gentoo-overlay/sci-chemistry/namd/files/namd-makefile-gentoo.patch

# provide paths for charm++ provided includes/libraries/binaries

--- NAMD_2.6b1_Source-patched/Makefile	2005-07-22 18:50:58.000000000 +0000
+++ NAMD_2.6b1_Source/Makefile	2005-09-30 02:28:35.000000000 +0000
@@ -227,10 +227,10 @@
 	$(DSTDIR)/stringhash.o
 
 # definitions for Charm routines
-CHARMC = $(CHARM)/bin/charmc
-CHARMXI = $(CHARM)/bin/charmc
-CHARMINC = $(CHARM)/include $(COPTD)CMK_OPTIMIZE=1
-CHARMLIB = $(CHARM)/lib
+CHARMC = /usr/bin/charmc
+CHARMXI = /usr/bin/charmc
+CHARMINC = /usr/include/charm-5.9 $(COPTD)CMK_OPTIMIZE=1
+CHARMLIB = /usr/lib
 
 # Libraries we may have changed
 LIBS = $(PLUGINLIB) $(DPMTALIBS) $(DPMELIBS) $(TCLDLL)
@@ -250,7 +250,7 @@
 
 # Add new executables here.
 
-BINARIES = namd2 psfgen charmrun flipdcd flipbinpdb
+BINARIES = namd2 psfgen flipdcd flipbinpdb
 
 # This should be rebuilt at every compile, but not on Win32.
 BUILDINFO = $(DSTDIR)/buildinfo
@@ -279,10 +279,7 @@
 	$(CHARMOPTS) \
 	-lm -o namd2
 
-charmrun: $(CHARM)/bin/charmrun # XXX
-	$(COPY) $(CHARM)/bin/charmrun $@
-
-win32binaries: namd2.exe psfgen.exe charmd.exe charmd_faceless.exe charmrun.exe
+win32binaries: namd2.exe psfgen.exe charmd.exe charmd_faceless.exe 
 
 namd2.exe:  $(INCDIR) $(DSTDIR) $(OBJS) $(LIBS)
 	$(MAKEBUILDINFO)
@@ -304,9 +301,6 @@
 charmd_faceless.exe:
 	$(COPY) $(CHARM)/bin/charmd_faceless.exe charmd_faceless.exe
 
-charmrun.exe:
-	$(COPY) $(CHARM)/bin/charmrun.exe charmrun.exe
-
 psfgen:	$(DSTDIR) $(SBOBJS)
 	$(CC) $(SBCFLAGS) -o psfgen $(SBOBJS) $(TCLLIB) $(TCLAPPLIB) -lm
 
@@ -565,9 +559,9 @@
 
 DOC_FILES = README.txt announce.txt license.txt notes.txt
 
-RELEASE_FILES = namd2 psfgen charmrun flipdcd flipbinpdb
+RELEASE_FILES = namd2 psfgen flipdcd flipbinpdb
 
-WIN32_RELEASE_FILES = namd2.exe psfgen.exe charmrun.exe charmd.exe charmd_faceless.exe $(TCLDLL)
+WIN32_RELEASE_FILES = namd2.exe psfgen.exe charmd.exe charmd_faceless.exe $(TCLDLL)
 
 release: all
 	$(ECHO) Creating release $(RELEASE_DIR_NAME)
@@ -575,18 +569,18 @@
 	cp $(RELEASE_FILES) $(RELEASE_DIR_NAME)
 	for f in $(DOC_FILES); do cp .rootdir/$$f $(RELEASE_DIR_NAME); done
 	cp -r .rootdir/lib $(RELEASE_DIR_NAME)
-	if [ -r $(CHARM)/bin/charmd ]; then \
-	  $(COPY) $(CHARM)/bin/charmd $(RELEASE_DIR_NAME); \
+	if [ -r /usr/bin/charmd ]; then \
+	  $(COPY) /usr/bin/charmd $(RELEASE_DIR_NAME); \
 	fi
-	if [ -r $(CHARM)/bin/charmd_faceless ]; then \
-	  $(COPY) $(CHARM)/bin/charmd_faceless $(RELEASE_DIR_NAME); \
+	if [ -r /usr/bin/charmd_faceless ]; then \
+	  $(COPY) /usr/bin/charmd_faceless $(RELEASE_DIR_NAME); \
 	fi
 	chmod -R a+rX $(RELEASE_DIR_NAME)
 	tar cf $(RELEASE_DIR_NAME).tar $(RELEASE_DIR_NAME)
 	gzip $(RELEASE_DIR_NAME).tar
-	echo $(CHARM)
-	ls -l $(CHARM)/lib
-	echo $(CHARM)
+	echo /usr
+	ls -l /usr/lib
+	echo /usr
 	file $(RELEASE_FILES)
 
 winrelease: winall