-5653.patch"
+                                       "ghostscript-CVE-2015-3228.patch"
+                                       "ghostscript-CVE-2016-7976.patch"
+                                       "ghostscript-CVE-2016-7978.patch"
+                                       "ghostscript-CVE-2016-7979.patch"
+                                       "ghostscript-CVE-2016-8602.patch"
+                                       "ghostscript-runpath.patch"))))))
+
 (define-public ghostscript/x
-  (package (inherit ghostscript)
+  (package (inherit ghostscript/fixed)
     (name (string-append (package-name ghostscript) "-with-x"))
     (inputs `(("libxext" ,libxext)
               ("libxt" ,libxt)
diff --git a/gnu/packages/imagemagick.scm b/gnu/packages/imagemagick.scm
index 75427a4ce1..4c3c636b68 100644
--- a/gnu/packages/imagemagick.scm
+++ b/gnu/packages/imagemagick.scm
@@ -3,6 +3,7 @@
 ;;; Copyright © 2015 Eric Bavier <bavier@member.fsf.org>
 ;;; Copyright © 2015 Ricardo Wurmus <rekado@elephly.net>
 ;;; Copyright © 2016 Leo Famulari <leo@famulari.name>
+;;; Copyright © 2016 Mark H Weaver <mhw@netris.org>
 ;;;
 ;;; This file is part of GNU Guix.
 ;;;
@@ -24,6 +25,7 @@
   #:use-module (guix build-system gnu)
   #:use-module (guix build-system perl)
   #:use-module (guix download)
+  #:use-module (guix hg-download)
   #:use-module (guix utils)
   #:use-module ((guix licenses) #:prefix license:)
   #:use-module (gnu packages)
@@ -41,17 +43,20 @@
 (define-public imagemagick
   (package
     (name "imagemagick")
-    (version "6.9.5-10")
+    (version "6.9.6-2")
     (source (origin
              (method url-fetch)
              (uri (string-append "mirror://imagemagick/ImageMagick-"
                                  version ".tar.xz"))
              (sha256
               (base32
-               "0cxjzqzca80vf6sfx4z9zq4wq2w0vy9ajp9kf88jb4na8mwsn198"))))
+               "139h9lycxw3lszn052m34xm0rqyanin4nb529vxjcrkkzqilh91r"))))
     (build-system gnu-build-system)
     (arguments
      `(#:configure-flags '("--with-frozenpaths" "--without-gcc-arch")
+       ;; FIXME: The test suite succeeded before version 6.9.6-2.
+       ;; Try enabling it again with newer releases.
+       #:tests? #f
        #:phases (modify-phases %standard-phases
                   (add-before
                    'build 'pre-build
@@ -154,48 +159,55 @@ script.")
     (license (package-license imagemagick))))
 
 (define-public graphicsmagick
-  (package
-    (name "graphicsmagick")
-    (version "1.3.25")
-    (source (origin
-             (method url-fetch)
-             (uri (string-append "ftp://ftp.graphicsmagick.org/pub/"
-                                 "GraphicsMagick/" (version-major+minor version)
-                                 "/GraphicsMagick-" version ".tar.xz"))
-             (sha256
-              (base32
-               "17xcc7pfcmiwpfr1g8ys5a7bdnvqzka53vg3kkzhwwz0s99gljyn"))))
-    (build-system gnu-build-system)
-    (arguments
-     `(#:configure-flags
-       (list "--with-frozenpaths"
-             "--enable-shared=yes"
-             "--with-x=yes"
-             (string-append "--with-gs-font-dir="
-                            (assoc-ref %build-inputs "gs-fonts")
