gentoo-overlay/sci-biology/muscle/files/3.8.31-make.patch

--- a/mk
+++ b/mk
@@ -5,17 +5,14 @@ ObjNames='aligngivenpath.o aligngivenpathsw.o aligntwomsas.o aligntwoprofs.o aln
 rm -f *.o muscle.make.stdout.txt muscle.make.stderr.txt
 for CPPName in $CPPNames
 do
-  echo $CPPName >> /dev/tty
-  g++ $ENV_GCC_OPTS -c -O3 -msse2 -mfpmath=sse -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 $CPPName.cpp -o $CPPName.o  >> muscle.make.stdout.txt 2>> muscle.make.stderr.txt
+  echo "${CXX} ${CXXFLAGS} -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 $CPPName.cpp -o $CPPName.o"
+  ${CXX} ${CXXFLAGS} -c -D_FILE_OFFSET_BITS=64 -DNDEBUG=1 $CPPName.cpp -o $CPPName.o
 done
 
 LINK_OPTS=
 if [ `uname -s` == Linux ] ; then
     LINK_OPTS=-static
 fi
-g++ $LINK_OPTS $ENV_LINK_OPTS -g -o muscle $ObjNames  >> muscle.make.stdout.txt 2>> muscle.make.stderr.txt
-tail muscle.make.stderr.txt
 
-strip muscle
-ls -lh muscle
-sum muscle
+echo "${CXX} ${LDFLAGS} -o muscle $ObjNames"
+${CXX} ${LDFLAGS} -o muscle $ObjNames