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Add Patch2 to fix detection of zlib

This commit is contained in:
Björn Esser 2017-02-14 11:26:18 +01:00
parent f7261e45b9
commit dc80525941
2 changed files with 578 additions and 1 deletions
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571
R-3.3.2-fix-zlib-detection.patch Normal file
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@ -0,0 +1,571 @@
From a0fe05ce9d0937ad2334bb370785cb22c71e592b Mon Sep 17 00:00:00 2001
From: lawrence <lawrence@00db46b3-68df-0310-9c12-caf00c1e9a41>
Date: Wed, 4 Jan 2017 03:57:31 +0000
Subject: [PATCH] R_ZLIB macro tests ZLIB_VERNUM to handle zlib 1.2.10 (6
chars)
Thanks to George Hartzell for the fix.
git-svn-id: https://svn.r-project.org/R/trunk@71889 00db46b3-68df-0310-9c12-caf00c1e9a41
---
m4/R.m4 | 9 +++++----
1 file changed, 5 insertions(+), 4 deletions(-)
Index: R-3.3.2/m4/R.m4
===================================================================
--- R-3.3.2.orig/m4/R.m4
+++ R-3.3.2/m4/R.m4
@@ -3113,10 +3113,11 @@ AC_DEFUN([_R_HEADER_ZLIB],
#include <string.h>
#include <zlib.h>
int main() {
-#ifdef ZLIB_VERSION
-/* Work around Debian bug: it uses 1.2.3.4 even though there was no such
- version on the master site zlib.net */
- exit(strncmp(ZLIB_VERSION, "1.2.5", 5) < 0);
+#ifdef ZLIB_VERNUM
+ if (ZLIB_VERNUM < 0x1250) {
+ exit(1);
+ }
+ exit(0);
#else
exit(1);
#endif
Index: R-3.3.2/configure
===================================================================
--- R-3.3.2.orig/configure
+++ R-3.3.2/configure
@@ -1767,11 +1767,10 @@ Optional Features:
--enable-java enable Java [yes]
--enable-byte-compiled-packages
byte-compile base and recommended packages [yes]
- --enable-static[=PKGS] (libtool) build static libraries [default=no]
- --enable-shared[=PKGS] (libtool) build shared libraries [default=yes]
+ --enable-static[=PKGS] build static libraries [default=no]
+ --enable-shared[=PKGS] build shared libraries [default=yes]
--enable-fast-install[=PKGS]
- (libtool) optimize for fast installation
- [default=yes]
+ optimize for fast installation [default=yes]
--disable-libtool-lock avoid locking (might break parallel builds)
--enable-long-double use long double type [yes]
--disable-openmp do not use OpenMP
@@ -1809,11 +1808,11 @@ Optional Packages:
--with-recommended-packages
use/install recommended R packages [yes]
--with-ICU use ICU library (if available) [yes]
- --with-pic[=PKGS] (libtool) try to use only PIC/non-PIC objects
- [default=use both]
+ --with-pic[=PKGS] try to use only PIC/non-PIC objects [default=use
+ both]
--with-aix-soname=aix|svr4|both
- (libtool( shared library versioning (aka "SONAME")
- variant to provide on AIX, [default=aix].
+ shared library versioning (aka "SONAME") variant to
+ provide on AIX, [default=aix].
--with-gnu-ld assume the C compiler uses GNU ld [default=no]
--with-sysroot[=DIR] Search for dependent libraries within DIR (or the
compiler's sysroot if not specified).
@@ -3525,6 +3524,7 @@ ac_configure="$SHELL $ac_aux_dir/configu
+
### * Information on the package.
PACKAGE=${PACKAGE_NAME}
@@ -15038,6 +15038,9 @@ fi
# before this can be enabled.
hardcode_into_libs=yes
+ # Add ABI-specific directories to the system library path.