-                            "/share/fonts/type1/ghostscript"))))
-    (inputs
-     `(("graphviz" ,graphviz)
-       ("ghostscript" ,ghostscript)
-       ("gs-fonts" ,gs-fonts)
-       ("lcms" ,lcms)
-       ("libx11" ,libx11)
-       ("libxml2" ,libxml2)
-       ("libtiff" ,libtiff)
-       ("libpng" ,libpng)
-       ("libjpeg" ,libjpeg)
-       ("freetype" ,freetype)
-       ("bzip2" ,bzip2)
-       ("xz" ,xz)
-       ("zlib" ,zlib)))
-    (native-inputs
-     `(("pkg-config" ,pkg-config)))
-    (outputs '("out"   ; 13 MiB
-               "doc")) ; ~7 MiB
-    (home-page "http://www.graphicsmagick.org")
-    (synopsis "Create, edit, compose, or convert bitmap images")
-    (description
-     "GraphicsMagick provides a comprehensive collection of utilities,
+  (let ((changeset "56c8cae")  ; 3e01b
+        (revision "1"))
+    (package
+      (name "graphicsmagick")
+      (version (string-append "1.3.25-" revision "." changeset))
+      (source (origin
+                (method hg-fetch)
+                (uri (hg-reference
+                      (url "http://hg.code.sf.net/p/graphicsmagick/code")
+                      (changeset changeset)))
+                (file-name (string-append name "-" version "-checkout"))
+                ;;(method url-fetch)
+                ;;(uri (string-append "ftp://ftp.graphicsmagick.org/pub/"
+                ;;                    "GraphicsMagick/" (version-major+minor version)
+                ;;                    "/GraphicsMagick-" version ".tar.xz"))
+                (sha256
+                 (base32
+                  "1s9apvkn0kxr6i4i5wlkfw1prja02rgk689n3cf822zc0dkycxdh"))))
+      (build-system gnu-build-system)
+      (arguments
+       `(#:configure-flags
+         (list "--with-frozenpaths"
+               "--enable-shared=yes"
+               "--with-x=yes"
+               (string-append "--with-gs-font-dir="
+                              (assoc-ref %build-inputs "gs-fonts")
+                              "/share/fonts/type1/ghostscript"))))
+      (inputs
+       `(("graphviz" ,graphviz)
+         ("ghostscript" ,ghostscript)
+         ("gs-fonts" ,gs-fonts)
+         ("lcms" ,lcms)
+         ("libx11" ,libx11)
+         ("libxml2" ,libxml2)
+         ("libtiff" ,libtiff)
+         ("libpng" ,libpng)
+         ("libjpeg" ,libjpeg)
+         ("freetype" ,freetype)
+         ("bzip2" ,bzip2)
+         ("xz" ,xz)
+         ("zlib" ,zlib)))
+      (native-inputs
+       `(("pkg-config" ,pkg-config)))
+      (outputs '("out"                  ; 13 MiB
+                 "doc"))                ; ~7 MiB
+      (home-page "http://www.graphicsmagick.org")
+      (synopsis "Create, edit, compose, or convert bitmap images")
+      (description
+       "GraphicsMagick provides a comprehensive collection of utilities,
 programming interfaces, and GUIs, to support file format conversion, image
 processing, and 2D vector rendering.")
-    (license license:expat)))
+      (license license:expat))))
diff --git a/gnu/packages/maths.scm b/gnu/packages/maths.scm
index 97f545b8e5..83f55c9f18 100644
--- a/gnu/packages/maths.scm
+++ b/gnu/packages/maths.scm
@@ -445,6 +445,65 @@ computations.")
