From 0bcde21948d619e9803de229ea40499b5e1dd873 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 27 May 2015 11:54:04 +0200
Subject: Update README, NEWS

---
 build/linux/README.txt | 6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/README.txt b/build/linux/README.txt
index 9dd7a7a..7208d45 100644
--- a/build/linux/README.txt
+++ b/build/linux/README.txt
@@ -1,15 +1,17 @@
-Requirements: g++, boost, CUDA (driver+toolkit),
-matlab
+Requirements: g++, boost, CUDA (driver+toolkit), Matlab and/or Python (2.7 or 3.x)
 
 cd build/linux
+./autogen.sh   # when building a git version
 ./configure --with-cuda=/usr/local/cuda \
             --with-matlab=/usr/local/MATLAB/R2012a \
+            --with-python \
             --prefix=/usr/local/astra
 make
 make install
 Add /usr/local/astra/lib to your LD_LIBRARY_PATH.
 Add /usr/local/astra/matlab and its subdirectories (tools, mex)
   to your matlab path.
+Add /usr/local/astra/python to your PYTHONPATH.
 
 
 NB: Each matlab version only supports a specific range of g++ versions.
-- 
cgit v1.2.3


From 91d1cf7c8c75218939fcf1972966c84290c095e1 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Fri, 29 May 2015 11:44:58 +0200
Subject: Update utility files

---
 build/linux/config.guess.dist | 405 ++++++++++++++++++++++++------------------
 build/linux/config.sub.dist   | 288 +++++++++++++++++++-----------
 build/linux/install-sh.dist   |  32 ++--
 3 files changed, 438 insertions(+), 287 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/config.guess.dist b/build/linux/config.guess.dist
index dc84c68..b79252d 100755
--- a/build/linux/config.guess.dist
+++ b/build/linux/config.guess.dist
@@ -1,14 +1,12 @@
 #! /bin/sh
 # Attempt to guess a canonical system name.
-#   Copyright (C) 1992, 1993, 1994, 1995, 1996, 1997, 1998, 1999,
-#   2000, 2001, 2002, 2003, 2004, 2005, 2006, 2007, 2008, 2009
-#   Free Software Foundation, Inc.
+#   Copyright 1992-2013 Free Software Foundation, Inc.
 
-timestamp='2009-11-20'
+timestamp='2013-06-10'
 
 # This file 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 of the License, or
+# the Free Software Foundation; either version 3 of the License, or
 # (at your option) any later version.
 #
 # This program is distributed in the hope that it will be useful, but
@@ -17,26 +15,22 @@ timestamp='2009-11-20'
 # 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.
+# along with this program; if not, see <http://www.gnu.org/licenses/>.
 #
 # 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.
-
-
-# Originally written by Per Bothner.  Please send patches (context
-# diff format) to <config-patches@gnu.org> and include a ChangeLog
-# entry.
+# the same distribution terms that you use for the rest of that
+# program.  This Exception is an additional permission under section 7
+# of the GNU General Public License, version 3 ("GPLv3").
 #
-# This script attempts to guess a canonical system name similar to
-# config.sub.  If it succeeds, it prints the system name on stdout, and
-# exits with 0.  Otherwise, it exits with 1.
+# Originally written by Per Bothner.
 #
 # You can get the latest version of this script from:
 # http://git.savannah.gnu.org/gitweb/?p=config.git;a=blob_plain;f=config.guess;hb=HEAD
+#
+# Please send patches with a ChangeLog entry to config-patches@gnu.org.
+
 
 me=`echo "$0" | sed -e 's,.*/,,'`
 
@@ -56,8 +50,7 @@ version="\
 GNU config.guess ($timestamp)
 
 Originally written by Per Bothner.
-Copyright (C) 1992, 1993, 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001,
-2002, 2003, 2004, 2005, 2006, 2007, 2008 Free Software Foundation, Inc.
+Copyright 1992-2013 Free Software Foundation, Inc.
 
 This is free software; see the source for copying conditions.  There is NO
 warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE."
@@ -139,12 +132,33 @@ UNAME_RELEASE=`(uname -r) 2>/dev/null` || UNAME_RELEASE=unknown
 UNAME_SYSTEM=`(uname -s) 2>/dev/null`  || UNAME_SYSTEM=unknown
 UNAME_VERSION=`(uname -v) 2>/dev/null` || UNAME_VERSION=unknown
 
+case "${UNAME_SYSTEM}" in
+Linux|GNU|GNU/*)
+	# If the system lacks a compiler, then just pick glibc.
+	# We could probably try harder.
+	LIBC=gnu
+
+	eval $set_cc_for_build
+	cat <<-EOF > $dummy.c
+	#include <features.h>
+	#if defined(__UCLIBC__)
+	LIBC=uclibc
+	#elif defined(__dietlibc__)
+	LIBC=dietlibc
+	#else
+	LIBC=gnu
+	#endif
+	EOF
+	eval `$CC_FOR_BUILD -E $dummy.c 2>/dev/null | grep '^LIBC'`
+	;;
+esac
+
 # Note: order is significant - the case branches are not exclusive.
 
 case "${UNAME_MACHINE}:${UNAME_SYSTEM}:${UNAME_RELEASE}:${UNAME_VERSION}" in
     *:NetBSD:*:*)
 	# NetBSD (nbsd) targets should (where applicable) match one or
-	# more of the tupples: *-*-netbsdelf*, *-*-netbsdaout*,
+	# more of the tuples: *-*-netbsdelf*, *-*-netbsdaout*,
 	# *-*-netbsdecoff* and *-*-netbsd*.  For targets that recently
 	# switched to ELF, *-*-netbsd* would select the old
 	# object file format.  This provides both forward
@@ -180,7 +194,7 @@ case "${UNAME_MACHINE}:${UNAME_SYSTEM}:${UNAME_RELEASE}:${UNAME_VERSION}" in
 		fi
 		;;
 	    *)
-	        os=netbsd
+		os=netbsd
 		;;
 	esac
 	# The OS release
@@ -201,6 +215,10 @@ case "${UNAME_MACHINE}:${UNAME_SYSTEM}:${UNAME_RELEASE}:${UNAME_VERSION}" in
 	# CPU_TYPE-MANUFACTURER-OPERATING_SYSTEM is used.
 	echo "${machine}-${os}${release}"
 	exit ;;
+    *:Bitrig:*:*)
+	UNAME_MACHINE_ARCH=`arch | sed 's/Bitrig.//'`
+	echo ${UNAME_MACHINE_ARCH}-unknown-bitrig${UNAME_RELEASE}
+	exit ;;
     *:OpenBSD:*:*)
 	UNAME_MACHINE_ARCH=`arch | sed 's/OpenBSD.//'`
 	echo ${UNAME_MACHINE_ARCH}-unknown-openbsd${UNAME_RELEASE}
@@ -223,7 +241,7 @@ case "${UNAME_MACHINE}:${UNAME_SYSTEM}:${UNAME_RELEASE}:${UNAME_VERSION}" in
 		UNAME_RELEASE=`/usr/sbin/sizer -v | awk '{print $3}'`
 		;;
 	*5.*)
-	        UNAME_RELEASE=`/usr/sbin/sizer -v | awk '{print $4}'`
+		UNAME_RELEASE=`/usr/sbin/sizer -v | awk '{print $4}'`
 		;;
 	esac
 	# According to Compaq, /usr/sbin/psrinfo has been available on
@@ -269,7 +287,10 @@ case "${UNAME_MACHINE}:${UNAME_SYSTEM}:${UNAME_RELEASE}:${UNAME_VERSION}" in
 	# A Xn.n version is an unreleased experimental baselevel.
 	# 1.2 uses "1.2" for uname -r.
 	echo ${UNAME_MACHINE}-dec-osf`echo ${UNAME_RELEASE} | sed -e 's/^[PVTX]//' | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz'`
-	exit ;;
+	# Reset EXIT trap before exiting to avoid spurious non-zero exit code.
+	exitcode=$?
+	trap '' 0
+	exit $exitcode ;;
     Alpha\ *:Windows_NT*:*)
 	# How do we know it's Interix rather than the generic POSIX subsystem?
 	# Should we change UNAME_MACHINE based on the output of uname instead
@@ -295,12 +316,12 @@ case "${UNAME_MACHINE}:${UNAME_SYSTEM}:${UNAME_RELEASE}:${UNAME_VERSION}" in
 	echo s390-ibm-zvmoe
 	exit ;;
     *:OS400:*:*)
-        echo powerpc-ibm-os400
+	echo powerpc-ibm-os400
 	exit ;;
     arm:RISC*:1.[012]*:*|arm:riscix:1.[012]*:*)
 	echo arm-acorn-riscix${UNAME_RELEASE}
 	exit ;;
-    arm:riscos:*:*|arm:RISCOS:*:*)
+    arm*:riscos:*:*|arm*:RISCOS:*:*)
 	echo arm-unknown-riscos
 	exit ;;
     SR2?01:HI-UX/MPP:*:* | SR8000:HI-UX/MPP:*:*)
@@ -394,23 +415,23 @@ case "${UNAME_MACHINE}:${UNAME_SYSTEM}:${UNAME_RELEASE}:${UNAME_VERSION}" in
     # MiNT.  But MiNT is downward compatible to TOS, so this should
     # be no problem.
     atarist[e]:*MiNT:*:* | atarist[e]:*mint:*:* | atarist[e]:*TOS:*:*)
-        echo m68k-atari-mint${UNAME_RELEASE}
+	echo m68k-atari-mint${UNAME_RELEASE}
 	exit ;;
     atari*:*MiNT:*:* | atari*:*mint:*:* | atarist[e]:*TOS:*:*)
 	echo m68k-atari-mint${UNAME_RELEASE}
-        exit ;;
+	exit ;;
     *falcon*:*MiNT:*:* | *falcon*:*mint:*:* | *falcon*:*TOS:*:*)
-        echo m68k-atari-mint${UNAME_RELEASE}
+	echo m68k-atari-mint${UNAME_RELEASE}
 	exit ;;
     milan*:*MiNT:*:* | milan*:*mint:*:* | *milan*:*TOS:*:*)
-        echo m68k-milan-mint${UNAME_RELEASE}
-        exit ;;
+	echo m68k-milan-mint${UNAME_RELEASE}
+	exit ;;
     hades*:*MiNT:*:* | hades*:*mint:*:* | *hades*:*TOS:*:*)
-        echo m68k-hades-mint${UNAME_RELEASE}
-        exit ;;
+	echo m68k-hades-mint${UNAME_RELEASE}
+	exit ;;
     *:*MiNT:*:* | *:*mint:*:* | *:*TOS:*:*)
-        echo m68k-unknown-mint${UNAME_RELEASE}
-        exit ;;
+	echo m68k-unknown-mint${UNAME_RELEASE}
+	exit ;;
     m68k:machten:*:*)
 	echo m68k-apple-machten${UNAME_RELEASE}
 	exit ;;
@@ -480,8 +501,8 @@ EOF
 	echo m88k-motorola-sysv3
 	exit ;;
     AViiON:dgux:*:*)
-        # DG/UX returns AViiON for all architectures
-        UNAME_PROCESSOR=`/usr/bin/uname -p`
+	# DG/UX returns AViiON for all architectures
+	UNAME_PROCESSOR=`/usr/bin/uname -p`
 	if [ $UNAME_PROCESSOR = mc88100 ] || [ $UNAME_PROCESSOR = mc88110 ]
 	then
 	    if [ ${TARGET_BINARY_INTERFACE}x = m88kdguxelfx ] || \
@@ -494,7 +515,7 @@ EOF
 	else
 	    echo i586-dg-dgux${UNAME_RELEASE}
 	fi
- 	exit ;;
+	exit ;;
     M88*:DolphinOS:*:*)	# DolphinOS (SVR3)
 	echo m88k-dolphin-sysv3
 	exit ;;
@@ -551,7 +572,7 @@ EOF
 		echo rs6000-ibm-aix3.2
 	fi
 	exit ;;
-    *:AIX:*:[456])
+    *:AIX:*:[4567])
 	IBM_CPU_ID=`/usr/sbin/lsdev -C -c processor -S available | sed 1q | awk '{ print $1 }'`
 	if /usr/sbin/lsattr -El ${IBM_CPU_ID} | grep ' POWER' >/dev/null 2>&1; then
 		IBM_ARCH=rs6000
@@ -594,52 +615,52 @@ EOF
 	    9000/[678][0-9][0-9])
 		if [ -x /usr/bin/getconf ]; then
 		    sc_cpu_version=`/usr/bin/getconf SC_CPU_VERSION 2>/dev/null`
-                    sc_kernel_bits=`/usr/bin/getconf SC_KERNEL_BITS 2>/dev/null`
-                    case "${sc_cpu_version}" in
-                      523) HP_ARCH="hppa1.0" ;; # CPU_PA_RISC1_0
-                      528) HP_ARCH="hppa1.1" ;; # CPU_PA_RISC1_1
-                      532)                      # CPU_PA_RISC2_0
-                        case "${sc_kernel_bits}" in
-                          32) HP_ARCH="hppa2.0n" ;;
-                          64) HP_ARCH="hppa2.0w" ;;
+		    sc_kernel_bits=`/usr/bin/getconf SC_KERNEL_BITS 2>/dev/null`
+		    case "${sc_cpu_version}" in
+		      523) HP_ARCH="hppa1.0" ;; # CPU_PA_RISC1_0
+		      528) HP_ARCH="hppa1.1" ;; # CPU_PA_RISC1_1
+		      532)                      # CPU_PA_RISC2_0
+			case "${sc_kernel_bits}" in
+			  32) HP_ARCH="hppa2.0n" ;;
+			  64) HP_ARCH="hppa2.0w" ;;
 			  '') HP_ARCH="hppa2.0" ;;   # HP-UX 10.20
-                        esac ;;
-                    esac
+			esac ;;
+		    esac
 		fi
 		if [ "${HP_ARCH}" = "" ]; then
 		    eval $set_cc_for_build
-		    sed 's/^              //' << EOF >$dummy.c
+		    sed 's/^		//' << EOF >$dummy.c
 
-              #define _HPUX_SOURCE
-              #include <stdlib.h>
-              #include <unistd.h>
+		#define _HPUX_SOURCE
+		#include <stdlib.h>
+		#include <unistd.h>
 
