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diff -up EMBOSS-6.3.1/aclocal.m4.system-plplot EMBOSS-6.3.1/aclocal.m4
--- EMBOSS-6.3.1/aclocal.m4.system-plplot	2010-07-19 07:55:32.000000000 -0400
+++ EMBOSS-6.3.1/aclocal.m4	2010-08-03 08:01:37.975129562 -0400
@@ -8904,6 +8904,7 @@ m4_include([m4/hpdf.m4])
 m4_include([m4/java.m4])
 m4_include([m4/lf_x11.m4])
 m4_include([m4/mysql.m4])
+m4_include([m4/plplot.m4])
 m4_include([m4/pngdriver.m4])
 m4_include([m4/postgresql.m4])
 m4_include([m4/sgi.m4])
diff -up EMBOSS-6.3.1/ajax/acd/Makefile.am.system-plplot EMBOSS-6.3.1/ajax/acd/Makefile.am
--- EMBOSS-6.3.1/ajax/acd/Makefile.am.system-plplot	2010-08-03 08:01:37.953240192 -0400
+++ EMBOSS-6.3.1/ajax/acd/Makefile.am	2010-08-03 08:01:37.976128933 -0400
@@ -13,10 +13,10 @@ CYGWIN_LDACD = -L../../plplot -L../pcre 
 endif
 
 if !ESYSTEMLIBS
-EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
+EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
 endif
 
-INCLUDES = -I$(top_srcdir)/plplot \
+INCLUDES = $(PLPLOT_CFLAGS) \
 $(EXTRA_INCLUDES) \
 -I$(top_srcdir)/ajax/core \
 -I$(top_srcdir)/ajax/graphics \
diff -up EMBOSS-6.3.1/ajax/acd/Makefile.in.system-plplot EMBOSS-6.3.1/ajax/acd/Makefile.in
--- EMBOSS-6.3.1/ajax/acd/Makefile.in.system-plplot	2010-08-03 08:01:37.953240192 -0400
+++ EMBOSS-6.3.1/ajax/acd/Makefile.in	2010-08-03 08:01:37.976128933 -0400
@@ -42,9 +42,9 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
-	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
-	$(top_srcdir)/configure.in
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 $(top_srcdir)/m4/postgresql.m4 \
+	$(top_srcdir)/m4/sgi.m4 $(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
 	$(ACLOCAL_M4)
 mkinstalldirs = $(SHELL) $(top_srcdir)/mkinstalldirs
@@ -174,6 +174,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
@@ -256,8 +258,8 @@ AM_CFLAGS = $(WARN_CFLAGS) $(DEVWARN_CFL
 @ISCYGWIN_TRUE@-L../graphics -L../ensembl -L../ajaxdb -lajaxdb -lensembl -lajaxg -lajax \
 @ISCYGWIN_TRUE@-leplplot -leexpat -lepcre -lezlib
 
-@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
-INCLUDES = -I$(top_srcdir)/plplot \
+@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
+INCLUDES = $(PLPLOT_CFLAGS) \
 $(EXTRA_INCLUDES) \
 -I$(top_srcdir)/ajax/core \
 -I$(top_srcdir)/ajax/graphics \
diff -up EMBOSS-6.3.1/ajax/ajaxdb/Makefile.am.system-plplot EMBOSS-6.3.1/ajax/ajaxdb/Makefile.am
--- EMBOSS-6.3.1/ajax/ajaxdb/Makefile.am.system-plplot	2010-08-03 08:01:37.953240192 -0400
+++ EMBOSS-6.3.1/ajax/ajaxdb/Makefile.am	2010-08-03 08:01:37.977129283 -0400
@@ -13,11 +13,11 @@ CYGWIN_LDAJAXDB = -L../../plplot -L../pc
 endif
 
 if !ESYSTEMLIBS
-EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
+EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
 endif
 