     (home-page "https://github.com/OkoSanto/GCTP")
     (license license:public-domain))) ;https://www2.usgs.gov/laws/info_policies.html
 
+(define-public hdf4
+  (package
+    (name "hdf4")
+    (version "4.2.11")
+    (source
+     (origin
+       (method url-fetch)
+       (uri (string-append "https://support.hdfgroup.org/ftp/HDF/releases/HDF"
+                           version "/src/hdf-" version ".tar.bz2"))
+       (sha256
+        (base32 "16yr50j845zlfx20skmw3y75ww77akk9gg0affjqkg66ih5r03mv"))
+       (patches (search-patches "hdf4-reproducibility.patch"
+                                "hdf4-shared-fortran.patch"))))
+
+    (build-system gnu-build-system)
+    (native-inputs
+     `(("gfortran" ,gfortran)
+       ("bison" ,bison)
+       ("flex" ,flex)))
+    (inputs
+     `(("zlib" ,zlib)
+       ("libjpeg" ,libjpeg)))
+    (arguments
+     `(#:parallel-tests? #f
+       #:configure-flags '("--enable-shared")
+       #:phases
+       (modify-phases %standard-phases
+         (add-before 'configure 'patchbuild
+           (lambda _
+             (substitute*
+                 '("mfhdf/hdfimport/testutil.sh.in" "hdf/util/testutil.sh.in")
+               (("/bin/rm") "rm")
+               (("/bin/mkdir") "mkdir"))
+             (substitute* (find-files "." "^Makefile\\.in$")
+               (("@HDF_BUILD_XDR_TRUE@XDR_ADD = \
+-R\\$\\(abs_top_builddir\\)/mfhdf/xdr/\\.libs") "")
+               (("@HDF_BUILD_SHARED_TRUE@AM_LDFLAGS = \
+-R\\$\\(abs_top_builddir\\)/mfhdf/libsrc/\\.libs \
+-R\\$\\(abs_top_builddir\\)/hdf/src/\\.libs \\$\\(XDR_ADD\\)") "")))))))
+    (home-page "https://www.hdfgroup.org/products/hdf4/")
+    (synopsis
+     "Library and multi-object file format for storing and managing data")
+    (description "HDF4 is a library and multi-object file format for storing
+and managing data between machines.  HDF4 is an older hierarchical data format,
+incompatible with HDF5.")
+    (license
+     (license:non-copyleft
+      "https://www.hdfgroup.org/ftp/HDF/HDF_Current/src/unpacked/COPYING"))))
+
+(define-public hdf4-alt
+  (package
+    (inherit hdf4)
+    (name "hdf4-alt")
+    (arguments
+     (substitute-keyword-arguments (package-arguments hdf4)
+       ((#:configure-flags flags) `(cons* "--disable-netcdf" ,flags))))
+    (synopsis
+     "HDF4 without netCDF API, can be combined with the regular netCDF library")))
+
 (define-public hdf5
   (package
     (name "hdf5")
diff --git a/gnu/packages/patches/ghostscript-CVE-2013-5653.patch b/gnu/packages/patches/ghostscript-CVE-2013-5653.patch
new file mode 100644
index 0000000000..622266b176
--- /dev/null
+++ b/gnu/packages/patches/ghostscript-CVE-2013-5653.patch
@@ -0,0 +1,85 @@
+The following patch was adapted for GNU Ghostscript
+by Mark H Weaver <mhw@netris.org> based on:
+
+http://git.ghostscript.com/?p=ghostpdl.git;a=commit;h=ab109aaeb3ddba59518b036fb288402a65cf7ce8
+
+From ab109aaeb3ddba59518b036fb288402a65cf7ce8 Mon Sep 17 00:00:00 2001
+From: Chris Liddell <chris.liddell@artifex.com>
+Date: Sat, 5 Mar 2016 14:56:03 -0800
+Subject: [PATCH] Bug 694724: Have filenameforall and getenv honor SAFER
+
+---
+ Resource/Init/gs_init.ps |  2 ++
+ psi/zfile.c              | 36 ++++++++++++++++++++----------------
+ 2 files changed, 22 insertions(+), 16 deletions(-)
+
+diff --git a/Resource/Init/gs_init.ps b/Resource/Init/gs_init.ps
+index fa33d88..99888ac 100644
+--- a/Resource/Init/gs_init.ps
++++ b/Resource/Init/gs_init.ps
+@@ -2018,6 +2018,7 @@ readonly def