-              int main ()
-              {
-              #if defined(_SC_KERNEL_BITS)
-                  long bits = sysconf(_SC_KERNEL_BITS);
-              #endif
-                  long cpu  = sysconf (_SC_CPU_VERSION);
+		int main ()
+		{
+		#if defined(_SC_KERNEL_BITS)
+		    long bits = sysconf(_SC_KERNEL_BITS);
+		#endif
+		    long cpu  = sysconf (_SC_CPU_VERSION);
 
-                  switch (cpu)
-              	{
-              	case CPU_PA_RISC1_0: puts ("hppa1.0"); break;
-              	case CPU_PA_RISC1_1: puts ("hppa1.1"); break;
-              	case CPU_PA_RISC2_0:
-              #if defined(_SC_KERNEL_BITS)
-              	    switch (bits)
-              		{
-              		case 64: puts ("hppa2.0w"); break;
-              		case 32: puts ("hppa2.0n"); break;
-              		default: puts ("hppa2.0"); break;
-              		} break;
-              #else  /* !defined(_SC_KERNEL_BITS) */
-              	    puts ("hppa2.0"); break;
-              #endif
-              	default: puts ("hppa1.0"); break;
-              	}
-                  exit (0);
-              }
+		    switch (cpu)
+			{
+			case CPU_PA_RISC1_0: puts ("hppa1.0"); break;
+			case CPU_PA_RISC1_1: puts ("hppa1.1"); break;
+			case CPU_PA_RISC2_0:
+		#if defined(_SC_KERNEL_BITS)
+			    switch (bits)
+				{
+				case 64: puts ("hppa2.0w"); break;
+				case 32: puts ("hppa2.0n"); break;
+				default: puts ("hppa2.0"); break;
+				} break;
+		#else  /* !defined(_SC_KERNEL_BITS) */
+			    puts ("hppa2.0"); break;
+		#endif
+			default: puts ("hppa1.0"); break;
+			}
+		    exit (0);
+		}
 EOF
 		    (CCOPTS= $CC_FOR_BUILD -o $dummy $dummy.c 2>/dev/null) && HP_ARCH=`$dummy`
 		    test -z "$HP_ARCH" && HP_ARCH=hppa
@@ -730,22 +751,22 @@ EOF
 	exit ;;
     C1*:ConvexOS:*:* | convex:ConvexOS:C1*:*)
 	echo c1-convex-bsd
-        exit ;;
+	exit ;;
     C2*:ConvexOS:*:* | convex:ConvexOS:C2*:*)
 	if getsysinfo -f scalar_acc
 	then echo c32-convex-bsd
 	else echo c2-convex-bsd
 	fi
-        exit ;;
+	exit ;;
     C34*:ConvexOS:*:* | convex:ConvexOS:C34*:*)
 	echo c34-convex-bsd
-        exit ;;
+	exit ;;
     C38*:ConvexOS:*:* | convex:ConvexOS:C38*:*)
 	echo c38-convex-bsd
-        exit ;;
+	exit ;;
     C4*:ConvexOS:*:* | convex:ConvexOS:C4*:*)
 	echo c4-convex-bsd
-        exit ;;
+	exit ;;
     CRAY*Y-MP:*:*:*)
 	echo ymp-cray-unicos${UNAME_RELEASE} | sed -e 's/\.[^.]*$/.X/'
 	exit ;;
@@ -769,14 +790,14 @@ EOF
 	exit ;;
     F30[01]:UNIX_System_V:*:* | F700:UNIX_System_V:*:*)
 	FUJITSU_PROC=`uname -m | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz'`
-        FUJITSU_SYS=`uname -p | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz' | sed -e 's/\///'`
-        FUJITSU_REL=`echo ${UNAME_RELEASE} | sed -e 's/ /_/'`
-        echo "${FUJITSU_PROC}-fujitsu-${FUJITSU_SYS}${FUJITSU_REL}"
-        exit ;;
+	FUJITSU_SYS=`uname -p | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz' | sed -e 's/\///'`
+	FUJITSU_REL=`echo ${UNAME_RELEASE} | sed -e 's/ /_/'`
+	echo "${FUJITSU_PROC}-fujitsu-${FUJITSU_SYS}${FUJITSU_REL}"
+	exit ;;
     5000:UNIX_System_V:4.*:*)
-        FUJITSU_SYS=`uname -p | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz' | sed -e 's/\///'`
-        FUJITSU_REL=`echo ${UNAME_RELEASE} | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz' | sed -e 's/ /_/'`
-        echo "sparc-fujitsu-${FUJITSU_SYS}${FUJITSU_REL}"
+	FUJITSU_SYS=`uname -p | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz' | sed -e 's/\///'`
+	FUJITSU_REL=`echo ${UNAME_RELEASE} | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz' | sed -e 's/ /_/'`
+	echo "sparc-fujitsu-${FUJITSU_SYS}${FUJITSU_REL}"
 	exit ;;
     i*86:BSD/386:*:* | i*86:BSD/OS:*:* | *:Ascend\ Embedded/OS:*:*)
 	echo ${UNAME_MACHINE}-pc-bsdi${UNAME_RELEASE}
@@ -788,30 +809,35 @@ EOF
 	echo ${UNAME_MACHINE}-unknown-bsdi${UNAME_RELEASE}
 	exit ;;
     *:FreeBSD:*:*)
-	case ${UNAME_MACHINE} in
-	    pc98)
-		echo i386-unknown-freebsd`echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'` ;;
+	UNAME_PROCESSOR=`/usr/bin/uname -p`
+	case ${UNAME_PROCESSOR} in
 	    amd64)
 		echo x86_64-unknown-freebsd`echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'` ;;
 	    *)
-		echo ${UNAME_MACHINE}-unknown-freebsd`echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'` ;;
+		echo ${UNAME_PROCESSOR}-unknown-freebsd`echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'` ;;
 	esac
 	exit ;;
     i*:CYGWIN*:*)
 	echo ${UNAME_MACHINE}-pc-cygwin
 	exit ;;
+    *:MINGW64*:*)
+	echo ${UNAME_MACHINE}-pc-mingw64
+	exit ;;
     *:MINGW*:*)
 	echo ${UNAME_MACHINE}-pc-mingw32
 	exit ;;
+    i*:MSYS*:*)
+	echo ${UNAME_MACHINE}-pc-msys
+	exit ;;
     i*:windows32*:*)
-    	# uname -m includes "-pc" on this system.
-    	echo ${UNAME_MACHINE}-mingw32
+	# uname -m includes "-pc" on this system.
+	echo ${UNAME_MACHINE}-mingw32
 	exit ;;
     i*:PW*:*)
 	echo ${UNAME_MACHINE}-pc-pw32
 	exit ;;
     *:Interix*:*)
-    	case ${UNAME_MACHINE} in
+	case ${UNAME_MACHINE} in
 	    x86)
 		echo i586-pc-interix${UNAME_RELEASE}
 		exit ;;
@@ -848,15 +874,22 @@ EOF
 	exit ;;
     *:GNU:*:*)
 	# the GNU system
-	echo `echo ${UNAME_MACHINE}|sed -e 's,[-/].*$,,'`-unknown-gnu`echo ${UNAME_RELEASE}|sed -e 's,/.*$,,'`
+	echo `echo ${UNAME_MACHINE}|sed -e 's,[-/].*$,,'`-unknown-${LIBC}`echo ${UNAME_RELEASE}|sed -e 's,/.*$,,'`
 	exit ;;
     *:GNU/*:*:*)
 	# other systems with GNU libc and userland
-	echo ${UNAME_MACHINE}-unknown-`echo ${UNAME_SYSTEM} | sed 's,^[^/]*/,,' | tr '[A-Z]' '[a-z]'``echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'`-gnu
+	echo ${UNAME_MACHINE}-unknown-`echo ${UNAME_SYSTEM} | sed 's,^[^/]*/,,' | tr '[A-Z]' '[a-z]'``echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'`-${LIBC}
 	exit ;;
     i*86:Minix:*:*)
 	echo ${UNAME_MACHINE}-pc-minix
 	exit ;;
+    aarch64:Linux:*:*)
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
+	exit ;;
+    aarch64_be:Linux:*:*)
+	UNAME_MACHINE=aarch64_be
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
+	exit ;;
     alpha:Linux:*:*)
 	case `sed -n '/^cpu model/s/^.*: \(.*\)/\1/p' < /proc/cpuinfo` in
 	  EV5)   UNAME_MACHINE=alphaev5 ;;
@@ -866,52 +899,56 @@ EOF
 	  EV6)   UNAME_MACHINE=alphaev6 ;;
 	  EV67)  UNAME_MACHINE=alphaev67 ;;
 	  EV68*) UNAME_MACHINE=alphaev68 ;;
-        esac
+	esac
 	objdump --private-headers /bin/sh | grep -q ld.so.1
-	if test "$?" = 0 ; then LIBC="libc1" ; else LIBC="" ; fi
-	echo ${UNAME_MACHINE}-unknown-linux-gnu${LIBC}
+	if test "$?" = 0 ; then LIBC="gnulibc1" ; fi
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
+	exit ;;
+    arc:Linux:*:* | arceb:Linux:*:*)
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     arm*:Linux:*:*)
 	eval $set_cc_for_build
 	if echo __ARM_EABI__ | $CC_FOR_BUILD -E - 2>/dev/null \
 	    | grep -q __ARM_EABI__
 	then
-	    echo ${UNAME_MACHINE}-unknown-linux-gnu
+	    echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	else
-	    echo ${UNAME_MACHINE}-unknown-linux-gnueabi
+	    if echo __ARM_PCS_VFP | $CC_FOR_BUILD -E - 2>/dev/null \
+		| grep -q __ARM_PCS_VFP
+	    then
+		echo ${UNAME_MACHINE}-unknown-linux-${LIBC}eabi
+	    else
+		echo ${UNAME_MACHINE}-unknown-linux-${LIBC}eabihf
+	    fi
 	fi
 	exit ;;
     avr32*:Linux:*:*)
-	echo ${UNAME_MACHINE}-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     cris:Linux:*:*)
-	echo cris-axis-linux-gnu
+	echo ${UNAME_MACHINE}-axis-linux-${LIBC}
 	exit ;;
     crisv32:Linux:*:*)
-	echo crisv32-axis-linux-gnu
+	echo ${UNAME_MACHINE}-axis-linux-${LIBC}
 	exit ;;
     frv:Linux:*:*)
-    	echo frv-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
+	exit ;;
+    hexagon:Linux:*:*)
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     i*86:Linux:*:*)
-	LIBC=gnu
-	eval $set_cc_for_build
-	sed 's/^	//' << EOF >$dummy.c
-	#ifdef __dietlibc__
-	LIBC=dietlibc
-	#endif
-EOF
-	eval `$CC_FOR_BUILD -E $dummy.c 2>/dev/null | grep '^LIBC'`
-	echo "${UNAME_MACHINE}-pc-linux-${LIBC}"
+	echo ${UNAME_MACHINE}-pc-linux-${LIBC}
 	exit ;;
     ia64:Linux:*:*)
-	echo ${UNAME_MACHINE}-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     m32r*:Linux:*:*)
-	echo ${UNAME_MACHINE}-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     m68*:Linux:*:*)
-	echo ${UNAME_MACHINE}-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     mips:Linux:*:* | mips64:Linux:*:*)
 	eval $set_cc_for_build
@@ -930,51 +967,63 @@ EOF
 	#endif
 EOF
 	eval `$CC_FOR_BUILD -E $dummy.c 2>/dev/null | grep '^CPU'`
-	test x"${CPU}" != x && { echo "${CPU}-unknown-linux-gnu"; exit; }
+	test x"${CPU}" != x && { echo "${CPU}-unknown-linux-${LIBC}"; exit; }
 	;;
+    or1k:Linux:*:*)
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
+	exit ;;
     or32:Linux:*:*)
-	echo or32-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     padre:Linux:*:*)
-	echo sparc-unknown-linux-gnu
+	echo sparc-unknown-linux-${LIBC}
 	exit ;;
     parisc64:Linux:*:* | hppa64:Linux:*:*)
-	echo hppa64-unknown-linux-gnu
+	echo hppa64-unknown-linux-${LIBC}
 	exit ;;
     parisc:Linux:*:* | hppa:Linux:*:*)
 	# Look for CPU level
 	case `grep '^cpu[^a-z]*:' /proc/cpuinfo 2>/dev/null | cut -d' ' -f2` in
-	  PA7*) echo hppa1.1-unknown-linux-gnu ;;
-	  PA8*) echo hppa2.0-unknown-linux-gnu ;;
-	  *)    echo hppa-unknown-linux-gnu ;;
+	  PA7*) echo hppa1.1-unknown-linux-${LIBC} ;;
+	  PA8*) echo hppa2.0-unknown-linux-${LIBC} ;;
+	  *)    echo hppa-unknown-linux-${LIBC} ;;
 	esac
 	exit ;;
     ppc64:Linux:*:*)
-	echo powerpc64-unknown-linux-gnu
+	echo powerpc64-unknown-linux-${LIBC}
 	exit ;;
     ppc:Linux:*:*)
-	echo powerpc-unknown-linux-gnu
+	echo powerpc-unknown-linux-${LIBC}
+	exit ;;
+    ppc64le:Linux:*:*)
+	echo powerpc64le-unknown-linux-${LIBC}
+	exit ;;
+    ppcle:Linux:*:*)
+	echo powerpcle-unknown-linux-${LIBC}
 	exit ;;
     s390:Linux:*:* | s390x:Linux:*:*)
-	echo ${UNAME_MACHINE}-ibm-linux
+	echo ${UNAME_MACHINE}-ibm-linux-${LIBC}
 	exit ;;
     sh64*:Linux:*:*)
-    	echo ${UNAME_MACHINE}-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     sh*:Linux:*:*)
-	echo ${UNAME_MACHINE}-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     sparc:Linux:*:* | sparc64:Linux:*:*)
-	echo ${UNAME_MACHINE}-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
+	exit ;;
+    tile*:Linux:*:*)
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     vax:Linux:*:*)
-	echo ${UNAME_MACHINE}-dec-linux-gnu
+	echo ${UNAME_MACHINE}-dec-linux-${LIBC}
 	exit ;;
     x86_64:Linux:*:*)
-	echo x86_64-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     xtensa*:Linux:*:*)
-    	echo ${UNAME_MACHINE}-unknown-linux-gnu
+	echo ${UNAME_MACHINE}-unknown-linux-${LIBC}
 	exit ;;
     i*86:DYNIX/ptx:4*:*)
 	# ptx 4.0 does uname -s correctly, with DYNIX/ptx in there.
@@ -983,11 +1032,11 @@ EOF
 	echo i386-sequent-sysv4
 	exit ;;
     i*86:UNIX_SV:4.2MP:2.*)
-        # Unixware is an offshoot of SVR4, but it has its own version
-        # number series starting with 2...
-        # I am not positive that other SVR4 systems won't match this,
+	# Unixware is an offshoot of SVR4, but it has its own version
+	# number series starting with 2...
+	# I am not positive that other SVR4 systems won't match this,
 	# I just have to hope.  -- rms.
-        # Use sysv4.2uw... so that sysv4* matches it.
+	# Use sysv4.2uw... so that sysv4* matches it.
 	echo ${UNAME_MACHINE}-pc-sysv4.2uw${UNAME_VERSION}
 	exit ;;
     i*86:OS/2:*:*)
@@ -1019,7 +1068,7 @@ EOF
 	fi
 	exit ;;
     i*86:*:5:[678]*)
-    	# UnixWare 7.x, OpenUNIX and OpenServer 6.
+	# UnixWare 7.x, OpenUNIX and OpenServer 6.
 	case `/bin/uname -X | grep "^Machine"` in
 	    *486*)	     UNAME_MACHINE=i486 ;;
 	    *Pentium)	     UNAME_MACHINE=i586 ;;
@@ -1047,13 +1096,13 @@ EOF
 	exit ;;
     pc:*:*:*)
 	# Left here for compatibility:
-        # uname -m prints for DJGPP always 'pc', but it prints nothing about
-        # the processor, so we play safe by assuming i586.
+	# uname -m prints for DJGPP always 'pc', but it prints nothing about
+	# the processor, so we play safe by assuming i586.
 	# Note: whatever this is, it MUST be the same as what config.sub
 	# prints for the "djgpp" host, or else GDB configury will decide that
 	# this is a cross-build.
 	echo i586-pc-msdosdjgpp
-        exit ;;
+	exit ;;
     Intel:Mach:3*:*)
 	echo i386-pc-mach3
 	exit ;;
@@ -1088,8 +1137,8 @@ EOF
 	/bin/uname -p 2>/dev/null | /bin/grep entium >/dev/null \
 	  && { echo i586-ncr-sysv4.3${OS_REL}; exit; } ;;
     3[34]??:*:4.0:* | 3[34]??,*:*:4.0:*)
-        /bin/uname -p 2>/dev/null | grep 86 >/dev/null \
-          && { echo i486-ncr-sysv4; exit; } ;;
+	/bin/uname -p 2>/dev/null | grep 86 >/dev/null \
+	  && { echo i486-ncr-sysv4; exit; } ;;
     NCR*:*:4.2:* | MPRAS*:*:4.2:*)
 	OS_REL='.3'
 	test -r /etc/.relid \
@@ -1132,10 +1181,10 @@ EOF
 		echo ns32k-sni-sysv
 	fi
 	exit ;;
-    PENTIUM:*:4.0*:*) # Unisys `ClearPath HMP IX 4000' SVR4/MP effort
-                      # says <Richard.M.Bartel@ccMail.Census.GOV>
-        echo i586-unisys-sysv4
-        exit ;;
+    PENTIUM:*:4.0*:*)	# Unisys `ClearPath HMP IX 4000' SVR4/MP effort
+			# says <Richard.M.Bartel@ccMail.Census.GOV>
+	echo i586-unisys-sysv4
+	exit ;;
     *:UNIX_System_V:4*:FTX*)
 	# From Gerald Hewes <hewes@openmarket.com>.
 	# How about differentiating between stratus architectures? -djm
@@ -1161,11 +1210,11 @@ EOF
 	exit ;;
     R[34]000:*System_V*:*:* | R4000:UNIX_SYSV:*:* | R*000:UNIX_SV:*:*)
 	if [ -d /usr/nec ]; then
-	        echo mips-nec-sysv${UNAME_RELEASE}
+		echo mips-nec-sysv${UNAME_RELEASE}
 	else
-	        echo mips-unknown-sysv${UNAME_RELEASE}
+		echo mips-unknown-sysv${UNAME_RELEASE}
 	fi
-        exit ;;
+	exit ;;
     BeBox:BeOS:*:*)	# BeOS running on hardware made by Be, PPC only.
 	echo powerpc-be-beos
 	exit ;;
@@ -1178,6 +1227,9 @@ EOF
     BePC:Haiku:*:*)	# Haiku running on Intel PC compatible.
 	echo i586-pc-haiku
 	exit ;;
+    x86_64:Haiku:*:*)
+	echo x86_64-unknown-haiku
+	exit ;;
     SX-4:SUPER-UX:*:*)
 	echo sx4-nec-superux${UNAME_RELEASE}
 	exit ;;
@@ -1204,19 +1256,21 @@ EOF
 	exit ;;
     *:Darwin:*:*)
 	UNAME_PROCESSOR=`uname -p` || UNAME_PROCESSOR=unknown
-	case $UNAME_PROCESSOR in
-	    i386)
-		eval $set_cc_for_build
-		if [ "$CC_FOR_BUILD" != 'no_compiler_found' ]; then
-		  if (echo '#ifdef __LP64__'; echo IS_64BIT_ARCH; echo '#endif') | \
-		      (CCOPTS= $CC_FOR_BUILD -E - 2>/dev/null) | \
-		      grep IS_64BIT_ARCH >/dev/null
-		  then
-		      UNAME_PROCESSOR="x86_64"
-		  fi
-		fi ;;
-	    unknown) UNAME_PROCESSOR=powerpc ;;
-	esac
+	eval $set_cc_for_build
+	if test "$UNAME_PROCESSOR" = unknown ; then
+	    UNAME_PROCESSOR=powerpc
+	fi
+	if [ "$CC_FOR_BUILD" != 'no_compiler_found' ]; then
+	    if (echo '#ifdef __LP64__'; echo IS_64BIT_ARCH; echo '#endif') | \
+		(CCOPTS= $CC_FOR_BUILD -E - 2>/dev/null) | \
+		grep IS_64BIT_ARCH >/dev/null
+	    then
+		case $UNAME_PROCESSOR in
+		    i386) UNAME_PROCESSOR=x86_64 ;;
+		    powerpc) UNAME_PROCESSOR=powerpc64 ;;
+		esac
+	    fi
+	fi
 	echo ${UNAME_PROCESSOR}-apple-darwin${UNAME_RELEASE}
 	exit ;;
     *:procnto*:*:* | *:QNX:[0123456789]*:*)
@@ -1230,7 +1284,10 @@ EOF
     *:QNX:*:4*)
 	echo i386-pc-qnx
 	exit ;;
-    NSE-?:NONSTOP_KERNEL:*:*)
+    NEO-?:NONSTOP_KERNEL:*:*)
+	echo neo-tandem-nsk${UNAME_RELEASE}
+	exit ;;
+    NSE-*:NONSTOP_KERNEL:*:*)
 	echo nse-tandem-nsk${UNAME_RELEASE}
 	exit ;;
     NSR-?:NONSTOP_KERNEL:*:*)
@@ -1275,13 +1332,13 @@ EOF
 	echo pdp10-unknown-its
 	exit ;;
     SEI:*:*:SEIUX)
-        echo mips-sei-seiux${UNAME_RELEASE}
+	echo mips-sei-seiux${UNAME_RELEASE}
 	exit ;;
     *:DragonFly:*:*)
 	echo ${UNAME_MACHINE}-unknown-dragonfly`echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'`
 	exit ;;
     *:*VMS:*:*)
-    	UNAME_MACHINE=`(uname -p) 2>/dev/null`
+	UNAME_MACHINE=`(uname -p) 2>/dev/null`
 	case "${UNAME_MACHINE}" in
 	    A*) echo alpha-dec-vms ; exit ;;
 	    I*) echo ia64-dec-vms ; exit ;;
@@ -1299,11 +1356,11 @@ EOF
     i*86:AROS:*:*)
 	echo ${UNAME_MACHINE}-pc-aros
 	exit ;;
+    x86_64:VMkernel:*:*)
+	echo ${UNAME_MACHINE}-unknown-esx
+	exit ;;
 esac
 