 
-INCLUDES = -I$(top_srcdir)/plplot \
+INCLUDES = $(PLPLOT_CFLAGS) \
 $(EXTRA_INCLUDES) \
 -I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/ensembl
 
diff -up EMBOSS-6.3.1/ajax/ajaxdb/Makefile.in.system-plplot EMBOSS-6.3.1/ajax/ajaxdb/Makefile.in
--- EMBOSS-6.3.1/ajax/ajaxdb/Makefile.in.system-plplot	2010-08-03 08:01:37.954253392 -0400
+++ EMBOSS-6.3.1/ajax/ajaxdb/Makefile.in	2010-08-03 08:01:37.977129283 -0400
@@ -42,7 +42,8 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 \
 	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
 	$(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
@@ -174,6 +175,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
@@ -255,8 +258,8 @@ AM_CFLAGS = $(WARN_CFLAGS) $(DEVWARN_CFL
 @ISCYGWIN_TRUE@CYGWIN_LDAJAXDB = -L../../plplot -L../pcre -L../expat -L../zlib -L../core \
 @ISCYGWIN_TRUE@-L../ensembl -lensembl lajax -leplplot -leexpat -lepcre -lezlib
 
-@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
-INCLUDES = -I$(top_srcdir)/plplot \
+@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
+INCLUDES = $(PLPLOT_CFLAGS)  \
 $(EXTRA_INCLUDES) \
 -I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/ensembl
 
diff -up EMBOSS-6.3.1/ajax/core/Makefile.am.system-plplot EMBOSS-6.3.1/ajax/core/Makefile.am
--- EMBOSS-6.3.1/ajax/core/Makefile.am.system-plplot	2010-08-03 08:01:37.954253392 -0400
+++ EMBOSS-6.3.1/ajax/core/Makefile.am	2010-08-03 08:01:37.978128794 -0400
@@ -12,13 +12,13 @@ CYGWIN_LDAJAX = -L../../plplot -L../expa
 endif
 
 if !ESYSTEMLIBS
-EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
+EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
 endif
 
 
 INCLUDES = -DAJAX_FIXED_ROOT=$(AJAX_FIXED_ROOT) \
 -DAJAX_SYSTEM="$(AJAX_SYSTEM)" -DPREFIX=\"$(prefix)\" \
--I$(top_srcdir)/plplot $(EXTRA_INCLUDES)
+$(PLPLOT_CFLAGS) $(EXTRA_INCLUDES)
 
 AJAXSRC = ajalign.c ajarr.c ajassert.c \
 ajbase.c ajcall.c ajcod.c \
diff -up EMBOSS-6.3.1/ajax/core/Makefile.in.system-plplot EMBOSS-6.3.1/ajax/core/Makefile.in
--- EMBOSS-6.3.1/ajax/core/Makefile.in.system-plplot	2010-08-03 08:01:37.955251716 -0400
+++ EMBOSS-6.3.1/ajax/core/Makefile.in	2010-08-03 08:01:37.978128794 -0400
@@ -42,7 +42,8 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 \
 	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
 	$(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
@@ -183,6 +184,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
@@ -264,10 +267,10 @@ AM_CFLAGS = $(WARN_CFLAGS) $(DEVWARN_CFL
 @ISCYGWIN_TRUE@CYGWIN_LDAJAX = -L../../plplot -L../expat -L../pcre -L../zlib \
 @ISCYGWIN_TRUE@-leplplot -leexpat -lepcre -lezlib
 
-@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
+@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
 INCLUDES = -DAJAX_FIXED_ROOT=$(AJAX_FIXED_ROOT) \
 -DAJAX_SYSTEM="$(AJAX_SYSTEM)" -DPREFIX=\"$(prefix)\" \
--I$(top_srcdir)/plplot $(EXTRA_INCLUDES)
+$(PLPLOT_CFLAGS) $(EXTRA_INCLUDES)
 
 AJAXSRC = ajalign.c ajarr.c ajassert.c \
 ajbase.c ajcall.c ajcod.c \
diff -up EMBOSS-6.3.1/ajax/ensembl/Makefile.am.system-plplot EMBOSS-6.3.1/ajax/ensembl/Makefile.am
--- EMBOSS-6.3.1/ajax/ensembl/Makefile.am.system-plplot	2010-08-03 08:01:37.955251716 -0400
+++ EMBOSS-6.3.1/ajax/ensembl/Makefile.am	2010-08-03 08:01:37.978128794 -0400
@@ -10,11 +10,11 @@ CYGWIN_LDENSEMBL = -L../../plplot -L../e
 endif
 
 if !ESYSTEMLIBS
-EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre
+EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
 endif
 