+ sys_lib_dlsearch_path_spec="/lib64 /usr/lib64 /lib /usr/lib"
+
# Ideally, we could use ldconfig to report *all* directores which are
# searched for libraries, however this is still not possible. Aside from not
# being certain /sbin/ldconfig is available, command
@@ -15046,7 +15049,7 @@ fi
# appending ld.so.conf contents (and includes) to the search path.
if test -f /etc/ld.so.conf; then
lt_ld_extra=`awk '/^include / { system(sprintf("cd /etc; cat %s 2>/dev/null", \$2)); skip = 1; } { if (!skip) print \$0; skip = 0; }' < /etc/ld.so.conf | $SED -e 's/#.*//;/^[ ]*hwcap[ ]/d;s/[:, ]/ /g;s/=[^=]*$//;s/=[^= ]* / /g;s/"//g;/^$/d' | tr '\n' ' '`
- sys_lib_dlsearch_path_spec="/lib /usr/lib $lt_ld_extra"
+ sys_lib_dlsearch_path_spec="$sys_lib_dlsearch_path_spec $lt_ld_extra"
fi
# We used to test for /lib/ld.so.1 and disable shared libraries on
@@ -19000,6 +19003,9 @@ fi
# before this can be enabled.
hardcode_into_libs=yes
+ # Add ABI-specific directories to the system library path.
+ sys_lib_dlsearch_path_spec="/lib64 /usr/lib64 /lib /usr/lib"
+
# Ideally, we could use ldconfig to report *all* directores which are
# searched for libraries, however this is still not possible. Aside from not
# being certain /sbin/ldconfig is available, command
@@ -19008,7 +19014,7 @@ fi
# appending ld.so.conf contents (and includes) to the search path.
if test -f /etc/ld.so.conf; then
lt_ld_extra=`awk '/^include / { system(sprintf("cd /etc; cat %s 2>/dev/null", \$2)); skip = 1; } { if (!skip) print \$0; skip = 0; }' < /etc/ld.so.conf | $SED -e 's/#.*//;/^[ ]*hwcap[ ]/d;s/[:, ]/ /g;s/=[^=]*$//;s/=[^= ]* / /g;s/"//g;/^$/d' | tr '\n' ' '`
- sys_lib_dlsearch_path_spec="/lib /usr/lib $lt_ld_extra"
+ sys_lib_dlsearch_path_spec="$sys_lib_dlsearch_path_spec $lt_ld_extra"
fi
# We used to test for /lib/ld.so.1 and disable shared libraries on
@@ -21950,6 +21956,9 @@ fi
# before this can be enabled.
hardcode_into_libs=yes
+ # Add ABI-specific directories to the system library path.
+ sys_lib_dlsearch_path_spec="/lib64 /usr/lib64 /lib /usr/lib"
+
# Ideally, we could use ldconfig to report *all* directores which are
# searched for libraries, however this is still not possible. Aside from not
# being certain /sbin/ldconfig is available, command
@@ -21958,7 +21967,7 @@ fi
# appending ld.so.conf contents (and includes) to the search path.
if test -f /etc/ld.so.conf; then
lt_ld_extra=`awk '/^include / { system(sprintf("cd /etc; cat %s 2>/dev/null", \$2)); skip = 1; } { if (!skip) print \$0; skip = 0; }' < /etc/ld.so.conf | $SED -e 's/#.*//;/^[ ]*hwcap[ ]/d;s/[:, ]/ /g;s/=[^=]*$//;s/=[^= ]* / /g;s/"//g;/^$/d' | tr '\n' ' '`
- sys_lib_dlsearch_path_spec="/lib /usr/lib $lt_ld_extra"
+ sys_lib_dlsearch_path_spec="$sys_lib_dlsearch_path_spec $lt_ld_extra"
fi
# We used to test for /lib/ld.so.1 and disable shared libraries on
@@ -25065,7 +25074,7 @@ _ACEOF
# flags.
r_save_CFLAGS=$CFLAGS
CFLAGS="$CFLAGS $r_verb"