-#echo '(No uname command or uname output not recognized.)' 1>&2
-#echo "${UNAME_MACHINE}:${UNAME_SYSTEM}:${UNAME_RELEASE}:${UNAME_VERSION}" 1>&2
-
 eval $set_cc_for_build
 cat >$dummy.c <<EOF
 #ifdef _SEQUENT_
@@ -1321,11 +1378,11 @@ main ()
 #include <sys/param.h>
   printf ("m68k-sony-newsos%s\n",
 #ifdef NEWSOS4
-          "4"
+	"4"
 #else
-	  ""
+	""
 #endif
-         ); exit (0);
+	); exit (0);
 #endif
 #endif
 
diff --git a/build/linux/config.sub.dist b/build/linux/config.sub.dist
index 2a55a50..d2a9613 100755
--- a/build/linux/config.sub.dist
+++ b/build/linux/config.sub.dist
@@ -1,38 +1,31 @@
 #! /bin/sh
 # Configuration validation subroutine script.
-#   Copyright (C) 1992, 1993, 1994, 1995, 1996, 1997, 1998, 1999,
-#   2000, 2001, 2002, 2003, 2004, 2005, 2006, 2007, 2008, 2009
-#   Free Software Foundation, Inc.
+#   Copyright 1992-2013 Free Software Foundation, Inc.
 
-timestamp='2009-11-20'
+timestamp='2013-08-10'
 
-# This file is (in principle) common to ALL GNU software.
-# The presence of a machine in this file suggests that SOME GNU software
-# can handle that machine.  It does not imply ALL GNU software can.
-#
-# This file 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 of the License, or
+# This file 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 3 of the License, 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.
+# 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.
+# along with this program; if not, see <http://www.gnu.org/licenses/>.
 #
 # 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.
+# the same distribution terms that you use for the rest of that
+# program.  This Exception is an additional permission under section 7
+# of the GNU General Public License, version 3 ("GPLv3").
 
 
-# Please send patches to <config-patches@gnu.org>.  Submit a context
-# diff and a properly formatted GNU ChangeLog entry.
+# Please send patches with a ChangeLog entry to config-patches@gnu.org.
 #
 # Configuration subroutine to validate and canonicalize a configuration type.
 # Supply the specified configuration type as an argument.
@@ -75,8 +68,7 @@ Report bugs and patches to <config-patches@gnu.org>."
 version="\
 GNU config.sub ($timestamp)
 
-Copyright (C) 1992, 1993, 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001,
-2002, 2003, 2004, 2005, 2006, 2007, 2008 Free Software Foundation, Inc.
+Copyright 1992-2013 Free Software Foundation, Inc.
 
