--- trunk/OOPSE-3.0/make/Makefile.in	2005/11/18 17:50:17	2456
+++ trunk/OOPSE-3.0/make/Makefile.in	2005/12/02 15:38:25	2470
@@ -52,8 +52,9 @@ PackageLibs = \
 	selection \
 	restraints \
 	lattice \
-	openbabel
-
+	openbabel\
+        antlr\
+        mdParser
 #packages containing applications
 Applications = \
 	applications/oopse \
@@ -420,6 +421,10 @@ endif
     InstallFiles             = $(Executable)
   endif 
   InstallCommand           = $(InstallProgram)
+  ifneq "$(words $(LinkTargets))" "0"
+    MyLinkSource = $(patsubst %, $(MyInstallDir)/%,$(Main)) 
+    MyLinkTargets = $(patsubst %, $(MyInstallDir)/%,$(LinkTargets))
+  endif
 endif
 
 ifneq "$(words $(ForcefieldFiles))" "0"
@@ -815,10 +820,9 @@ _installlinks :  $(MyInstallDir)
 endif	    
 
 _installlinks :  $(MyInstallDir)
-	$(Print) $(LinkTargets) 
-ifneq "$(words $(LinkTargets))" "0"
+ifneq "$(words $(MyLinkTargets))" "0"
 	@cd $(MyInstallDir)
-	$(foreach thisLink,$(LinkTargets),$(call do_link,$(Executable),$(thisLink)))
+	$(foreach thisLink,$(MyLinkTargets),$(call do_link,$(MyLinkSource),$(thisLink)))
 endif	    
 
 # make statistics