+ 
+ /.locksafe {
+   .locksafe_userparams
++  systemdict /getenv {pop //false} put
+   % setpagedevice has the side effect of clearing the page, but
+   % we will just document that. Using setpagedevice keeps the device
+   % properties and pagedevice .LockSafetyParams in agreement even
+@@ -2036,6 +2037,7 @@ readonly def
+ %%
+ /.locksafeglobal {
+   .locksafe_userparams
++  systemdict /getenv {pop //false} put
+   % setpagedevice has the side effect of clearing the page, but
+   % we will just document that. Using setpagedevice keeps the device
+   % properties and pagedevice .LockSafetyParams in agreement even
+diff --git a/psi/zfile.c b/psi/zfile.c
+index 320ecd5..0b9f299 100644
+--- a/psi/zfile.c
++++ b/psi/zfile.c
+@@ -371,22 +371,26 @@ file_continue(i_ctx_t *i_ctx_p)
+ 
+     if (len < devlen)
+         return_error(e_rangecheck);     /* not even room for device len */
+-    memcpy((char *)pscratch->value.bytes, iodev->dname, devlen);
+-    code = iodev->procs.enumerate_next(pfen, (char *)pscratch->value.bytes + devlen,
+-                len - devlen);
+-    if (code == ~(uint) 0) {    /* all done */
+-        esp -= 5;               /* pop proc, pfen, devlen, iodev , mark */
+-        return o_pop_estack;
+-    } else if (code > len)      /* overran string */
+-        return_error(e_rangecheck);
+-    else {
+-        push(1);
+-        ref_assign(op, pscratch);
+-        r_set_size(op, code + devlen);
+-        push_op_estack(file_continue);  /* come again */
+-        *++esp = pscratch[2];   /* proc */
+-        return o_push_estack;
+-    }
++
++    do {
++        memcpy((char *)pscratch->value.bytes, iodev->dname, devlen);
++        code = iodev->procs.enumerate_next(pfen, (char *)pscratch->value.bytes + devlen,
++                    len - devlen);
++        if (code == ~(uint) 0) {    /* all done */
++            esp -= 5;               /* pop proc, pfen, devlen, iodev , mark */
++            return o_pop_estack;
++        } else if (code > len)      /* overran string */
++            return_error(e_rangecheck);
++        else if (iodev != iodev_default(imemory)
++              || (check_file_permissions_reduced(i_ctx_p, (char *)pscratch->value.bytes, code + devlen, "PermitFileReading")) == 0) {
++            push(1);
++            ref_assign(op, pscratch);
++            r_set_size(op, code + devlen);
++            push_op_estack(file_continue);  /* come again */
++            *++esp = pscratch[2];   /* proc */
++            return o_push_estack;
++        }
++    } while(1);
+ }
+ /* Cleanup procedure for enumerating files */
+ static int
+-- 
+2.9.1
+
diff --git a/gnu/packages/patches/ghostscript-CVE-2016-7976.patch b/gnu/packages/patches/ghostscript-CVE-2016-7976.patch
new file mode 100644
index 0000000000..0a09f89016
--- /dev/null
+++ b/gnu/packages/patches/ghostscript-CVE-2016-7976.patch
@@ -0,0 +1,185 @@
+The following patch was adapted for GNU Ghostscript
+by Mark H Weaver <mhw@netris.org> based on:
+
+http://git.ghostscript.com/?p=ghostpdl.git;a=commit;h=6d444c273da5499a4cd72f21cb6d4c9a5256807d
+
+From 6d444c273da5499a4cd72f21cb6d4c9a5256807d Mon Sep 17 00:00:00 2001
+From: Chris Liddell <chris.liddell@artifex.com>
+Date: Wed, 5 Oct 2016 09:55:55 +0100
+Subject: [PATCH] Bug 697178: Add a file permissions callback
+
+For the rare occasions when the graphics library directly opens a file
+(currently for reading), this allows us to apply any restrictions on
+file access normally applied in the interpteter.
