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TheChymera-overlay/sci-biology/fsl/files/fsl-5.0.9-setup.patch
Horea Christian ed14ef2be5
sci-biology/fsl: attempt at version bump 6.0.2
Package-Manager: Portage-2.3.78, Repoman-2.3.17
Signed-off-by: Horea Christian <chr@chymera.eu>
2019-11-06 23:30:23 +01:00

116 lines
3.7 KiB
Diff

diff -Naur fsl.orig/build fsl/build
--- fsl.orig/build 2015-03-29 00:10:39.845936000 +1300
+++ fsl/build 2015-03-29 00:12:37.160487000 +1300
@@ -11,9 +11,8 @@
ifit load_varian load_dicom misc_scripts fdt first possum sgeutils \
flameo oxford_asl relax qboot topup ptx2 lesions eddy dwssfp verbena";
fi
-echo "Building projects - see build.log file for progress..."
-./config/common/buildproj $PROJECTS > ./build.log 2>&1
-echo "Finished build : end of log file shows ..."
-tail -10 build.log
+echo "Building projects"
+./config/common/buildproj $PROJECTS
+echo "Finished build"
diff -Naur fsl.orig/config/common/buildproj fsl/config/common/buildproj
--- fsl.orig/config/common/buildproj 2015-03-29 00:11:47.130998000 +1300
+++ fsl/config/common/buildproj 2015-03-29 00:12:37.164319000 +1300
@@ -11,10 +11,10 @@
fi
PROJECTS="$@" ; export PROJECTS ;
-FSLDIR=`pwd`
+#FSLDIR=`pwd`
FSLDEVDIR=${FSLDIR}
FSLCONFDIR=${FSLDIR}/config
-FSLMACHTYPE=`${FSLDIR}/etc/fslconf/fslmachtype.sh`
+#FSLMACHTYPE=`${FSLDIR}/etc/fslconf/fslmachtype.sh`
export FSLDIR FSLDEVDIR FSLCONFDIR FSLMACHTYPE
buildmessages="" ; export buildmessages ;
@@ -66,7 +66,7 @@
if [ -x fslconfig ] ; then
./fslconfig ;
fi
- if ${MAKE} -k ${MAKEOPTIONS} ; then
+ if ${MAKE} ${MAKEOPTIONS} ${MAKEOPTS} ; then
if ${MAKE} install ; then
installok=true;
# Clean up after ourselves
diff -Naur fsl.orig/config/common/vars.mk fsl/config/common/vars.mk
--- fsl.orig/config/common/vars.mk 2015-03-29 00:11:47.183520000 +1300
+++ fsl/config/common/vars.mk 2015-03-29 00:18:53.151222000 +1300
@@ -24,15 +24,15 @@
USRCFLAGS =
USRCXXFLAGS =
-LDFLAGS = ${ARCHLDFLAGS} ${USRLDFLAGS} -L. -L${DEVLIBDIR} -L${LIBDIR}
+LDFLAGS = ${ARCHLDFLAGS} ${USRLDFLAGS} -L. -L${DEVLIBDIR} -L${LIBDIR} ${USERLDFLAGS}
-AccumulatedIncFlags = ${USRINCFLAGS} -I. -I${DEVINCDIR} -I${INCDIR}
+AccumulatedIncFlags = ${USRINCFLAGS} -I. -I${DEVINCDIR} -I${INCDIR} ${CPPFLAGS}
CFLAGS = ${ANSI_FLAGS} ${ANSI_CFLAGS} ${DBGFLAGS} ${USEDCSTATICFLAGS} ${USRCFLAGS} ${ARCHFLAGS} ${OPTFLAGS} \
- ${AccumulatedIncFlags}
+ ${AccumulatedIncFlags} ${USERCFLAGS}
CXXFLAGS = ${ANSI_FLAGS} ${ANSI_CXXFLAGS} ${DBGFLAGS} ${USEDCXXSTATICFLAGS} ${USRCXXFLAGS} ${ARCHFLAGS} ${OPTFLAGS} \
- ${AccumulatedIncFlags}
+ ${AccumulatedIncFlags} ${USERCXXFLAGS}
HFILES = *.h
AFILES = *.a
diff -Naur fsl.orig/config/generic/systemvars.mk fsl/config/generic/systemvars.mk
--- fsl.orig/config/generic/systemvars.mk 2015-03-29 00:11:47.534246000 +1300
+++ fsl/config/generic/systemvars.mk 2015-03-29 00:12:37.162129000 +1300
@@ -4,20 +4,20 @@
# System dependent commands (NB: the first two are the most platform dependent)
-INSTALL = ginstall -p
-RANLIB = ranlib
+INSTALL = install -p
+RANLIB = @@GENTOO_RANLIB@@
RM = /bin/rm
CP = /bin/cp
MV = /bin/mv
CHMOD = /bin/chmod
MKDIR = /bin/mkdir
-TCLSH = ${FSLDIR}/bin/fsltclsh
+TCLSH = tclsh
# Compiler dependent variables
-CC = gcc
-CXX = c++
+CC = @@GENTOO_CC@@
+CXX = @@GENTOO_CXX@@
CSTATICFLAGS = -static
CXXSTATICFLAGS = -static
@@ -25,7 +25,7 @@
DEPENDFLAGS = -MM
-OPTFLAGS = -O3 -fexpensive-optimizations ${ARCHFLAGS}
+OPTFLAGS =
MACHDBGFLAGS =
GNU_ANSI_FLAGS = -Wall -ansi -pedantic
SGI_ANSI_FLAGS = -ansi -fullwarn
diff -Naur fsl.orig/extras/build fsl/extras/build
--- fsl.orig/extras/build 2015-03-29 00:11:15.080236000 +1300
+++ fsl/extras/build 2015-03-29 00:15:53.170496000 +1300
@@ -104,8 +104,8 @@
if [ ${BUILDICONV} -eq 1 ]; then
PROJECTS="${PROJECTS} libiconv"
fi
-PROJECTS="${PROJECTS} libgd libgdc libprob libcprob newmat cprob newran fftw"
+PROJECTS="libgdc libprob libcprob newmat cprob newran"
PROJECTS="${PROJECTS} boost libxml2-2.9.2 libxml++-2.34.0"
for projname in $PROJECTS; do
if [ -d $FSLESRCDIR/$projname ] ; then