 This is free software; see the source for copying conditions.  There is NO
 warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE."
@@ -123,13 +115,18 @@ esac
 # Here we must recognize all the valid KERNEL-OS combinations.
 maybe_os=`echo $1 | sed 's/^\(.*\)-\([^-]*-[^-]*\)$/\2/'`
 case $maybe_os in
-  nto-qnx* | linux-gnu* | linux-dietlibc | linux-newlib* | linux-uclibc* | \
-  uclinux-uclibc* | uclinux-gnu* | kfreebsd*-gnu* | knetbsd*-gnu* | netbsd*-gnu* | \
+  nto-qnx* | linux-gnu* | linux-android* | linux-dietlibc | linux-newlib* | \
+  linux-musl* | linux-uclibc* | uclinux-uclibc* | uclinux-gnu* | kfreebsd*-gnu* | \
+  knetbsd*-gnu* | netbsd*-gnu* | \
   kopensolaris*-gnu* | \
   storm-chaos* | os2-emx* | rtmk-nova*)
     os=-$maybe_os
     basic_machine=`echo $1 | sed 's/^\(.*\)-\([^-]*-[^-]*\)$/\1/'`
     ;;
+  android-linux)
+    os=-linux-android
+    basic_machine=`echo $1 | sed 's/^\(.*\)-\([^-]*-[^-]*\)$/\1/'`-unknown
+    ;;
   *)
     basic_machine=`echo $1 | sed 's/-[^-]*$//'`
     if [ $basic_machine != $1 ]
@@ -152,12 +149,12 @@ case $os in
 	-convergent* | -ncr* | -news | -32* | -3600* | -3100* | -hitachi* |\
 	-c[123]* | -convex* | -sun | -crds | -omron* | -dg | -ultra | -tti* | \
 	-harris | -dolphin | -highlevel | -gould | -cbm | -ns | -masscomp | \
-	-apple | -axis | -knuth | -cray | -microblaze)
+	-apple | -axis | -knuth | -cray | -microblaze*)
 		os=
 		basic_machine=$1
 		;;
-        -bluegene*)
-	        os=-cnk
+	-bluegene*)
+		os=-cnk
 		;;
 	-sim | -cisco | -oki | -wec | -winbond)
 		os=
@@ -173,10 +170,10 @@ case $os in
 		os=-chorusos
 		basic_machine=$1
 		;;
- 	-chorusrdb)
- 		os=-chorusrdb
+	-chorusrdb)
+		os=-chorusrdb
 		basic_machine=$1
- 		;;
+		;;
 	-hiux*)
 		os=-hiuxwe2
 		;;
@@ -221,6 +218,12 @@ case $os in
 	-isc*)
 		basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
 		;;
+	-lynx*178)
+		os=-lynxos178
+		;;
+	-lynx*5)
+		os=-lynxos5
+		;;
 	-lynx*)
 		os=-lynxos
 		;;
@@ -245,20 +248,27 @@ case $basic_machine in
 	# Some are omitted here because they have special meanings below.
 	1750a | 580 \
 	| a29k \
+	| aarch64 | aarch64_be \
 	| alpha | alphaev[4-8] | alphaev56 | alphaev6[78] | alphapca5[67] \
 	| alpha64 | alpha64ev[4-8] | alpha64ev56 | alpha64ev6[78] | alpha64pca5[67] \
 	| am33_2.0 \
-	| arc | arm | arm[bl]e | arme[lb] | armv[2345] | armv[345][lb] | avr | avr32 \
+	| arc | arceb \
+	| arm | arm[bl]e | arme[lb] | armv[2-8] | armv[3-8][lb] | armv7[arm] \
+	| avr | avr32 \
+	| be32 | be64 \
 	| bfin \
-	| c4x | clipper \
+	| c4x | c8051 | clipper \
 	| d10v | d30v | dlx | dsp16xx \
+	| epiphany \
 	| fido | fr30 | frv \
 	| h8300 | h8500 | hppa | hppa1.[01] | hppa2.0 | hppa2.0[nw] | hppa64 \
+	| hexagon \
 	| i370 | i860 | i960 | ia64 \
 	| ip2k | iq2000 \
+	| le32 | le64 \
 	| lm32 \
 	| m32c | m32r | m32rle | m68000 | m68k | m88k \
-	| maxq | mb | microblaze | mcore | mep | metag \
+	| maxq | mb | microblaze | microblazeel | mcore | mep | metag \
 	| mips | mipsbe | mipseb | mipsel | mipsle \
 	| mips16 \
 	| mips64 | mips64el \
@@ -276,34 +286,45 @@ case $basic_machine in
 	| mipsisa64r2 | mipsisa64r2el \
 	| mipsisa64sb1 | mipsisa64sb1el \
 	| mipsisa64sr71k | mipsisa64sr71kel \
+	| mipsr5900 | mipsr5900el \
 	| mipstx39 | mipstx39el \
 	| mn10200 | mn10300 \
 	| moxie \
 	| mt \
 	| msp430 \
-	| nios | nios2 \
+	| nds32 | nds32le | nds32be \
+	| nios | nios2 | nios2eb | nios2el \
 	| ns16k | ns32k \
-	| or32 \
+	| open8 \
+	| or1k | or32 \
 	| pdp10 | pdp11 | pj | pjl \
-	| powerpc | powerpc64 | powerpc64le | powerpcle | ppcbe \
+	| powerpc | powerpc64 | powerpc64le | powerpcle \
 	| pyramid \
-	| rx \
+	| rl78 | rx \
 	| score \
 	| sh | sh[1234] | sh[24]a | sh[24]aeb | sh[23]e | sh[34]eb | sheb | shbe | shle | sh[1234]le | sh3ele \
 	| sh64 | sh64le \
 	| sparc | sparc64 | sparc64b | sparc64v | sparc86x | sparclet | sparclite \
 	| sparcv8 | sparcv9 | sparcv9b | sparcv9v \
-	| spu | strongarm \
-	| tahoe | thumb | tic4x | tic80 | tron \
+	| spu \
+	| tahoe | tic4x | tic54x | tic55x | tic6x | tic80 | tron \
 	| ubicom32 \
-	| v850 | v850e \
+	| v850 | v850e | v850e1 | v850e2 | v850es | v850e2v3 \
 	| we32k \
-	| x86 | xc16x | xscale | xscalee[bl] | xstormy16 | xtensa \
+	| x86 | xc16x | xstormy16 | xtensa \
 	| z8k | z80)
 		basic_machine=$basic_machine-unknown
 		;;
-	m6811 | m68hc11 | m6812 | m68hc12 | picochip)
-		# Motorola 68HC11/12.
+	c54x)
+		basic_machine=tic54x-unknown
+		;;
+	c55x)
+		basic_machine=tic55x-unknown
+		;;
+	c6x)
+		basic_machine=tic6x-unknown
+		;;
+	m6811 | m68hc11 | m6812 | m68hc12 | m68hcs12x | picochip)
 		basic_machine=$basic_machine-unknown
 		os=-none
 		;;
@@ -313,6 +334,21 @@ case $basic_machine in
 		basic_machine=mt-unknown
 		;;
 
+	strongarm | thumb | xscale)
+		basic_machine=arm-unknown
+		;;
+	xgate)
+		basic_machine=$basic_machine-unknown
+		os=-none
+		;;
+	xscaleeb)
+		basic_machine=armeb-unknown
+		;;
+
+	xscaleel)
+		basic_machine=armel-unknown
+		;;
+
 	# We use `pc' rather than `unknown'
 	# because (1) that's what they normally are, and
 	# (2) the word "unknown" tends to confuse beginning users.
@@ -327,25 +363,30 @@ case $basic_machine in
 	# Recognize the basic CPU types with company name.
 	580-* \
 	| a29k-* \
+	| aarch64-* | aarch64_be-* \
 	| alpha-* | alphaev[4-8]-* | alphaev56-* | alphaev6[78]-* \
 	| alpha64-* | alpha64ev[4-8]-* | alpha64ev56-* | alpha64ev6[78]-* \
-	| alphapca5[67]-* | alpha64pca5[67]-* | arc-* \
+	| alphapca5[67]-* | alpha64pca5[67]-* | arc-* | arceb-* \
 	| arm-*  | armbe-* | armle-* | armeb-* | armv*-* \
 	| avr-* | avr32-* \
+	| be32-* | be64-* \
 	| bfin-* | bs2000-* \
-	| c[123]* | c30-* | [cjt]90-* | c4x-* | c54x-* | c55x-* | c6x-* \
-	| clipper-* | craynv-* | cydra-* \
+	| c[123]* | c30-* | [cjt]90-* | c4x-* \
+	| c8051-* | clipper-* | craynv-* | cydra-* \
 	| d10v-* | d30v-* | dlx-* \
 	| elxsi-* \
 	| f30[01]-* | f700-* | fido-* | fr30-* | frv-* | fx80-* \
 	| h8300-* | h8500-* \
 	| hppa-* | hppa1.[01]-* | hppa2.0-* | hppa2.0[nw]-* | hppa64-* \
+	| hexagon-* \
 	| i*86-* | i860-* | i960-* | ia64-* \
 	| ip2k-* | iq2000-* \
+	| le32-* | le64-* \
 	| lm32-* \
 	| m32c-* | m32r-* | m32rle-* \
 	| m68000-* | m680[012346]0-* | m68360-* | m683?2-* | m68k-* \
-	| m88110-* | m88k-* | maxq-* | mcore-* | metag-* | microblaze-* \
+	| m88110-* | m88k-* | maxq-* | mcore-* | metag-* \
+	| microblaze-* | microblazeel-* \
 	| mips-* | mipsbe-* | mipseb-* | mipsel-* | mipsle-* \
 	| mips16-* \
 	| mips64-* | mips64el-* \
@@ -363,29 +404,34 @@ case $basic_machine in
 	| mipsisa64r2-* | mipsisa64r2el-* \
 	| mipsisa64sb1-* | mipsisa64sb1el-* \
 	| mipsisa64sr71k-* | mipsisa64sr71kel-* \
+	| mipsr5900-* | mipsr5900el-* \
 	| mipstx39-* | mipstx39el-* \
 	| mmix-* \
 	| mt-* \
 	| msp430-* \
-	| nios-* | nios2-* \
+	| nds32-* | nds32le-* | nds32be-* \
+	| nios-* | nios2-* | nios2eb-* | nios2el-* \
 	| none-* | np1-* | ns16k-* | ns32k-* \
+	| open8-* \
 	| orion-* \
 	| pdp10-* | pdp11-* | pj-* | pjl-* | pn-* | power-* \
-	| powerpc-* | powerpc64-* | powerpc64le-* | powerpcle-* | ppcbe-* \
+	| powerpc-* | powerpc64-* | powerpc64le-* | powerpcle-* \
 	| pyramid-* \
-	| romp-* | rs6000-* | rx-* \
+	| rl78-* | romp-* | rs6000-* | rx-* \
 	| sh-* | sh[1234]-* | sh[24]a-* | sh[24]aeb-* | sh[23]e-* | sh[34]eb-* | sheb-* | shbe-* \
 	| shle-* | sh[1234]le-* | sh3ele-* | sh64-* | sh64le-* \
 	| sparc-* | sparc64-* | sparc64b-* | sparc64v-* | sparc86x-* | sparclet-* \
 	| sparclite-* \
-	| sparcv8-* | sparcv9-* | sparcv9b-* | sparcv9v-* | strongarm-* | sv1-* | sx?-* \
-	| tahoe-* | thumb-* \
-	| tic30-* | tic4x-* | tic54x-* | tic55x-* | tic6x-* | tic80-* | tile-* \
+	| sparcv8-* | sparcv9-* | sparcv9b-* | sparcv9v-* | sv1-* | sx?-* \
+	| tahoe-* \
+	| tic30-* | tic4x-* | tic54x-* | tic55x-* | tic6x-* | tic80-* \
+	| tile*-* \
 	| tron-* \
 	| ubicom32-* \
-	| v850-* | v850e-* | vax-* \
+	| v850-* | v850e-* | v850e1-* | v850es-* | v850e2-* | v850e2v3-* \
+	| vax-* \
 	| we32k-* \
-	| x86-* | x86_64-* | xc16x-* | xps100-* | xscale-* | xscalee[bl]-* \
+	| x86-* | x86_64-* | xc16x-* | xps100-* \
 	| xstormy16-* | xtensa*-* \
 	| ymp-* \
 	| z8k-* | z80-*)
@@ -410,7 +456,7 @@ case $basic_machine in
 		basic_machine=a29k-amd
 		os=-udi
 		;;
-    	abacus)
+	abacus)
 		basic_machine=abacus-unknown
 		;;
 	adobe68k)
@@ -480,11 +526,20 @@ case $basic_machine in
 		basic_machine=powerpc-ibm
 		os=-cnk
 		;;
+	c54x-*)
+		basic_machine=tic54x-`echo $basic_machine | sed 's/^[^-]*-//'`
+		;;
+	c55x-*)
+		basic_machine=tic55x-`echo $basic_machine | sed 's/^[^-]*-//'`
+		;;
+	c6x-*)
+		basic_machine=tic6x-`echo $basic_machine | sed 's/^[^-]*-//'`
+		;;
 	c90)
 		basic_machine=c90-cray
 		os=-unicos
 		;;
-        cegcc)
+	cegcc)
 		basic_machine=arm-unknown
 		os=-cegcc
 		;;
@@ -516,7 +571,7 @@ case $basic_machine in
 		basic_machine=craynv-cray
 		os=-unicosmp
 		;;
-	cr16)
+	cr16 | cr16-*)
 		basic_machine=cr16-unknown
 		os=-elf
 		;;
@@ -674,7 +729,6 @@ case $basic_machine in
 	i370-ibm* | ibm*)
 		basic_machine=i370-ibm
 		;;
-# I'm not sure what "Sysv32" means.  Should this be sysv3.2?
 	i*86v32)
 		basic_machine=`echo $1 | sed -e 's/86.*/86-pc/'`
 		os=-sysv32
@@ -732,11 +786,15 @@ case $basic_machine in
 		basic_machine=ns32k-utek
 		os=-sysv
 		;;
-        microblaze)
+	microblaze*)
 		basic_machine=microblaze-xilinx
 		;;
+	mingw64)
+		basic_machine=x86_64-pc
+		os=-mingw64
+		;;
 	mingw32)
-		basic_machine=i386-pc
+		basic_machine=i686-pc
 		os=-mingw32
 		;;
 	mingw32ce)
@@ -771,10 +829,18 @@ case $basic_machine in
 	ms1-*)
 		basic_machine=`echo $basic_machine | sed -e 's/ms1-/mt-/'`
 		;;
+	msys)
+		basic_machine=i686-pc
+		os=-msys
+		;;
 	mvs)
 		basic_machine=i370-ibm
 		os=-mvs
 		;;
+	nacl)
+		basic_machine=le32-unknown
+		os=-nacl
+		;;
 	ncr3000)
 		basic_machine=i486-ncr
 		os=-sysv4
@@ -839,6 +905,12 @@ case $basic_machine in
 	np1)
 		basic_machine=np1-gould
 		;;
+	neo-tandem)
+		basic_machine=neo-tandem
+		;;
+	nse-tandem)
+		basic_machine=nse-tandem
+		;;
 	nsr-tandem)
 		basic_machine=nsr-tandem
 		;;
@@ -921,9 +993,10 @@ case $basic_machine in
 		;;
 	power)	basic_machine=power-ibm
 		;;
-	ppc)	basic_machine=powerpc-unknown
+	ppc | ppcbe)	basic_machine=powerpc-unknown
 		;;
-	ppc-*)	basic_machine=powerpc-`echo $basic_machine | sed 's/^[^-]*-//'`
+	ppc-* | ppcbe-*)
+		basic_machine=powerpc-`echo $basic_machine | sed 's/^[^-]*-//'`
 		;;
 	ppcle | powerpclittle | ppc-le | powerpc-little)
 		basic_machine=powerpcle-unknown
@@ -933,7 +1006,7 @@ case $basic_machine in
 		;;
 	ppc64)	basic_machine=powerpc64-unknown
 		;;
-	ppc64-*) basic_machine=powerpc64-`echo $basic_machine | sed 's/^[^-]*-//'`
+	ppc64-* | ppc64p7-*) basic_machine=powerpc64-`echo $basic_machine | sed 's/^[^-]*-//'`
 		;;
 	ppc64le | powerpc64little | ppc64-le | powerpc64-little)
 		basic_machine=powerpc64le-unknown
@@ -948,7 +1021,11 @@ case $basic_machine in
 		basic_machine=i586-unknown
 		os=-pw32
 		;;
-	rdos)
+	rdos | rdos64)
+		basic_machine=x86_64-pc
+		os=-rdos
+		;;
+	rdos32)
 		basic_machine=i386-pc
 		os=-rdos
 		;;
@@ -1017,6 +1094,9 @@ case $basic_machine in
 		basic_machine=i860-stratus
 		os=-sysv4
 		;;
+	strongarm-* | thumb-*)
+		basic_machine=arm-`echo $basic_machine | sed 's/^[^-]*-//'`
+		;;
 	sun2)
 		basic_machine=m68000-sun
 		;;
@@ -1073,20 +1153,8 @@ case $basic_machine in
 		basic_machine=t90-cray
 		os=-unicos
 		;;
-	tic54x | c54x*)
-		basic_machine=tic54x-unknown
-		os=-coff
-		;;
-	tic55x | c55x*)
-		basic_machine=tic55x-unknown
-		os=-coff
-		;;
-	tic6x | c6x*)
-		basic_machine=tic6x-unknown
-		os=-coff
-		;;
 	tile*)
-		basic_machine=tile-unknown
+		basic_machine=$basic_machine-unknown
 		os=-linux-gnu
 		;;
 	tx39)
@@ -1156,6 +1224,9 @@ case $basic_machine in
 	xps | xps100)
 		basic_machine=xps100-honeywell
 		;;
+	xscale-* | xscalee[bl]-*)
+		basic_machine=`echo $basic_machine | sed 's/^xscale/arm/'`
+		;;
 	ymp)
 		basic_machine=ymp-cray
 		os=-unicos
@@ -1253,11 +1324,11 @@ esac
 if [ x"$os" != x"" ]
 then
 case $os in
-        # First match some system type aliases
-        # that might get confused with valid system types.
+	# First match some system type aliases
+	# that might get confused with valid system types.
 	# -solaris* is a basic system type, with this one exception.
-        -auroraux)
-	        os=-auroraux
+	-auroraux)
+		os=-auroraux
 		;;
 	-solaris1 | -solaris1.*)
 		os=`echo $os | sed -e 's|solaris1|sunos4|'`
@@ -1281,20 +1352,21 @@ case $os in
 	-gnu* | -bsd* | -mach* | -minix* | -genix* | -ultrix* | -irix* \
 	      | -*vms* | -sco* | -esix* | -isc* | -aix* | -cnk* | -sunos | -sunos[34]*\
 	      | -hpux* | -unos* | -osf* | -luna* | -dgux* | -auroraux* | -solaris* \
-	      | -sym* | -kopensolaris* \
+	      | -sym* | -kopensolaris* | -plan9* \
 	      | -amigaos* | -amigados* | -msdos* | -newsos* | -unicos* | -aof* \
 	      | -aos* | -aros* \
 	      | -nindy* | -vxsim* | -vxworks* | -ebmon* | -hms* | -mvs* \
 	      | -clix* | -riscos* | -uniplus* | -iris* | -rtu* | -xenix* \
 	      | -hiux* | -386bsd* | -knetbsd* | -mirbsd* | -netbsd* \
-	      | -openbsd* | -solidbsd* \
+	      | -bitrig* | -openbsd* | -solidbsd* \
 	      | -ekkobsd* | -kfreebsd* | -freebsd* | -riscix* | -lynxos* \
 	      | -bosx* | -nextstep* | -cxux* | -aout* | -elf* | -oabi* \
 	      | -ptx* | -coff* | -ecoff* | -winnt* | -domain* | -vsta* \
 	      | -udi* | -eabi* | -lites* | -ieee* | -go32* | -aux* \
 	      | -chorusos* | -chorusrdb* | -cegcc* \
-	      | -cygwin* | -pe* | -psos* | -moss* | -proelf* | -rtems* \
-	      | -mingw32* | -linux-gnu* | -linux-newlib* | -linux-uclibc* \
+	      | -cygwin* | -msys* | -pe* | -psos* | -moss* | -proelf* | -rtems* \
+	      | -mingw32* | -mingw64* | -linux-gnu* | -linux-android* \
+	      | -linux-newlib* | -linux-musl* | -linux-uclibc* \
 	      | -uxpv* | -beos* | -mpeix* | -udk* \
 	      | -interix* | -uwin* | -mks* | -rhapsody* | -darwin* | -opened* \
 	      | -openstep* | -oskit* | -conix* | -pw32* | -nonstopux* \
@@ -1341,7 +1413,7 @@ case $os in
 	-opened*)
 		os=-openedition
 		;;
-        -os400*)
+	-os400*)
 		os=-os400
 		;;
 	-wince*)
@@ -1390,7 +1462,7 @@ case $os in
 	-sinix*)
 		os=-sysv4
 		;;
-        -tpf*)
+	-tpf*)
 		os=-tpf
 		;;
 	-triton*)
@@ -1426,15 +1498,14 @@ case $os in
 	-aros*)
 		os=-aros
 		;;
-	-kaos*)
-		os=-kaos
-		;;
 	-zvmoe)
 		os=-zvmoe
 		;;
 	-dicos*)
 		os=-dicos
 		;;
+	-nacl*)
+		;;
 	-none)
 		;;
 	*)
@@ -1457,10 +1528,10 @@ else
 # system, and we'll never get to this point.
 