+---
+ base/gsicc_manage.c | 10 ++++++----
+ base/gslibctx.c     | 12 +++++++++++-
+ base/gslibctx.h     |  7 +++++++
+ psi/imain.c         |  2 ++
+ psi/int.mak         |  2 +-
+ psi/zfile.c         | 19 +++++++++++++++++++
+ psi/zfile.h         |  7 +++++++
+ 7 files changed, 53 insertions(+), 6 deletions(-)
+
+diff --git a/base/gsicc_manage.c b/base/gsicc_manage.c
+index 931c2a6..e9c09c3 100644
+--- a/base/gsicc_manage.c
++++ b/base/gsicc_manage.c
+@@ -1028,10 +1028,12 @@ gsicc_open_search(const char* pname, int namelen, gs_memory_t *mem_gc,
+     }
+ 
+     /* First just try it like it is */
+-    str = sfopen(pname, "rb", mem_gc);
+-    if (str != NULL) {
+-        *strp = str;
+-        return 0;
++    if (gs_check_file_permission(mem_gc, pname, namelen, "r") >= 0) {
++        str = sfopen(pname, "rb", mem_gc);
++        if (str != NULL) {
++            *strp = str;
++            return 0;
++        }
+     }
+ 
+     /* If that fails, try %rom% */ /* FIXME: Not sure this is needed or correct */
+diff --git a/base/gslibctx.c b/base/gslibctx.c
+index eaa0458..37ce1ca 100644
+--- a/base/gslibctx.c
++++ b/base/gslibctx.c
+@@ -121,7 +121,7 @@ int gs_lib_ctx_init( gs_memory_t *mem )
+         mem->gs_lib_ctx = NULL;
+         return -1;
+     }
+- 
++    pio->client_check_file_permission = NULL;
+     gp_get_realtime(pio->real_time_0);
+ 
+     return 0;
+@@ -262,3 +262,13 @@ void errflush(const gs_memory_t *mem)
+         fflush(mem->gs_lib_ctx->fstderr);
+     /* else nothing to flush */
+ }
++
++int
++gs_check_file_permission (gs_memory_t *mem, const char *fname, const int len, const char *permission)
++{
++    int code = 0;
++    if (mem->gs_lib_ctx->client_check_file_permission != NULL) {
++        code = mem->gs_lib_ctx->client_check_file_permission(mem, fname, len, permission);
++    }
++    return code;
++}
+diff --git a/base/gslibctx.h b/base/gslibctx.h
+index 7a4e110..020e2d9 100644
+--- a/base/gslibctx.h
++++ b/base/gslibctx.h
+@@ -32,6 +32,9 @@ typedef struct gs_fapi_server_s gs_fapi_server;
+ #  define gs_font_dir_DEFINED
+ typedef struct gs_font_dir_s gs_font_dir;
+ #endif
++
++typedef int (*client_check_file_permission_t) (gs_memory_t *mem, const char *fname, const int len, const char *permission);
++
+ typedef struct gs_lib_ctx_s
+ {
+     gs_memory_t *memory;  /* mem->gs_lib_ctx->memory == mem */
+@@ -59,6 +62,7 @@ typedef struct gs_lib_ctx_s
+     bool dict_auto_expand;  /* ps dictionary: false level 1 true level 2 or 3 */
+     /* A table of local copies of the IODevices */
+     struct gx_io_device_s **io_device_table;
++    client_check_file_permission_t client_check_file_permission;
+     /* Define the default value of AccurateScreens that affects setscreen
+        and setcolorscreen. */
+     bool screen_accurate_screens;
+@@ -108,6 +112,9 @@ int
+ void gs_lib_ctx_set_icc_directory(const gs_memory_t *mem_gc, const char* pname,
+                         int dir_namelen);
+ 
++int
++gs_check_file_permission (gs_memory_t *mem, const char *fname, const int len, const char *permission);
++
+ #define IS_LIBCTX_STDOUT(mem, f) (f == mem->gs_lib_ctx->fstdout)
+ #define IS_LIBCTX_STDERR(mem, f) (f == mem->gs_lib_ctx->fstderr)
+ 
+diff --git a/psi/imain.c b/psi/imain.c