-(eval echo $as_me:25068: \"$ac_link\") >&5
+(eval echo $as_me:25077: \"$ac_link\") >&5
r_c_v_output=`eval $ac_link 5>&1 2>&1 | grep -v 'Driving:'`
echo "$r_c_v_output" >&5
CFLAGS=$r_save_CFLAGS
@@ -25140,7 +25149,7 @@ _ACEOF
# flags.
r_save_CFLAGS=$CFLAGS
CFLAGS="$CFLAGS $r_cv_prog_c_v"
-(eval echo $as_me:25143: \"$ac_link\") >&5
+(eval echo $as_me:25152: \"$ac_link\") >&5
r_c_v_output=`eval $ac_link 5>&1 2>&1 | grep -v 'Driving:'`
echo "$r_c_v_output" >&5
CFLAGS=$r_save_CFLAGS
@@ -35507,10 +35516,11 @@ else
#include <string.h>
#include <zlib.h>
int main() {
-#ifdef ZLIB_VERSION
-/* Work around Debian bug: it uses 1.2.3.4 even though there was no such
- version on the master site zlib.net */
- exit(strncmp(ZLIB_VERSION, "1.2.5", 5) < 0);
+#ifdef ZLIB_VERNUM
+ if (ZLIB_VERNUM < 0x1250) {
+ exit(1);
+ }
+ exit(0);
#else
exit(1);
#endif
@@ -40840,6 +40850,9 @@ fi
# before this can be enabled.
hardcode_into_libs=yes
+ # Add ABI-specific directories to the system library path.
+ sys_lib_dlsearch_path_spec="/lib64 /usr/lib64 /lib /usr/lib"
+
# Ideally, we could use ldconfig to report *all* directores which are
# searched for libraries, however this is still not possible. Aside from not
# being certain /sbin/ldconfig is available, command
@@ -40848,7 +40861,7 @@ fi
# appending ld.so.conf contents (and includes) to the search path.
if test -f /etc/ld.so.conf; then
lt_ld_extra=`awk '/^include / { system(sprintf("cd /etc; cat %s 2>/dev/null", \$2)); skip = 1; } { if (!skip) print \$0; skip = 0; }' < /etc/ld.so.conf | $SED -e 's/#.*//;/^[ ]*hwcap[ ]/d;s/[:, ]/ /g;s/=[^=]*$//;s/=[^= ]* / /g;s/"//g;/^$/d' | tr '\n' ' '`
- sys_lib_dlsearch_path_spec="/lib /usr/lib $lt_ld_extra"
+ sys_lib_dlsearch_path_spec="$sys_lib_dlsearch_path_spec $lt_ld_extra"
fi
# We used to test for /lib/ld.so.1 and disable shared libraries on
Index: R-3.3.2/tools/missing
===================================================================
--- R-3.3.2.orig/tools/missing
+++ /dev/null
@@ -1,367 +0,0 @@
-#! /bin/sh
-# Common stub for a few missing GNU programs while installing.
-
-scriptversion=2006-05-10.23
-
-# Copyright (C) 1996, 1997, 1999, 2000, 2002, 2003, 2004, 2005, 2006
-# Free Software Foundation, Inc.
-# Originally by Fran,cois Pinard <pinard@iro.umontreal.ca>, 1996.
-
-# This program is free software; you can redistribute it and/or modify
-# it under the terms of the GNU General Public License as published by
-# the Free Software Foundation; either version 2, or (at your option)
-# any later version.
-
-# This program is distributed in the hope that it will be useful,
-# but WITHOUT ANY WARRANTY; without even the implied warranty of
-# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
-# GNU General Public License for more details.
-
-# You should have received a copy of the GNU General Public License
-# along with this program; if not, write to the Free Software
-# Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA
-# 02110-1301, USA.
-
-# As a special exception to the GNU General Public License, if you
-# distribute this file as part of a program that contains a
-# configuration script generated by Autoconf, you may include it under
-# the same distribution terms that you use for the rest of that program.
-
-if test $# -eq 0; then
- echo 1>&2 "Try \`$0 --help' for more information"
- exit 1
-fi
-
-run=:
-sed_output='s/.* --output[ =]\([^ ]*\).*/\1/p'
-sed_minuso='s/.* -o \([^ ]*\).*/\1/p'
-
-# In the cases where this matters, `missing' is being run in the
-# srcdir already.
-if test -f configure.ac; then
- configure_ac=configure.ac
-else
- configure_ac=configure.in
-fi
-
-msg="missing on your system"
-
-case $1 in
---run)
- # Try to run requested program, and just exit if it succeeds.
- run=
- shift
- "$@" && exit 0
- # Exit code 63 means version mismatch. This often happens
- # when the user try to use an ancient version of a tool on
- # a file that requires a minimum version. In this case we
- # we should proceed has if the program had been absent, or
- # if --run hadn't been passed.