 case $basic_machine in
-        score-*)
+	score-*)
 		os=-elf
 		;;
-        spu-*)
+	spu-*)
 		os=-elf
 		;;
 	*-acorn)
@@ -1472,8 +1543,23 @@ case $basic_machine in
 	arm*-semi)
 		os=-aout
 		;;
-        c4x-* | tic4x-*)
-        	os=-coff
+	c4x-* | tic4x-*)
+		os=-coff
+		;;
+	c8051-*)
+		os=-elf
+		;;
+	hexagon-*)
+		os=-elf
+		;;
+	tic54x-*)
+		os=-coff
+		;;
+	tic55x-*)
+		os=-coff
+		;;
+	tic6x-*)
+		os=-coff
 		;;
 	# This must come before the *-dec entry.
 	pdp10-*)
@@ -1493,14 +1579,11 @@ case $basic_machine in
 		;;
 	m68000-sun)
 		os=-sunos3
-		# This also exists in the configure program, but was not the
-		# default.
-		# os=-sunos4
 		;;
 	m68*-cisco)
 		os=-aout
 		;;
-        mep-*)
+	mep-*)
 		os=-elf
 		;;
 	mips*-cisco)
@@ -1509,6 +1592,9 @@ case $basic_machine in
 	mips*-*)
 		os=-elf
 		;;
+	or1k-*)
+		os=-elf
+		;;
 	or32-*)
 		os=-coff
 		;;
@@ -1527,7 +1613,7 @@ case $basic_machine in
 	*-ibm)
 		os=-aix
 		;;
-    	*-knuth)
+	*-knuth)
 		os=-mmixware
 		;;
 	*-wec)
diff --git a/build/linux/install-sh.dist b/build/linux/install-sh.dist
index a5897de..a9244eb 100755
--- a/build/linux/install-sh.dist
+++ b/build/linux/install-sh.dist
@@ -1,7 +1,7 @@
 #!/bin/sh
 # install - install a program, script, or datafile
 
-scriptversion=2006-12-25.00
+scriptversion=2011-01-19.21; # UTC
 
 # This originates from X11R5 (mit/util/scripts/install.sh), which was
 # later released in X11R6 (xc/config/util/install.sh) with the
@@ -156,6 +156,10 @@ while test $# -ne 0; do
     -s) stripcmd=$stripprog;;
 
     -t) dst_arg=$2
+	# Protect names problematic for `test' and other utilities.
+	case $dst_arg in
+	  -* | [=\(\)!]) dst_arg=./$dst_arg;;
+	esac
 	shift;;
 
     -T) no_target_directory=true;;
@@ -186,6 +190,10 @@ if test $# -ne 0 && test -z "$dir_arg$dst_arg"; then
     fi
     shift # arg
     dst_arg=$arg
+    # Protect names problematic for `test' and other utilities.
+    case $dst_arg in
+      -* | [=\(\)!]) dst_arg=./$dst_arg;;
+    esac
   done
 fi
 
@@ -200,7 +208,11 @@ if test $# -eq 0; then
 fi
 
 if test -z "$dir_arg"; then
-  trap '(exit $?); exit' 1 2 13 15
+  do_exit='(exit $ret); exit $ret'
+  trap "ret=129; $do_exit" 1
+  trap "ret=130; $do_exit" 2
+  trap "ret=141; $do_exit" 13
+  trap "ret=143; $do_exit" 15
 
   # Set umask so as not to create temps with too-generous modes.
   # However, 'strip' requires both read and write access to temps.
@@ -228,9 +240,9 @@ fi
 
 for src
 do
-  # Protect names starting with `-'.
+  # Protect names problematic for `test' and other utilities.
   case $src in
-    -*) src=./$src;;
+    -* | [=\(\)!]) src=./$src;;
   esac
 
   if test -n "$dir_arg"; then
@@ -252,12 +264,7 @@ do
       echo "$0: no destination specified." >&2
       exit 1
     fi
-
     dst=$dst_arg
-    # Protect names starting with `-'.
-    case $dst in
-      -*) dst=./$dst;;
-    esac
 
     # If destination is a directory, append the input filename; won't work
     # if double slashes aren't ignored.
@@ -385,7 +392,7 @@ do
 
       case $dstdir in
 	/*) prefix='/';;
-	-*) prefix='./';;
+	[-=\(\)!]*) prefix='./';;
 	*)  prefix='';;
       esac
 
@@ -403,7 +410,7 @@ do
 
       for d
       do
-	test -z "$d" && continue
+	test X"$d" = X && continue
 
 	prefix=$prefix$d
 	if test -d "$prefix"; then
@@ -515,5 +522,6 @@ done
 # eval: (add-hook 'write-file-hooks 'time-stamp)
 # time-stamp-start: "scriptversion="
 # time-stamp-format: "%:y-%02m-%02d.%02H"
-# time-stamp-end: "$"
+# time-stamp-time-zone: "UTC"
+# time-stamp-end: "; # UTC"
 # End:
-- 
cgit v1.2.3


From 7a4cfe2e5fe384691f0516020b2fcd48b35a7f63 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 27 May 2015 11:54:15 +0200
Subject: Increment version to 1.6

---
 build/linux/configure.ac | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/configure.ac b/build/linux/configure.ac
index 58a3f4c..7c314f3 100644
--- a/build/linux/configure.ac
+++ b/build/linux/configure.ac
@@ -24,7 +24,7 @@ dnl
 dnl -----------------------------------------------------------------------
 dnl $Id$
 
-AC_INIT(astra_toolbox, 1.5.0)
+AC_INIT(astra_toolbox, 1.6.0)
 AC_CONFIG_SRCDIR([Makefile.in])
 LT_INIT([disable-static])
 
-- 
cgit v1.2.3


From 18b6d25f7e4f0943b3592f3bb4f6ca5ed9c285d3 Mon Sep 17 00:00:00 2001
From: "Daniel M. Pelt" <D.M.Pelt@cwi.nl>
Date: Fri, 19 Jun 2015 22:28:06 +0200
Subject: Add support for Python algorithm plugins

---
 build/linux/Makefile.in | 16 +++++++++++++---
 1 file changed, 13 insertions(+), 3 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 2d862f2..e209fa7 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -50,11 +50,17 @@ LDFLAGS+=-fopenmp
 endif
 
 ifeq ($(python),yes)
-PYCPPFLAGS  = ${CPPFLAGS}
+PYTHON      = @PYTHON@
+PYLIBDIR = $(shell $(PYTHON) -c 'from distutils.sysconfig import get_config_var; import six; six.print_(get_config_var("LIBDIR"))')
+PYINCDIR = $(shell $(PYTHON) -c 'from distutils.sysconfig import get_python_inc; import six; six.print_(get_python_inc())')
+PYLIBVER = `basename $(PYINCDIR)`
+CPPFLAGS += -DASTRA_PYTHON -I$(PYINCDIR)
+PYCPPFLAGS  = $(CPPFLAGS)
 PYCPPFLAGS  += -I../include
-PYLDFLAGS = ${LDFLAGS}
+PYLDFLAGS = $(LDFLAGS)
 PYLDFLAGS   += -L../build/linux/.libs
-PYTHON      = @PYTHON@
+LIBS		+= -l$(PYLIBVER)
+LDFLAGS += -L$(PYLIBDIR)
 endif
 
 BOOST_CPPFLAGS=
@@ -234,6 +240,10 @@ MATLAB_MEX=\
 	matlab/mex/astra_mex_log_c.$(MEXSUFFIX) \
 	matlab/mex/astra_mex_data3d_c.$(MEXSUFFIX)
 
+ifeq ($(python),yes)
+ALL_OBJECTS+=src/PluginAlgorithm.lo
+MATLAB_MEX+=matlab/mex/astra_mex_plugin_c.$(MEXSUFFIX)
+endif
 
 OBJECT_DIRS = src/ tests/ cuda/2d/ cuda/3d/ matlab/mex/ ./
 DEPDIRS = $(addsuffix $(DEPDIR),$(OBJECT_DIRS))
-- 
cgit v1.2.3


From 1cc67c1e4d9b6b24c096f52d6f086a3f224ece8a Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 7 Oct 2015 17:29:20 +0200
Subject: Add astra_mex_direct('FP3D'/'BP3D', ...)