+index 9a9bb5d..6874128 100644
+--- a/psi/imain.c
++++ b/psi/imain.c
+@@ -57,6 +57,7 @@
+ #include "ivmspace.h"
+ #include "idisp.h"              /* for setting display device callback */
+ #include "iplugin.h"
++#include "zfile.h"
+ 
+ #ifdef PACIFY_VALGRIND
+ #include "valgrind.h"
+@@ -215,6 +216,7 @@ gs_main_init1(gs_main_instance * minst)
+                                            "the_gs_name_table");
+             if (code < 0)
+                 return code;
++            mem->gs_lib_ctx->client_check_file_permission = z_check_file_permissions;
+         }
+         code = obj_init(&minst->i_ctx_p, &idmem);  /* requires name_init */
+         if (code < 0)
+diff --git a/psi/int.mak b/psi/int.mak
+index 4654afc..bb30d51 100644
+--- a/psi/int.mak
++++ b/psi/int.mak
+@@ -1868,7 +1868,7 @@ $(PSOBJ)imain.$(OBJ) : $(PSSRC)imain.c $(GH) $(memory__h) $(string__h)\
+  $(ialloc_h) $(iconf_h) $(idebug_h) $(idict_h) $(idisp_h) $(iinit_h)\
+  $(iname_h) $(interp_h) $(iplugin_h) $(isave_h) $(iscan_h) $(ivmspace_h)\
+  $(iinit_h) $(main_h) $(oper_h) $(ostack_h)\
+- $(sfilter_h) $(store_h) $(stream_h) $(strimpl_h)
++ $(sfilter_h) $(store_h) $(stream_h) $(strimpl_h) $(zfile_h)
+ 	$(PSCC) $(PSO_)imain.$(OBJ) $(C_) $(PSSRC)imain.c
+ 
+ #****** $(CCINT) interp.c
+diff --git a/psi/zfile.c b/psi/zfile.c
+index 2c6c958..2f27f82 100644
+--- a/psi/zfile.c
++++ b/psi/zfile.c
+@@ -197,6 +197,25 @@ check_file_permissions(i_ctx_t *i_ctx_p, const char *fname, int len,
+     return check_file_permissions_reduced(i_ctx_p, fname_reduced, rlen, permitgroup);
+ }
+ 
++/* z_check_file_permissions: see zfile.h for explanation
++ */
++int
++z_check_file_permissions(gs_memory_t *mem, const char *fname, const int len, const char *permission)
++{
++    i_ctx_t *i_ctx_p = get_minst_from_memory(mem)->i_ctx_p;
++    gs_parsed_file_name_t pname;
++    const char *permitgroup = permission[0] == 'r' ? "PermitFileReading" : "PermitFileWriting";
++    int code = gs_parse_file_name(&pname, fname, len, imemory);
++    if (code < 0)
++        return code;
++
++    if (pname.iodev && i_ctx_p->LockFilePermissions && strcmp(pname.iodev->dname, "%pipe%") == 0)
++        return e_invalidfileaccess;
++        
++    code = check_file_permissions(i_ctx_p, fname, len, permitgroup);
++    return code;
++}
++
+ /* <name_string> <access_string> file <file> */
+ int                             /* exported for zsysvm.c */
+ zfile(i_ctx_t *i_ctx_p)
+diff --git a/psi/zfile.h b/psi/zfile.h
+index fdf1373..a9399c7 100644
+--- a/psi/zfile.h
++++ b/psi/zfile.h
+@@ -22,4 +22,11 @@
+ int zopen_file(i_ctx_t *i_ctx_p, const gs_parsed_file_name_t *pfn,
+            const char *file_access, stream **ps, gs_memory_t *mem);
+ 
++/* z_check_file_permissions: a callback (via mem->gs_lib_ctx->client_check_file_permission)
++ * to allow applying the above permissions checks when opening file(s) from
++ * the graphics library
++ */
++int
++z_check_file_permissions(gs_memory_t *mem, const char *fname,
++                                 const int len, const char *permission);
+ #endif
+-- 
+2.9.1
+
diff --git a/gnu/packages/patches/ghostscript-CVE-2016-7978.patch b/gnu/packages/patches/ghostscript-CVE-2016-7978.patch
new file mode 100644
index 0000000000..81cb26e9ed
--- /dev/null