- if test $? = 63; then
- run=:
- msg="probably too old"
- fi
- ;;
-
- -h|--h|--he|--hel|--help)
- echo "\
-$0 [OPTION]... PROGRAM [ARGUMENT]...
-
-Handle \`PROGRAM [ARGUMENT]...' for when PROGRAM is missing, or return an
-error status if there is no known handling for PROGRAM.
-
-Options:
- -h, --help display this help and exit
- -v, --version output version information and exit
- --run try to run the given command, and emulate it if it fails
-
-Supported PROGRAM values:
- aclocal touch file \`aclocal.m4'
- autoconf touch file \`configure'
- autoheader touch file \`config.h.in'
- autom4te touch the output file, or create a stub one
- automake touch all \`Makefile.in' files
- bison create \`y.tab.[ch]', if possible, from existing .[ch]
- flex create \`lex.yy.c', if possible, from existing .c
- help2man touch the output file
- lex create \`lex.yy.c', if possible, from existing .c
- makeinfo touch the output file
- tar try tar, gnutar, gtar, then tar without non-portable flags
- yacc create \`y.tab.[ch]', if possible, from existing .[ch]
-
-Send bug reports to <bug-automake@gnu.org>."
- exit $?
- ;;
-
- -v|--v|--ve|--ver|--vers|--versi|--versio|--version)
- echo "missing $scriptversion (GNU Automake)"
- exit $?
- ;;
-
- -*)
- echo 1>&2 "$0: Unknown \`$1' option"
- echo 1>&2 "Try \`$0 --help' for more information"
- exit 1
- ;;
-
-esac
-
-# Now exit if we have it, but it failed. Also exit now if we
-# don't have it and --version was passed (most likely to detect
-# the program).
-case $1 in
- lex|yacc)
- # Not GNU programs, they don't have --version.
- ;;
-
- tar)
- if test -n "$run"; then
- echo 1>&2 "ERROR: \`tar' requires --run"
- exit 1
- elif test "x$2" = "x--version" || test "x$2" = "x--help"; then
- exit 1
- fi
- ;;
-
- *)
- if test -z "$run" && ($1 --version) > /dev/null 2>&1; then
- # We have it, but it failed.
- exit 1
- elif test "x$2" = "x--version" || test "x$2" = "x--help"; then
- # Could not run --version or --help. This is probably someone
- # running `$TOOL --version' or `$TOOL --help' to check whether
- # $TOOL exists and not knowing $TOOL uses missing.
- exit 1
- fi
- ;;
-esac
-
-# If it does not exist, or fails to run (possibly an outdated version),
-# try to emulate it.
-case $1 in
- aclocal*)
- echo 1>&2 "\
-WARNING: \`$1' is $msg. You should only need it if
- you modified \`acinclude.m4' or \`${configure_ac}'. You might want
- to install the \`Automake' and \`Perl' packages. Grab them from
- any GNU archive site."
- touch aclocal.m4
- ;;
-
- autoconf)
- echo 1>&2 "\
-WARNING: \`$1' is $msg. You should only need it if
- you modified \`${configure_ac}'. You might want to install the
- \`Autoconf' and \`GNU m4' packages. Grab them from any GNU
- archive site."
- touch configure
- ;;
-
- autoheader)
- echo 1>&2 "\
-WARNING: \`$1' is $msg. You should only need it if
- you modified \`acconfig.h' or \`${configure_ac}'. You might want
- to install the \`Autoconf' and \`GNU m4' packages. Grab them
- from any GNU archive site."
- files=`sed -n 's/^[ ]*A[CM]_CONFIG_HEADER(\([^)]*\)).*/\1/p' ${configure_ac}`
- test -z "$files" && files="config.h"
- touch_files=
- for f in $files; do
- case $f in
- *:*) touch_files="$touch_files "`echo "$f" |
- sed -e 's/^[^:]*://' -e 's/:.*//'`;;
- *) touch_files="$touch_files $f.in";;
- esac
- done
- touch $touch_files
- ;;
-
- automake*)
- echo 1>&2 "\
-WARNING: \`$1' is $msg. You should only need it if
- you modified \`Makefile.am', \`acinclude.m4' or \`${configure_ac}'.
- You might want to install the \`Automake' and \`Perl' packages.
- Grab them from any GNU archive site."