---
 build/linux/Makefile.in | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 2d862f2..abbebe2 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -232,7 +232,8 @@ MATLAB_MEX=\
 	matlab/mex/astra_mex_projector_c.$(MEXSUFFIX) \
 	matlab/mex/astra_mex_projector3d_c.$(MEXSUFFIX) \
 	matlab/mex/astra_mex_log_c.$(MEXSUFFIX) \
-	matlab/mex/astra_mex_data3d_c.$(MEXSUFFIX)
+	matlab/mex/astra_mex_data3d_c.$(MEXSUFFIX) \
+	matlab/mex/astra_mex_direct_c.$(MEXSUFFIX)
 
 
 OBJECT_DIRS = src/ tests/ cuda/2d/ cuda/3d/ matlab/mex/ ./
-- 
cgit v1.2.3


From b14fb531ad9ae3d565f2cf28f5506408ab10dbed Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 18 Nov 2015 11:26:15 +0100
Subject: Add CompositeGeometryManager

This handles FP and BP operations on multiple data objects at once,
splitting them to fit in GPU memory where necessary.
---
 build/linux/Makefile.in | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index abbebe2..c555bca 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -99,6 +99,7 @@ BASE_OBJECTS=\
 	src/AstraObjectManager.lo \
 	src/BackProjectionAlgorithm.lo \
 	src/CglsAlgorithm.lo \
+	src/CompositeGeometryManager.lo \
 	src/ConeProjectionGeometry3D.lo \
 	src/ConeVecProjectionGeometry3D.lo \
 	src/Config.lo \
@@ -197,7 +198,8 @@ CUDA_OBJECTS=\
 	cuda/3d/sirt3d.lo \
 	cuda/3d/astra3d.lo \
 	cuda/3d/util3d.lo \
-	cuda/3d/arith3d.lo
+	cuda/3d/arith3d.lo \
+	cuda/3d/mem3d.lo
 
 ALL_OBJECTS=$(BASE_OBJECTS)
 ifeq ($(cuda),yes)
-- 
cgit v1.2.3


From b7c5deba2182514ffd6af61bac65ec9e0c0ebfd7 Mon Sep 17 00:00:00 2001
From: "Daniel M. Pelt" <D.M.Pelt@cwi.nl>
Date: Wed, 10 Jun 2015 12:45:52 -0500
Subject: Add conda build scripts

---
 build/linux/Makefile.in | 4 ++++
 1 file changed, 4 insertions(+)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 0361e97..8eb5ffe 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -266,6 +266,10 @@ py: libastra.la
 	cd ../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py install \
 	--install-base=./finalbuild --install-headers=./finalbuild --install-purelib=./finalbuild \
 	--install-platlib=./finalbuild --install-scripts=./finalbuild --install-data=./finalbuild
+
+python-root-install: libastra.la
+	cd ../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py install
+
 endif
 
 
-- 
cgit v1.2.3


From 8603f9a768c99b18eb74aff13a015fc60fa57ea6 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Fri, 4 Dec 2015 16:20:35 +0100
Subject: Update version to 1.7

---
 build/linux/configure.ac | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/configure.ac b/build/linux/configure.ac
index 7c314f3..38c2946 100644
--- a/build/linux/configure.ac
+++ b/build/linux/configure.ac
@@ -24,7 +24,7 @@ dnl
 dnl -----------------------------------------------------------------------
 dnl $Id$
 
-AC_INIT(astra_toolbox, 1.6.0)
+AC_INIT(astra_toolbox, 1.7.0)
 AC_CONFIG_SRCDIR([Makefile.in])
 LT_INIT([disable-static])
 
-- 
cgit v1.2.3


From 3aabe41914a93d4c9afbc1a6cc498156924cbf18 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 23 Dec 2015 10:47:37 +0100
Subject: Update version to 1.7.1

---
 build/linux/configure.ac | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/configure.ac b/build/linux/configure.ac
index 38c2946..85e4324 100644
--- a/build/linux/configure.ac
+++ b/build/linux/configure.ac
@@ -24,7 +24,7 @@ dnl
 dnl -----------------------------------------------------------------------
 dnl $Id$
 
-AC_INIT(astra_toolbox, 1.7.0)
+AC_INIT(astra_toolbox, 1.7.1)
 AC_CONFIG_SRCDIR([Makefile.in])
 LT_INIT([disable-static])
 
-- 
cgit v1.2.3


From fc86917da1a175c04e9bd2e5f0bedb0a48a81c26 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Thu, 17 Dec 2015 14:37:41 +0100
Subject: Replace boost::lexical_cast by stringstreams

This is to avoid the dependence of lexical_cast on the current locale.
The stringstreams used for the new string parsing/output functions
are explicitly imbued with the C/classic locale.
---
 build/linux/configure.ac | 1 -
 1 file changed, 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/configure.ac b/build/linux/configure.ac
index 85e4324..9b6f7ab 100644
--- a/build/linux/configure.ac
+++ b/build/linux/configure.ac
@@ -73,7 +73,6 @@ AC_SUBST(HAVEBOOSTUTF)
 AC_SUBST(LIBS_BOOSTUTF)
 
 BOOSTok=yes
-AC_CHECK_HEADER([boost/lexical_cast.hpp],[],[BOOSTok=no],[])
 AC_CHECK_HEADER([boost/any.hpp],[],[BOOSTok=no],[])
 dnl AC_CHECK_HEADER([boost/thread.hpp],[],[BOOSTok=no],[])
 dnl AC_CHECK_HEADER([boost/bind.hpp],[],[BOOSTok=no],[])
-- 
cgit v1.2.3


From 34bab2b0caa6ee955d5d2f7882a6cd36cf142536 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Mon, 18 Jan 2016 17:29:58 +0100
Subject: Allow user to pass NVCCFLAGS to configure

---
 build/linux/Makefile.in  | 3 ++-
 build/linux/acinclude.m4 | 6 +++---
 build/linux/configure.ac | 9 +++++----
 3 files changed, 10 insertions(+), 8 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 8eb5ffe..01ef527 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -25,6 +25,7 @@ VPATH=../..
 
 CPPFLAGS=@SAVED_CPPFLAGS@
 CXXFLAGS=@SAVED_CXXFLAGS@
+NVCCFLAGS=@SAVED_NVCCFLAGS@
 LDFLAGS=@SAVED_LDFLAGS@
 LIBS=@SAVED_LIBS@
 
@@ -37,7 +38,7 @@ CPPFLAGS+=@CPPFLAGS_OS@
 
 ifeq ($(cuda),yes)
 CPPFLAGS  += @CPPFLAGS_CUDA@ -DASTRA_CUDA
-NVCCFLAGS  = @NVCCFLAGS@ @CPPFLAGS_CUDA@ -I../.. -I../../include -DASTRA_CUDA
+NVCCFLAGS += @NVCCFLAGS_EXTRA@ @CPPFLAGS_CUDA@ -I../.. -I../../include -DASTRA_CUDA
 LDFLAGS   += @LDFLAGS_CUDA@
 LIBS      += -lcudart -lcufft
 NVCC       = @NVCC@
diff --git a/build/linux/acinclude.m4 b/build/linux/acinclude.m4
index e4b6de7..d6866c3 100644
--- a/build/linux/acinclude.m4
+++ b/build/linux/acinclude.m4
@@ -93,13 +93,13 @@ int main() {
 }
 _ACEOF
 $1="yes"
-ASTRA_RUN_STOREOUTPUT([$NVCC -c -o conftest.o conftest.cu $$2],conftest.nvcc.out) || {
+ASTRA_RUN_STOREOUTPUT([$NVCC -c -o conftest.o conftest.cu $NVCCFLAGS $$2],conftest.nvcc.out) || {
   $1="no"
   # Check if hack for gcc 4.4 helps
   if grep -q __builtin_stdarg_start conftest.nvcc.out; then
     AS_ECHO(["$as_me:${as_lineno-$LINENO}: Trying CUDA hack for gcc 4.4"]) >&AS_MESSAGE_LOG_FD
     NVCC_OPT="-Xcompiler -D__builtin_stdarg_start=__builtin_va_start"
-    ASTRA_RUN_LOGOUTPUT([$NVCC -c -o conftest.o conftest.cu $$2 $NVCC_OPT]) && {
+    ASTRA_RUN_LOGOUTPUT([$NVCC -c -o conftest.o conftest.cu $NVCCFLAGS $$2 $NVCC_OPT]) && {
       $1="yes"
       $2="$$2 $NVCC_OPT"
     }
@@ -133,7 +133,7 @@ IFS=,
 for arch in $1; do
   IFS=$astra_save_IFS
   NVCC_opt="-gencode=arch=compute_$arch,code=sm_$arch"
-  $NVCC -c -o conftest.o conftest.cu $$2 $NVCC_opt >conftest.nvcc.out 2>&1 && {
+  $NVCC -c -o conftest.o conftest.cu $NVCCFLAGS $$2 $NVCC_opt >conftest.nvcc.out 2>&1 && {
     NVCC_lastarch=$arch
     NVCC_extra="$NVCC_extra $NVCC_opt"
     NVCC_list="${NVCC_list:+$NVCC_list, }$arch"
diff --git a/build/linux/configure.ac b/build/linux/configure.ac
index 85e4324..487a8cc 100644
--- a/build/linux/configure.ac
+++ b/build/linux/configure.ac
@@ -30,6 +30,7 @@ LT_INIT([disable-static])
 
 SAVED_CPPFLAGS="$CPPFLAGS"
 SAVED_CXXFLAGS="$CXXFLAGS"
+SAVED_NVCCFLAGS="$NVCCFLAGS"
 SAVED_LDFLAGS="$LDFLAGS"
 SAVED_LIBS="$LIBS"
 
@@ -124,10 +125,9 @@ if test x"$NVCC" != xno; then
   AC_SUBST(NVCC)
 fi
 
-NVCCFLAGS=""
 if test x"$HAVECUDA" = xyes; then
   AC_MSG_CHECKING([if nvcc works])
-  ASTRA_CHECK_NVCC(HAVECUDA,NVCCFLAGS)
+  ASTRA_CHECK_NVCC(HAVECUDA,NVCCFLAGS_EXTRA)
   AC_MSG_RESULT($HAVECUDA)
 fi
 
@@ -138,7 +138,7 @@ if test x"$HAVECUDA" = xyes; then
   if test x"$with_cuda_compute" = x; then
     with_cuda_compute="10,12,20,30,35,50"
   fi
-  ASTRA_FIND_NVCC_ARCHS([$with_cuda_compute],NVCCFLAGS,NVCCARCHS)
+  ASTRA_FIND_NVCC_ARCHS([$with_cuda_compute],NVCCFLAGS_EXTRA,NVCCARCHS)
   AC_MSG_RESULT([$NVCCARCHS])
 fi
 
@@ -146,7 +146,7 @@ fi
 AC_SUBST(HAVECUDA)
 AC_SUBST(LDFLAGS_CUDA)
 AC_SUBST(CPPFLAGS_CUDA)
-AC_SUBST(NVCCFLAGS)
+AC_SUBST(NVCCFLAGS_EXTRA)
 
 
 # mex, matlab
@@ -249,6 +249,7 @@ AC_SUBST(CPPFLAGS_OS)
 
 AC_SUBST(SAVED_CPPFLAGS)
 AC_SUBST(SAVED_CXXFLAGS)
+AC_SUBST(SAVED_NVCCFLAGS)
 AC_SUBST(SAVED_LDFLAGS)
 AC_SUBST(SAVED_LIBS)
 AC_CONFIG_FILES([Makefile])
-- 
cgit v1.2.3


From eee5fe536591e96af67ad4bcd417d6c8b89e26bb Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Tue, 19 Jan 2016 14:25:03 +0100
Subject: Allow out-of-tree builds

---
 build/linux/Makefile.in | 67 +++++++++++++++++++++++++++----------------------
 1 file changed, 37 insertions(+), 30 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 01ef527..90f8801 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -21,7 +21,10 @@ all: $(TARGETS)
 prefix=@prefix@
 exec_prefix=@exec_prefix@
 
-VPATH=../..
+srcdir=@srcdir@
+abs_top_builddir=@abs_top_builddir@
+
+VPATH=$(srcdir)/../..
 
 CPPFLAGS=@SAVED_CPPFLAGS@
 CXXFLAGS=@SAVED_CXXFLAGS@
@@ -29,7 +32,7 @@ NVCCFLAGS=@SAVED_NVCCFLAGS@
 LDFLAGS=@SAVED_LDFLAGS@
 LIBS=@SAVED_LIBS@
 
-CPPFLAGS+=-I../.. -I../../include -I../../lib/include
+CPPFLAGS+=-I$(srcdir)/../.. -I$(srcdir)/../../include -I$(srcdir)/../../lib/include
 CXXFLAGS+=-g -O3 -Wall -Wshadow
 LIBS+=-lpthread
 LDFLAGS+=-g
@@ -38,7 +41,7 @@ CPPFLAGS+=@CPPFLAGS_OS@
 
 ifeq ($(cuda),yes)
 CPPFLAGS  += @CPPFLAGS_CUDA@ -DASTRA_CUDA
-NVCCFLAGS += @NVCCFLAGS_EXTRA@ @CPPFLAGS_CUDA@ -I../.. -I../../include -DASTRA_CUDA
+NVCCFLAGS += @NVCCFLAGS_EXTRA@ @CPPFLAGS_CUDA@ -I$(srcdir)/../.. -I$(srcdir)/../../include -DASTRA_CUDA
 LDFLAGS   += @LDFLAGS_CUDA@
 LIBS      += -lcudart -lcufft
 NVCC       = @NVCC@
@@ -59,7 +62,7 @@ CPPFLAGS += -DASTRA_PYTHON -I$(PYINCDIR)
 PYCPPFLAGS  = $(CPPFLAGS)
 PYCPPFLAGS  += -I../include
 PYLDFLAGS = $(LDFLAGS)
-PYLDFLAGS   += -L../build/linux/.libs
+PYLDFLAGS   += -L$(abs_top_builddir)/.libs
 LIBS		+= -l$(PYLIBVER)
 LDFLAGS += -L$(PYLIBDIR)
 endif
@@ -78,6 +81,7 @@ MKDIR=mkdir -p
 CXX=@CXX@
 LD=@CXX@
 SHELL=@SHELL@
+INSTALL_SH=$(SHELL) $(srcdir)/install-sh
 
 ifeq ($(matlab),yes)
 MEXFLAGS  = -cxx
@@ -264,12 +268,12 @@ endif
 
 ifeq ($(python),yes)
 py: libastra.la
-	cd ../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py install \
+	cd $(srcdir)/../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py install \
 	--install-base=./finalbuild --install-headers=./finalbuild --install-purelib=./finalbuild \
 	--install-platlib=./finalbuild --install-scripts=./finalbuild --install-data=./finalbuild
 
 python-root-install: libastra.la
-	cd ../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py install
+	cd $(srcdir)/../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py install
 
 endif
 
@@ -331,33 +335,33 @@ clean:
 	rm -f $(addsuffix /*.d,$(DEPDIRS))
 	rm -f $(addsuffix /*,$(LIBDIRS))
 	rm -f $(TEST_OBJECTS) test.bin
-	rm -fr ../../python/finalbuild/
-	rm -fr ../../python/build/
-	rm -f ../../python/astra/*.cpp
-	rm -f ../../python/astra/*.c
+	rm -fr $(srcdir)/../../python/finalbuild/
+	rm -fr $(srcdir)/../../python/build/
+	rm -f $(srcdir)/../../python/astra/*.cpp
+	rm -f $(srcdir)/../../python/astra/*.c
 