+++ b/gnu/packages/patches/ghostscript-CVE-2016-7978.patch
@@ -0,0 +1,25 @@
+From 6f749c0c44e7b9e09737b9f29edf29925a34f0cf Mon Sep 17 00:00:00 2001
+From: Chris Liddell <chris.liddell@artifex.com>
+Date: Wed, 5 Oct 2016 09:59:25 +0100
+Subject: [PATCH] Bug 697179: Reference count device icc profile
+
+when copying a device
+---
+ base/gsdevice.c | 1 +
+ 1 file changed, 1 insertion(+)
+
+diff --git a/base/gsdevice.c b/base/gsdevice.c
+index 778106f..aea986a 100644
+--- a/base/gsdevice.c
++++ b/base/gsdevice.c
+@@ -614,6 +614,7 @@ gx_device_init(gx_device * dev, const gx_device * proto, gs_memory_t * mem,
+     dev->memory = mem;
+     dev->retained = !internal;
+     rc_init(dev, mem, (internal ? 0 : 1));
++    rc_increment(dev->icc_struct);
+ }
+ 
+ void
+-- 
+2.9.1
+
diff --git a/gnu/packages/patches/ghostscript-CVE-2016-7979.patch b/gnu/packages/patches/ghostscript-CVE-2016-7979.patch
new file mode 100644
index 0000000000..a557adfdea
--- /dev/null
+++ b/gnu/packages/patches/ghostscript-CVE-2016-7979.patch
@@ -0,0 +1,48 @@
+The following patch was adapted for GNU Ghostscript
+by Mark H Weaver <mhw@netris.org> based on:
+
+http://git.ghostscript.com/?p=ghostpdl.git;a=commit;h=875a0095f37626a721c7ff57d606a0f95af03913
+
+From 875a0095f37626a721c7ff57d606a0f95af03913 Mon Sep 17 00:00:00 2001
+From: Ken Sharp <ken.sharp@artifex.com>
+Date: Wed, 5 Oct 2016 10:10:58 +0100
+Subject: [PATCH] DSC parser - validate parameters
+
+Bug #697190 ".initialize_dsc_parser doesn't validate the parameter is a dict type before using it."
+
+Regardless of any security implications, its simply wrong for a PostScript
+operator not to validate its parameter(s).
+
+No differences expected.
+---
+ psi/zdscpars.c | 13 +++++++++----
+ 1 file changed, 9 insertions(+), 4 deletions(-)
+
+diff --git a/psi/zdscpars.c b/psi/zdscpars.c
+index c05e154..9b4b605 100644
+--- a/psi/zdscpars.c
++++ b/psi/zdscpars.c
+@@ -150,11 +150,16 @@ zinitialize_dsc_parser(i_ctx_t *i_ctx_p)
+     ref local_ref;
+     int code;
+     os_ptr const op = osp;
+-    dict * const pdict = op->value.pdict;
+-    gs_memory_t * const mem = (gs_memory_t *)dict_memory(pdict);
+-    dsc_data_t * const data =
+-        gs_alloc_struct(mem, dsc_data_t, &st_dsc_data_t, "DSC parser init");
++    dict *pdict;
++    gs_memory_t *mem;
++    dsc_data_t *data;
+ 
++    check_read_type(*op, t_dictionary);
++
++    pdict = op->value.pdict;
++    mem = (gs_memory_t *)dict_memory(pdict);
++
++    data = gs_alloc_struct(mem, dsc_data_t, &st_dsc_data_t, "DSC parser init");
+     if (!data)
+         return_error(e_VMerror);
+     data->document_level = 0;
+-- 
+2.9.1
+
diff --git a/gnu/packages/patches/ghostscript-CVE-2016-8602.patch b/gnu/packages/patches/ghostscript-CVE-2016-8602.patch
new file mode 100644
index 0000000000..aaf20b6c6c
--- /dev/null
+++ b/gnu/packages/patches/ghostscript-CVE-2016-8602.patch
@@ -0,0 +1,47 @@
+The following patch was adapted for GNU Ghostscript
+by Mark H Weaver <mhw@netris.org> based on:
+
+http://git.ghostscript.com/?p=ghostpdl.git;a=commit;h=f5c7555c30393e64ec1f5ab0dfae5b55b3b3fc78
+
+From f5c7555c30393e64ec1f5ab0dfae5b55b3b3fc78 Mon Sep 17 00:00:00 2001
+From: Chris Liddell <chris.liddell@artifex.com>
+Date: Sat, 8 Oct 2016 16:10:27 +0100