- find . -type f -name Makefile.am -print |
- sed 's/\.am$/.in/' |
- while read f; do touch "$f"; done
- ;;
-
- autom4te)
- echo 1>&2 "\
-WARNING: \`$1' is needed, but is $msg.
- You might have modified some files without having the
- proper tools for further handling them.
- You can get \`$1' as part of \`Autoconf' from any GNU
- archive site."
-
- file=`echo "$*" | sed -n "$sed_output"`
- test -z "$file" && file=`echo "$*" | sed -n "$sed_minuso"`
- if test -f "$file"; then
- touch $file
- else
- test -z "$file" || exec >$file
- echo "#! /bin/sh"
- echo "# Created by GNU Automake missing as a replacement of"
- echo "# $ $@"
- echo "exit 0"
- chmod +x $file
- exit 1
- fi
- ;;
-
- bison|yacc)
- echo 1>&2 "\
-WARNING: \`$1' $msg. You should only need it if
- you modified a \`.y' file. You may need the \`Bison' package
- in order for those modifications to take effect. You can get
- \`Bison' from any GNU archive site."
- rm -f y.tab.c y.tab.h
- if test $# -ne 1; then
- eval LASTARG="\${$#}"
- case $LASTARG in
- *.y)
- SRCFILE=`echo "$LASTARG" | sed 's/y$/c/'`
- if test -f "$SRCFILE"; then
- cp "$SRCFILE" y.tab.c
- fi
- SRCFILE=`echo "$LASTARG" | sed 's/y$/h/'`
- if test -f "$SRCFILE"; then
- cp "$SRCFILE" y.tab.h
- fi
- ;;
- esac
- fi
- if test ! -f y.tab.h; then
- echo >y.tab.h
- fi
- if test ! -f y.tab.c; then
- echo 'main() { return 0; }' >y.tab.c
- fi
- ;;
-
- lex|flex)
- echo 1>&2 "\
-WARNING: \`$1' is $msg. You should only need it if
- you modified a \`.l' file. You may need the \`Flex' package
- in order for those modifications to take effect. You can get
- \`Flex' from any GNU archive site."
- rm -f lex.yy.c
- if test $# -ne 1; then
- eval LASTARG="\${$#}"
- case $LASTARG in
- *.l)
- SRCFILE=`echo "$LASTARG" | sed 's/l$/c/'`
- if test -f "$SRCFILE"; then
- cp "$SRCFILE" lex.yy.c
- fi
- ;;
- esac
- fi
- if test ! -f lex.yy.c; then
- echo 'main() { return 0; }' >lex.yy.c
- fi
- ;;
-
- help2man)
- echo 1>&2 "\
-WARNING: \`$1' is $msg. You should only need it if
- you modified a dependency of a manual page. You may need the
- \`Help2man' package in order for those modifications to take
- effect. You can get \`Help2man' from any GNU archive site."
-
- file=`echo "$*" | sed -n "$sed_output"`
- test -z "$file" && file=`echo "$*" | sed -n "$sed_minuso"`
- if test -f "$file"; then
- touch $file
- else
- test -z "$file" || exec >$file
- echo ".ab help2man is required to generate this page"
- exit 1
- fi
- ;;
-
- makeinfo)
- echo 1>&2 "\
-WARNING: \`$1' is $msg. You should only need it if
- you modified a \`.texi' or \`.texinfo' file, or any other file
- indirectly affecting the aspect of the manual. The spurious
- call might also be the consequence of using a buggy \`make' (AIX,
- DU, IRIX). You might want to install the \`Texinfo' package or
- the \`GNU make' package. Grab either from any GNU archive site."
- # The file to touch is that specified with -o ...
- file=`echo "$*" | sed -n "$sed_output"`
- test -z "$file" && file=`echo "$*" | sed -n "$sed_minuso"`
- if test -z "$file"; then
- # ... or it is the one specified with @setfilename ...
- infile=`echo "$*" | sed 's/.* \([^ ]*\) *$/\1/'`
- file=`sed -n '
- /^@setfilename/{
- s/.* \([^ ]*\) *$/\1/
- p
- q
- }' $infile`
- # ... or it is derived from the source name (dir/f.texi becomes f.info)
- test -z "$file" && file=`echo "$infile" | sed 's,.*/,,;s,.[^.]*$,,'`.info
- fi
- # If the file does not exist, the user really needs makeinfo;
- # let's fail without touching anything.