 distclean: clean
-	rm -f config.guess config.sub ltmain.sh libtool install-sh
+	rm -f $(srcdir)/config.guess $(srcdir)/config.sub $(srcdir)/ltmain.sh libtool $(srcdir)/install-sh
 	rm -f config.log config.status
-	rm -f aclocal.m4
-	rm -rf autom4te.cache
-	rm -f configure Makefile
+	rm -f $(srcdir)/aclocal.m4
+	rm -rf $(srcdir)/autom4te.cache
+	rm -f $(srcdir)/configure Makefile
 
 install: install-libraries install-matlab install-python
 
 install-libraries: libastra.la
-	./install-sh -m 755 -d @libdir@
-	./libtool --mode=install ./install-sh -m 644 libastra.la @libdir@
+	$(INSTALL_SH) -m 755 -d @libdir@
+	./libtool --mode=install $(INSTALL_SH) -m 644 libastra.la @libdir@
 	./libtool --mode=finish @libdir@
 
 ifeq ($(matlab),yes)
 # TODO: This install location doesn't work well for /usr or /usr/local
 install-matlab: $(MATLAB_MEX)
-	./install-sh -m 755 -d @prefix@/matlab
-	./install-sh -m 755 -d @prefix@/matlab/mex
-	./install-sh -m 755 -d @prefix@/matlab/tools
-	./install-sh -m 644 $(MATLAB_MEX) @prefix@/matlab/mex
-	./install-sh -m 644 ../../matlab/tools/*.m @prefix@/matlab/tools
+	$(INSTALL_SH) -m 755 -d @prefix@/matlab
+	$(INSTALL_SH) -m 755 -d @prefix@/matlab/mex
+	$(INSTALL_SH) -m 755 -d @prefix@/matlab/tools
+	$(INSTALL_SH) -m 644 $(MATLAB_MEX) @prefix@/matlab/mex
+	$(INSTALL_SH) -m 644 $(srcdir)/../../matlab/tools/*.m @prefix@/matlab/tools
 # TODO: docs
 else
 install-matlab:
@@ -366,11 +370,11 @@ endif
 ifeq ($(python),yes)
 # TODO: This install location doesn't work well for /usr or /usr/local
 install-python: py
-	./install-sh -m 755 -d @prefix@/python
-	./install-sh -m 755 -d @prefix@/python/astra
-	./install-sh -m 644 ../../python/finalbuild/astra/*.so @prefix@/python/astra
-	./install-sh -m 644 ../../python/finalbuild/astra/*.py @prefix@/python/astra
-	./install-sh -m 644 ../../python/finalbuild/*.egg-info @prefix@/python/
+	$(INSTALL_SH) -m 755 -d @prefix@/python
+	$(INSTALL_SH) -m 755 -d @prefix@/python/astra
+	$(INSTALL_SH) -m 644 $(srcdir)/../../python/finalbuild/astra/*.so @prefix@/python/astra
+	$(INSTALL_SH) -m 644 $(srcdir)/../../python/finalbuild/astra/*.py @prefix@/python/astra
+	$(INSTALL_SH) -m 644 $(srcdir)/../../python/finalbuild/*.egg-info @prefix@/python/
 	@echo "++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++"
 	@echo "To use ASTRA in Python, add @prefix@/python/ to your PYTHONPATH"
 	@echo "and @libdir@ to your LD_LIBRARY_PATH."
@@ -381,18 +385,21 @@ install-python:
 endif
 
 
-Makefile: Makefile.in config.status
+Makefile: $(srcdir)/Makefile.in config.status
 	CONFIG_HEADERS= CONFIG_LINKS= CONFIG_FILES=$@ $(SHELL) ./config.status
 
-config.status: configure
+config.status: $(srcdir)/configure
 	@echo "configure script has changed. Re-running it with last parameters"
 	$(SHELL) ./config.status --recheck
 
-configure: configure.ac
+$(srcdir)/configure: $(srcdir)/configure.ac
 	@echo "configure.ac has been changed. Regenerating configure script"
-	$(SHELL) ./autogen.sh
+	cd $(srcdir) && $(SHELL) ./autogen.sh
 
 .PHONY: all mex test clean distclean install install-libraries
 
 # don't remove intermediate files:
 .SECONDARY:
+
+# disable all implicit built-in rules
+.SUFFIXES:
-- 
cgit v1.2.3


From 61d95e4d4cabcc1da959ccf68588895862ec64c5 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Tue, 19 Jan 2016 15:54:08 +0100
Subject: Place Python build/temporary files in build directory

This also allows out-of-tree builds for Python.
---
 build/linux/Makefile.in | 21 ++++++++++++---------
 1 file changed, 12 insertions(+), 9 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 90f8801..4f99db2 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -268,12 +268,15 @@ endif
 
 ifeq ($(python),yes)
 py: libastra.la
-	cd $(srcdir)/../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py install \
-	--install-base=./finalbuild --install-headers=./finalbuild --install-purelib=./finalbuild \
-	--install-platlib=./finalbuild --install-scripts=./finalbuild --install-data=./finalbuild
+	$(MKDIR) python/build
+	$(MKDIR) python/finalbuild
+	cd $(srcdir)/../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py build --build-base=$(abs_top_builddir)/python/build install \
+	--install-base=$(abs_top_builddir)/python/finalbuild --install-headers=$(abs_top_builddir)/python/finalbuild --install-purelib=$(abs_top_builddir)/python/finalbuild \
+	--install-platlib=$(abs_top_builddir)/python/finalbuild --install-scripts=$(abs_top_builddir)/python/finalbuild --install-data=$(abs_top_builddir)/python/finalbuild
 
 python-root-install: libastra.la
-	cd $(srcdir)/../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py install
+	$(MKDIR) python/build
+	cd $(srcdir)/../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py build --build-base=$(abs_top_builddir)/python/build install
 
 endif
 
@@ -335,8 +338,8 @@ clean:
 	rm -f $(addsuffix /*.d,$(DEPDIRS))
 	rm -f $(addsuffix /*,$(LIBDIRS))
 	rm -f $(TEST_OBJECTS) test.bin
-	rm -fr $(srcdir)/../../python/finalbuild/
-	rm -fr $(srcdir)/../../python/build/
+	rm -fr python/finalbuild/
+	rm -fr python/build/
 	rm -f $(srcdir)/../../python/astra/*.cpp
 	rm -f $(srcdir)/../../python/astra/*.c
 
@@ -372,9 +375,9 @@ ifeq ($(python),yes)
 install-python: py
 	$(INSTALL_SH) -m 755 -d @prefix@/python
 	$(INSTALL_SH) -m 755 -d @prefix@/python/astra
-	$(INSTALL_SH) -m 644 $(srcdir)/../../python/finalbuild/astra/*.so @prefix@/python/astra
-	$(INSTALL_SH) -m 644 $(srcdir)/../../python/finalbuild/astra/*.py @prefix@/python/astra
-	$(INSTALL_SH) -m 644 $(srcdir)/../../python/finalbuild/*.egg-info @prefix@/python/
+	$(INSTALL_SH) -m 644 python/finalbuild/astra/*.so @prefix@/python/astra
+	$(INSTALL_SH) -m 644 python/finalbuild/astra/*.py @prefix@/python/astra
+	$(INSTALL_SH) -m 644 python/finalbuild/*.egg-info @prefix@/python/
 	@echo "++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++"
 	@echo "To use ASTRA in Python, add @prefix@/python/ to your PYTHONPATH"
 	@echo "and @libdir@ to your LD_LIBRARY_PATH."
-- 
cgit v1.2.3


From 2d2be13aa9dcfc77afed1dbe52c78e5dce5a04fa Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Tue, 19 Jan 2016 17:06:57 +0100
Subject: Fail when python six module is not found

---
 build/linux/configure.ac | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/configure.ac b/build/linux/configure.ac
index 684a4c5..354bccc 100644
--- a/build/linux/configure.ac
+++ b/build/linux/configure.ac
@@ -213,7 +213,7 @@ assert(LooseVersion(Cython.__version__)>=LooseVersion("0.13"))
   fi
   AC_MSG_RESULT(yes)
   AC_MSG_CHECKING(for six module)
-  ASTRA_TRY_PYTHON([import six])
+  ASTRA_TRY_PYTHON([import six],,HAVEPYTHON=no)
   if test x$HAVEPYTHON = xno; then
     AC_MSG_RESULT(no)
     AC_MSG_ERROR(You need the six module to use the ASTRA toolbox in Python)
-- 
cgit v1.2.3


From 5c33826855a8d88889cdbbfc78b27c86549715d5 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 20 Jan 2016 13:02:36 +0100
Subject: Add check for scipy

The module matrix_c.pyx uses it.
---
 build/linux/configure.ac | 7 +++++++
 1 file changed, 7 insertions(+)

(limited to 'build/linux')

diff --git a/build/linux/configure.ac b/build/linux/configure.ac
index 354bccc..5a04509 100644
--- a/build/linux/configure.ac
+++ b/build/linux/configure.ac
@@ -219,6 +219,13 @@ assert(LooseVersion(Cython.__version__)>=LooseVersion("0.13"))
     AC_MSG_ERROR(You need the six module to use the ASTRA toolbox in Python)
   fi
   AC_MSG_RESULT(yes)
+  AC_MSG_CHECKING(for scipy module)
+  ASTRA_TRY_PYTHON([import scipy],,HAVEPYTHON=no)
+  if test x$HAVEPYTHON = xno; then
+    AC_MSG_RESULT(no)
+    AC_MSG_ERROR(You need the scipy module to use the ASTRA toolbox in Python)
+  fi
+  AC_MSG_RESULT(yes)
 fi
 
 AC_SUBST(HAVEPYTHON)
-- 
cgit v1.2.3


From 5e3bcf20be6188331c856d9d8854fb931b2abba7 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 20 Jan 2016 14:34:00 +0100
Subject: Avoid incorrect include dirs when building python modules

---
 build/linux/Makefile.in | 7 +++++--
 1 file changed, 5 insertions(+), 2 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 4f99db2..c165d37 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -32,7 +32,6 @@ NVCCFLAGS=@SAVED_NVCCFLAGS@
 LDFLAGS=@SAVED_LDFLAGS@
 LIBS=@SAVED_LIBS@
 
-CPPFLAGS+=-I$(srcdir)/../.. -I$(srcdir)/../../include -I$(srcdir)/../../lib/include
 CXXFLAGS+=-g -O3 -Wall -Wshadow
 LIBS+=-lpthread
 LDFLAGS+=-g
@@ -59,7 +58,7 @@ PYLIBDIR = $(shell $(PYTHON) -c 'from distutils.sysconfig import get_config_var;
 PYINCDIR = $(shell $(PYTHON) -c 'from distutils.sysconfig import get_python_inc; import six; six.print_(get_python_inc())')
 PYLIBVER = `basename $(PYINCDIR)`
 CPPFLAGS += -DASTRA_PYTHON -I$(PYINCDIR)
-PYCPPFLAGS  = $(CPPFLAGS)
+PYCPPFLAGS  := $(CPPFLAGS)
 PYCPPFLAGS  += -I../include
 PYLDFLAGS = $(LDFLAGS)
 PYLDFLAGS   += -L$(abs_top_builddir)/.libs
@@ -67,6 +66,10 @@ LIBS		+= -l$(PYLIBVER)
 LDFLAGS += -L$(PYLIBDIR)
 endif
 
+# This is below where PYCPPFLAGS copies CPPFLAGS.  The python code is built
+# from a different directory, so these relative includes would be wrong.
+CPPFLAGS+=-I$(srcdir)/../.. -I$(srcdir)/../../include -I$(srcdir)/../../lib/include
+
 BOOST_CPPFLAGS=
 BOOST_LDFLAGS=
 
-- 
cgit v1.2.3


From 29c5c86e56697286a92031aaa9fdd903b3bcc426 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 20 Jan 2016 16:18:05 +0100
Subject: Use nvcc's -MT option

---
 build/linux/Makefile.in | 6 ++----
 1 file changed, 2 insertions(+), 4 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index c165d37..12c9e2b 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -303,10 +303,8 @@ ifeq ($(cuda),yes)
 	@$(MKDIR) $(*D)/.libs
 	@$(MKDIR) $(*D)/$(DEPDIR)
 	@$(NVCC) $(NVCCFLAGS) -c $(<) -Xcompiler -fPIC -DPIC -o $(*D)/.libs/$(*F).o >/dev/null 2>&1
-	@# Generate a .d file, and change the target name in it from .o to .lo
-	@$(NVCC) $(NVCCFLAGS) -M $(<) -odir $(*D) -o $(*D)/$(DEPDIR)/$(*F).d2
-	@sed '1s/\.o :/.lo :/' < $(*D)/$(DEPDIR)/$(*F).d2 > $(*D)/$(DEPDIR)/$(*F).d
-	@rm -f $(*D)/$(DEPDIR)/$(*F).d2
+	@# Generate a .d file, with target name $*.lo
+	@$(NVCC) $(NVCCFLAGS) -M $(<) -MT $(*F).lo -odir $(*D) -o $(*D)/$(DEPDIR)/$(*F).d
 	@# Generate a fake libtool .lo file
 	@echo "# $*.lo - a libtool object file" > $*.lo
 	@echo "# Generated by" `./libtool --version | head -n 1` >> $*.lo
-- 
cgit v1.2.3


From b428366389ecdad457fb04e13857902e11585881 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 20 Jan 2016 16:18:08 +0100
Subject: Try to improve nvcc dependency file generation

We now append empty targets for all dependencies listed in the .d
file generated by nvcc. This mimics the behaviour of gcc's -MP option,
and prevents deleted header files from breaking the build.
---
 build/linux/Makefile.in | 3 +++
 1 file changed, 3 insertions(+)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 12c9e2b..f556066 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -305,6 +305,9 @@ ifeq ($(cuda),yes)
 	@$(NVCC) $(NVCCFLAGS) -c $(<) -Xcompiler -fPIC -DPIC -o $(*D)/.libs/$(*F).o >/dev/null 2>&1
 	@# Generate a .d file, with target name $*.lo
 	@$(NVCC) $(NVCCFLAGS) -M $(<) -MT $(*F).lo -odir $(*D) -o $(*D)/$(DEPDIR)/$(*F).d
+	@# Generate empty targets for all dependencies listed in the .d file.
+	@# This mimics gcc's -MP option.
+	@for x in `cat $(*D)/$(DEPDIR)/$(*F).d`; do if test a$$x != a: -a a$$x != a\\; then echo -e "\n$$x:\n" >> $(*D)/$(DEPDIR)/$(*F).d; fi; done
 	@# Generate a fake libtool .lo file
 	@echo "# $*.lo - a libtool object file" > $*.lo
 	@echo "# Generated by" `./libtool --version | head -n 1` >> $*.lo
-- 
cgit v1.2.3