+Subject: [PATCH] Bug 697203: check for sufficient params in .sethalftone5
+
+and param types
+---
+ psi/zht2.c | 12 ++++++++++--
+ 1 file changed, 10 insertions(+), 2 deletions(-)
+
+diff --git a/psi/zht2.c b/psi/zht2.c
+index fb4a264..dfa27a4 100644
+--- a/psi/zht2.c
++++ b/psi/zht2.c
+@@ -82,14 +82,22 @@ zsethalftone5(i_ctx_t *i_ctx_p)
+     gs_memory_t *mem;
+     uint edepth = ref_stack_count(&e_stack);
+     int npop = 2;
+-    int dict_enum = dict_first(op);
++    int dict_enum;
+     ref rvalue[2];
+     int cname, colorant_number;
+     byte * pname;
+     uint name_size;
+     int halftonetype, type = 0;
+     gs_state *pgs = igs;
+-    int space_index = r_space_index(op - 1);
++    int space_index;
++
++    if (ref_stack_count(&o_stack) < 2)
++        return_error(e_stackunderflow);
++    check_type(*op, t_dictionary);
++    check_type(*(op - 1), t_dictionary);
++
++    dict_enum = dict_first(op);
++    space_index = r_space_index(op - 1);
+ 
+     mem = (gs_memory_t *) idmemory->spaces_indexed[space_index];
+ 
+-- 
+2.9.1
+
diff --git a/gnu/packages/patches/hdf4-reproducibility.patch b/gnu/packages/patches/hdf4-reproducibility.patch
new file mode 100644
index 0000000000..9b5fea6269
--- /dev/null
+++ b/gnu/packages/patches/hdf4-reproducibility.patch
@@ -0,0 +1,35 @@
+Remove/patch unreproducible config data.
+
+diff --git a/configure b/configure
+index eb9f346..ebab94d 100755
+--- a/configure
++++ b/configure
+@@ -23163,7 +23163,7 @@ H4_VERSION="`cut -d' ' -f3 $srcdir/README.txt | head -1`"
+ 
+ 
+ ## Configuration date
+- CONFIG_DATE="`date`"
++CONFIG_DATE=`date -u -d "@$SOURCE_DATE_EPOCH"`
+ 
+ ## User doing the configuration
+  CONFIG_USER="`whoami`@`hostname`"
+diff --git a/libhdf4.settings.in b/libhdf4.settings.in
+index 1d9bbb9..4180d72 100644
+--- a/libhdf4.settings.in
++++ b/libhdf4.settings.in
+@@ -5,10 +5,10 @@ General Information:
+ -------------------
+ 		   HDF4 Version: @H4_VERSION@
+ 		  Configured on: @CONFIG_DATE@
+-		  Configured by: @CONFIG_USER@
++		  Configured by: guix
+ 		 Configure mode: @CONFIG_MODE@
+-		    Host system: @host_cpu@-@host_vendor@-@host_os@
+-              Uname information: @UNAME_INFO@
++		    Host system: guix
++              Uname information: guix
+ 		      Libraries: @STATIC_SHARED@
+ 	     Installation point: @prefix@
+ 
+-- 
+2.10.0
diff --git a/gnu/packages/patches/hdf4-shared-fortran.patch b/gnu/packages/patches/hdf4-shared-fortran.patch
new file mode 100644
index 0000000000..60db355bea
--- /dev/null
+++ b/gnu/packages/patches/hdf4-shared-fortran.patch
@@ -0,0 +1,25 @@
+Allow building a shared library with Fortran.
+---
+ configure | 6 ------
+ 1 file changed, 6 deletions(-)
+
+diff --git a/configure b/configure
+index f37d2fa..eb9f346 100755
+--- a/configure
++++ b/configure
+@@ -6141,12 +6141,6 @@ if test "X${enable_shared}" != "Xyes"; then
+     enable_shared="no"
+ fi
+ 
+-if test "X${enable_shared}" = "Xyes"; then
+-    if test "X${BUILD_FORTRAN}" = "Xyes"; then
+-        as_fn_error $? "Cannot build shared fortran libraries. Please configure with --disable-fortran flag." "$LINENO" 5
+-    fi
+-fi
+-
+ 
+ { $as_echo "$as_me:${as_lineno-$LINENO}: checking whether ln -s works" >&5
+ $as_echo_n "checking whether ln -s works... " >&6; }
+-- 
+2.10.0
+