1 files changed, 0 insertions, 113 deletions
diff --git a/sci-biology/fsl/files/fsl-5.0.8-setup.patch b/sci-biology/fsl/files/fsl-5.0.8-setup.patch
deleted file mode 100644
index 0cbda5d5c..000000000
--- a/sci-biology/fsl/files/fsl-5.0.8-setup.patch
+++ /dev/null
@@ -1,113 +0,0 @@
-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
-@@ -11,8 +11,7 @@
- ifit load_varian load_dicom misc_scripts fdt first possum sgeutils flameo oxford_asl relax qboot topup ptx2 lesions eddy dwssfp";
- 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
-@@ -60,7 +60,7 @@
- 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"
- for projname in $PROJECTS; do
- 
-     if [ -d $FSLESRCDIR/$projname ] ; then