- test -f $file || exit 1
- touch $file
- ;;
-
- tar)
- shift
-
- # We have already tried tar in the generic part.
- # Look for gnutar/gtar before invocation to avoid ugly error
- # messages.
- if (gnutar --version > /dev/null 2>&1); then
- gnutar "$@" && exit 0
- fi
- if (gtar --version > /dev/null 2>&1); then
- gtar "$@" && exit 0
- fi
- firstarg="$1"
- if shift; then
- case $firstarg in
- *o*)
- firstarg=`echo "$firstarg" | sed s/o//`
- tar "$firstarg" "$@" && exit 0
- ;;
- esac
- case $firstarg in
- *h*)
- firstarg=`echo "$firstarg" | sed s/h//`
- tar "$firstarg" "$@" && exit 0
- ;;
- esac
- fi
-
- echo 1>&2 "\
-WARNING: I can't seem to be able to run \`tar' with the given arguments.
- You may want to install GNU tar or Free paxutils, or check the
- command line arguments."
- exit 1
- ;;
-
- *)
- echo 1>&2 "\
-WARNING: \`$1' is needed, and is $msg.
- You might have modified some files without having the
- proper tools for further handling them. Check the \`README' file,
- it often tells you about the needed prerequisites for installing
- this package. You may also peek at any GNU archive site, in case
- some other package would contain this missing \`$1' program."
- exit 1
- ;;
-esac
-
-exit 0
-
-# Local variables:
-# eval: (add-hook 'write-file-hooks 'time-stamp)
-# time-stamp-start: "scriptversion="
-# time-stamp-format: "%:y-%02m-%02d.%02H"
-# time-stamp-end: "$"
-# End:
Index: R-3.3.2/configure.ac
===================================================================
--- R-3.3.2.orig/configure.ac
+++ R-3.3.2/configure.ac
@@ -33,6 +33,7 @@ m4_define([R_VERSION],
AC_INIT([R],[R_VERSION],[https://bugs.r-project.org],[R],[https://www.r-project.org])
AC_CONFIG_SRCDIR([src/include/Defn.h])
AC_CONFIG_AUX_DIR([tools])
+AC_CONFIG_MACRO_DIRS([m4])
### * Information on the package.

8
R.spec
View File

@ -96,7 +96,7 @@
Name: R
Version: 3.3.2
Release: 6%{?dist}
Release: 7%{?dist}
Summary: A language for data analysis and graphics
URL: http://www.r-project.org
Source0: ftp://cran.r-project.org/pub/R/src/base/R-3/R-%{version}.tar.gz
@ -147,6 +147,8 @@ BuildRequires: stunnel
Patch0: 0001-Disable-backing-store-in-X11-window.patch
# see https://bugzilla.redhat.com/show_bug.cgi?id=1324145
Patch1: R-3.3.0-fix-java_path-in-javareconf.patch
# see https://bugzilla.redhat.com/show_bug.cgi?id=1418471#c5
Patch2: https://github.com/wch/r-source/commit/a0fe05ce9d0937ad2334bb370785cb22c71e592b.patch#/R-3.3.2-fix-zlib-detection.patch
License: GPLv2+
Group: Applications/Engineering
BuildRoot: %{_tmppath}/%{name}-%{version}-%{release}-root-%(%{__id_u} -n)
@ -439,6 +441,7 @@ from the R project. This package provides the static libRmath library.
%endif
%patch0 -p1 -b .disable-backing-store
%patch1 -p1 -b .fixpath
%patch2 -p1 -b .zlib-detection
# Filter false positive provides.
cat <<EOF > %{name}-prov
@ -1168,6 +1171,9 @@ R CMD javareconf \
%{_libdir}/libRmath.a
%changelog
* Tue Feb 14 2017 Björn Esser <besser82@fedoraproject.org> - 3.3.2-7
- Add Patch2 to fix detection of zlib
* Fri Feb 10 2017 Fedora Release Engineering <releng@fedoraproject.org> - 3.3.2-6
- Rebuilt for https://fedoraproject.org/wiki/Fedora_26_Mass_Rebuild