From 8fecf27e5eba5e89d9212c2235e957a64e58ec22 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 20 Jan 2016 16:38:01 +0100
Subject: Don't build cuda non-PIC object if static libs are disabled

This significantly speeds up builds since we usually pass disable-static to
libtool.
---
 build/linux/Makefile.in | 12 ++++++++++--
 1 file changed, 10 insertions(+), 2 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index f556066..8398e35 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -295,14 +295,18 @@ libastra.la: $(ALL_OBJECTS)
 	$(MKDIR) $(*D)/$(DEPDIR)
 	./libtool --mode=compile --tag=CXX $(CXX) -Wp,-MMD,"$(*D)/$(DEPDIR)/$(*F).d",-MQ,"$@",-MP $(CXXFLAGS) $(CPPFLAGS) -c $(<) -o $*.o
 
+gen_static_libs := `./libtool --features | grep -q 'disable static' && echo no || echo yes`
+
 ifeq ($(cuda),yes)
 %.lo: %.cu
 	@# Behave like libtool: compile both a PIC and a non-PIC object file
 	@$(MKDIR) $(*D)
-	$(NVCC) $(NVCCFLAGS) -c $(<) -o $*.o
 	@$(MKDIR) $(*D)/.libs
 	@$(MKDIR) $(*D)/$(DEPDIR)
-	@$(NVCC) $(NVCCFLAGS) -c $(<) -Xcompiler -fPIC -DPIC -o $(*D)/.libs/$(*F).o >/dev/null 2>&1
+	$(NVCC) $(NVCCFLAGS) -c $(<) -Xcompiler -fPIC -DPIC -o $(*D)/.libs/$(*F).o
+ifeq ($(gen_static_libs),yes)
+	@$(NVCC) $(NVCCFLAGS) -c $(<) -o $*.o >/dev/null 2>&1
+endif
 	@# Generate a .d file, with target name $*.lo
 	@$(NVCC) $(NVCCFLAGS) -M $(<) -MT $(*F).lo -odir $(*D) -o $(*D)/$(DEPDIR)/$(*F).d
 	@# Generate empty targets for all dependencies listed in the .d file.
@@ -319,7 +323,11 @@ ifeq ($(cuda),yes)
 	@echo "pic_object='.libs/$(*F).o'" >> $*.lo
 	@echo >> $*.lo
 	@echo "# Name of the non-PIC object." >> $*.lo
+ifeq ($(gen_static_libs),yes)
 	@echo "non_pic_object='$(*F).o'" >> $*.lo
+else
+	@echo "non_pic_object=none" >> $*.lo
+endif
 	@# Remove generated .linkinfo file
 	@rm -f $(*F).linkinfo
 endif
-- 
cgit v1.2.3


From 6a7eaf9c8fee52e01e7a48cd7e4630453c033655 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Thu, 21 Jan 2016 11:29:53 +0100
Subject: Fix VPATH problem with older autoconf versions

---
 build/linux/Makefile.in  | 2 +-
 build/linux/configure.ac | 6 ++++++
 2 files changed, 7 insertions(+), 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 8398e35..3018674 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -24,7 +24,7 @@ exec_prefix=@exec_prefix@
 srcdir=@srcdir@
 abs_top_builddir=@abs_top_builddir@
 
-VPATH=$(srcdir)/../..
+VPATH=@VPATH_SRCDIR@/../..
 
 CPPFLAGS=@SAVED_CPPFLAGS@
 CXXFLAGS=@SAVED_CXXFLAGS@
diff --git a/build/linux/configure.ac b/build/linux/configure.ac
index 5a04509..630b08d 100644
--- a/build/linux/configure.ac
+++ b/build/linux/configure.ac
@@ -243,6 +243,12 @@ esac
 
 AC_SUBST(CPPFLAGS_OS)
 
+# For some reason, some older versions of autoconf produce a config.status
+# that disables all lines looking like VPATH=@srcdir@
+# (More recent autoconf fixes the too broad matching there.)
+# We use a different variable name as a workaround.
+VPATH_SRCDIR="$srcdir"
+AC_SUBST(VPATH_SRCDIR)
 
 # TODO:
 
-- 
cgit v1.2.3


From 56809b0359af7e9108adeb1fd21823a225edf6fa Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Wed, 20 Jan 2016 18:08:59 +0100
Subject: Remove dependency of libastra on libpython by refactoring
 PluginAlgorithm

---
 build/linux/Makefile.in | 2 --
 1 file changed, 2 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 3018674..d5644bc 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -62,8 +62,6 @@ PYCPPFLAGS  := $(CPPFLAGS)
 PYCPPFLAGS  += -I../include
 PYLDFLAGS = $(LDFLAGS)
 PYLDFLAGS   += -L$(abs_top_builddir)/.libs
-LIBS		+= -l$(PYLIBVER)
-LDFLAGS += -L$(PYLIBDIR)
 endif
 
 # This is below where PYCPPFLAGS copies CPPFLAGS.  The python code is built
-- 
cgit v1.2.3


From 96fa285132bf88462c33c5b24cc1b241fb3d4d73 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Thu, 21 Jan 2016 14:30:32 +0100
Subject: Initialize Python plugins when available in Matlab

---
 build/linux/Makefile.in | 10 ++++++++++
 1 file changed, 10 insertions(+)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index d5644bc..57ed8f8 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -95,6 +95,11 @@ ifeq ($(cuda),yes)
 MEXFLAGS += -DASTRA_CUDA
 endif
 
+ifeq ($(python),yes)
+MEXPYLDFLAGS='$$LDFLAGS $(LDFLAGS) -L$(PYLIBDIR)'
+MEXPYLIBS=$(MEXLIBS) -l$(PYLIBVER)
+endif
+
 endif
 
 LIBDIR=/usr/local/lib
@@ -265,6 +270,11 @@ mex: $(MATLAB_MEX)
 
 %.$(MEXSUFFIX): %.o $(MATLAB_CXX_OBJECTS) libastra.la
 	$(MEX) LDFLAGS=$(MEXLDFLAGS) $(MEXFLAGS) $(LIBS) $(MEXLIBS) -lastra -output $* $*.o $(MATLAB_CXX_OBJECTS)
+
+ifeq ($(python),yes)
+matlab/mex/astra_mex_plugin_c.$(MEXSUFFIX): matlab/mex/astra_mex_plugin_c.o $(MATLAB_CXX_OBJECTS) libastra.la
+	$(MEX) LDFLAGS=$(MEXPYLDFLAGS) $(MEXFLAGS) $(LIBS) $(MEXPYLIBS) -lastra -output matlab/mex/astra_mex_plugin_c $< $(MATLAB_CXX_OBJECTS)
+endif
 endif
 
 ifeq ($(python),yes)
-- 
cgit v1.2.3


From 3c194763acb879f0d51b7d4c90c3aad667223214 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Thu, 21 Jan 2016 14:37:07 +0100
Subject: Add missing .PHONY targets

---
 build/linux/Makefile.in | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 57ed8f8..9535b4c 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -419,7 +419,7 @@ $(srcdir)/configure: $(srcdir)/configure.ac
 	@echo "configure.ac has been changed. Regenerating configure script"
 	cd $(srcdir) && $(SHELL) ./autogen.sh
 
-.PHONY: all mex test clean distclean install install-libraries
+.PHONY: all mex test clean distclean install install-libraries py python-root-install install-python
 
 # don't remove intermediate files:
 .SECONDARY:
-- 
cgit v1.2.3


From 2206dba14d1830af0e22a3fd06f301da01398c0e Mon Sep 17 00:00:00 2001
From: "Daniel M. Pelt" <D.M.Pelt@cwi.nl>
Date: Thu, 3 Mar 2016 13:01:00 +0100
Subject: Include PluginAlgorithm in non-Python builds as well

---
 build/linux/Makefile.in | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 9535b4c..5d3f677 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -150,6 +150,7 @@ BASE_OBJECTS=\
 	src/ParallelProjectionGeometry3D.lo \
 	src/ParallelVecProjectionGeometry3D.lo \
 	src/PlatformDepSystemCode.lo \
+	src/PluginAlgorithm.lo \
 	src/ProjectionGeometry2D.lo \
 	src/ProjectionGeometry3D.lo \
 	src/Projector2D.lo \
@@ -255,7 +256,6 @@ MATLAB_MEX=\
 	matlab/mex/astra_mex_direct_c.$(MEXSUFFIX)
 
 ifeq ($(python),yes)
-ALL_OBJECTS+=src/PluginAlgorithm.lo
 MATLAB_MEX+=matlab/mex/astra_mex_plugin_c.$(MEXSUFFIX)
 endif
 
-- 
cgit v1.2.3


From ac5d33197f5e1e07327ba1f7eee8b1c91fad2fe6 Mon Sep 17 00:00:00 2001
From: Willem Jan Palenstijn <Willem.Jan.Palenstijn@cwi.nl>
Date: Tue, 1 Mar 2016 17:24:33 +0100
Subject: Revert "Use nvcc's -MT option"

This reverts commit 29c5c86e56697286a92031aaa9fdd903b3bcc426.

This fixes building with CUDA 5.5.
---
 build/linux/Makefile.in | 6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 9535b4c..951e9f0 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -315,8 +315,10 @@ ifeq ($(cuda),yes)
 ifeq ($(gen_static_libs),yes)
 	@$(NVCC) $(NVCCFLAGS) -c $(<) -o $*.o >/dev/null 2>&1
 endif
-	@# Generate a .d file, with target name $*.lo
-	@$(NVCC) $(NVCCFLAGS) -M $(<) -MT $(*F).lo -odir $(*D) -o $(*D)/$(DEPDIR)/$(*F).d
+	@# Generate a .d file, and change the target name in it from .o to .lo
+	@$(NVCC) $(NVCCFLAGS) -M $(<) -odir $(*D) -o $(*D)/$(DEPDIR)/$(*F).d2
+	@sed '1s/\.o :/.lo :/' < $(*D)/$(DEPDIR)/$(*F).d2 > $(*D)/$(DEPDIR)/$(*F).d
+	@rm -f $(*D)/$(DEPDIR)/$(*F).d2
 	@# Generate empty targets for all dependencies listed in the .d file.
 	@# This mimics gcc's -MP option.
 	@for x in `cat $(*D)/$(DEPDIR)/$(*F).d`; do if test a$$x != a: -a a$$x != a\\; then echo -e "\n$$x:\n" >> $(*D)/$(DEPDIR)/$(*F).d; fi; done
-- 
cgit v1.2.3


From c58929ca7d0201335b5036773b26f82361793f25 Mon Sep 17 00:00:00 2001
From: "Daniel M. Pelt" <D.M.Pelt@cwi.nl>
Date: Tue, 19 Apr 2016 16:40:14 +0200
Subject: Use CXX for Python compilation as well

---
 build/linux/Makefile.in | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index a199bf6..2214734 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -281,13 +281,13 @@ ifeq ($(python),yes)
 py: libastra.la
 	$(MKDIR) python/build
 	$(MKDIR) python/finalbuild
-	cd $(srcdir)/../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py build --build-base=$(abs_top_builddir)/python/build install \
+	cd $(srcdir)/../../python; CXX="${CXX}" CC="${CXX}" CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py build --build-base=$(abs_top_builddir)/python/build install \
 	--install-base=$(abs_top_builddir)/python/finalbuild --install-headers=$(abs_top_builddir)/python/finalbuild --install-purelib=$(abs_top_builddir)/python/finalbuild \
 	--install-platlib=$(abs_top_builddir)/python/finalbuild --install-scripts=$(abs_top_builddir)/python/finalbuild --install-data=$(abs_top_builddir)/python/finalbuild
 
 python-root-install: libastra.la
 	$(MKDIR) python/build
-	cd $(srcdir)/../../python; CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py build --build-base=$(abs_top_builddir)/python/build install
+	cd $(srcdir)/../../python; CXX="${CXX}" CC="${CXX}" CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py build --build-base=$(abs_top_builddir)/python/build install
 
 endif
 
-- 
cgit v1.2.3


From 93eacadc5b94f8e1241dc6836be27d16881a2826 Mon Sep 17 00:00:00 2001
From: "Daniel M. Pelt" <D.M.Pelt@cwi.nl>
Date: Tue, 19 Apr 2016 17:12:58 +0200
Subject: Add comment about setting CC to CXX

---
 build/linux/Makefile.in | 2 ++
 1 file changed, 2 insertions(+)

(limited to 'build/linux')

diff --git a/build/linux/Makefile.in b/build/linux/Makefile.in
index 2214734..f10f482 100644
--- a/build/linux/Makefile.in
+++ b/build/linux/Makefile.in
@@ -281,12 +281,14 @@ ifeq ($(python),yes)
 py: libastra.la
 	$(MKDIR) python/build
 	$(MKDIR) python/finalbuild
+	# Note: setting CC to CXX is intentional. Python uses CC for compilation even if input is C++.
 	cd $(srcdir)/../../python; CXX="${CXX}" CC="${CXX}" CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py build --build-base=$(abs_top_builddir)/python/build install \
 	--install-base=$(abs_top_builddir)/python/finalbuild --install-headers=$(abs_top_builddir)/python/finalbuild --install-purelib=$(abs_top_builddir)/python/finalbuild \
 	--install-platlib=$(abs_top_builddir)/python/finalbuild --install-scripts=$(abs_top_builddir)/python/finalbuild --install-data=$(abs_top_builddir)/python/finalbuild
 
 python-root-install: libastra.la
 	$(MKDIR) python/build
+	# Note: setting CC to CXX is intentional. Python uses CC for compilation even if input is C++.
 	cd $(srcdir)/../../python; CXX="${CXX}" CC="${CXX}" CPPFLAGS="${PYCPPFLAGS}" LDFLAGS="${PYLDFLAGS}" $(PYTHON) builder.py build --build-base=$(abs_top_builddir)/python/build install
 
 endif
-- 
cgit v1.2.3