 
-INCLUDES = -I$(top_srcdir)/plplot $(EXTRA_INCLUDES) \
+INCLUDES = $(PLPLOT_CFLAGS) $(EXTRA_INCLUDES) \
 -I$(top_srcdir)/ajax/core
 
 ENSEMBLSRC = ensanalysis.c ensassembly.c ensassemblyexception.c \
diff -up EMBOSS-6.3.1/ajax/ensembl/Makefile.in.system-plplot EMBOSS-6.3.1/ajax/ensembl/Makefile.in
--- EMBOSS-6.3.1/ajax/ensembl/Makefile.in.system-plplot	2010-08-03 08:01:37.956253741 -0400
+++ EMBOSS-6.3.1/ajax/ensembl/Makefile.in	2010-08-03 08:01:37.979128584 -0400
@@ -42,7 +42,8 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 \
 	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
 	$(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
@@ -187,6 +188,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
@@ -264,8 +267,8 @@ lib_LTLIBRARIES = libensembl.la
 AM_CFLAGS = $(WARN_CFLAGS) $(DEVWARN_CFLAGS)
 @ISCYGWIN_TRUE@CYGWIN_LDFLAGS = -no-undefined -Wl,--add-stdcall-alias -Wl,--export-all-symbols -Wl,--enable-auto-import
 @ISCYGWIN_TRUE@CYGWIN_LDENSEMBL = -L../../plplot -L../expat -L../pcre -L../core -lajax -leplplot -leexpat -lepcre
-@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre
-INCLUDES = -I$(top_srcdir)/plplot $(EXTRA_INCLUDES) \
+@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
+INCLUDES = $(PLPLOT_CFLAGS) $(EXTRA_INCLUDES) \
 -I$(top_srcdir)/ajax/core
 
 ENSEMBLSRC = ensanalysis.c ensassembly.c ensassemblyexception.c \
diff -up EMBOSS-6.3.1/ajax/expat/Makefile.in.system-plplot EMBOSS-6.3.1/ajax/expat/Makefile.in
--- EMBOSS-6.3.1/ajax/expat/Makefile.in.system-plplot	2010-07-19 07:55:40.000000000 -0400
+++ EMBOSS-6.3.1/ajax/expat/Makefile.in	2010-08-03 08:01:37.979128584 -0400
@@ -41,7 +41,8 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 \
 	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
 	$(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
@@ -177,6 +178,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
diff -up EMBOSS-6.3.1/ajax/graphics/ajgraph.c.system-plplot EMBOSS-6.3.1/ajax/graphics/ajgraph.c
--- EMBOSS-6.3.1/ajax/graphics/ajgraph.c.system-plplot	2010-07-19 07:40:00.000000000 -0400
+++ EMBOSS-6.3.1/ajax/graphics/ajgraph.c	2010-08-03 08:01:37.982131238 -0400
@@ -35,7 +35,7 @@
 #define AZ 28
 
 
-#include "plplotP.h"
+#include <plplotP.h>
 
 
 static void     GraphArray(ajuint numofpoints,
@@ -1054,8 +1054,8 @@ static void GraphSetName(const AjPGraph 
 {
     if(!thys->ready)
     {
-        ajDebug("=g= plxsfnam ('%S', '%s')\n", txt, ext);
-        plxsfnam(ajStrGetPtr(txt), ext);
+        ajDebug("=g= plsfnam ('%S')\n", txt);
+        plsfnam(ajStrGetPtr(txt));
         ajStrAssignS(&graphBasename, txt);
         ajStrAssignC(&graphExtension, ext);
         if(ajStrGetCharFirst(graphExtension) == '.')
diff -up EMBOSS-6.3.1/ajax/graphics/ajgraph.h.system-plplot EMBOSS-6.3.1/ajax/graphics/ajgraph.h
--- EMBOSS-6.3.1/ajax/graphics/ajgraph.h.system-plplot	2010-04-14 03:39:49.000000000 -0400
+++ EMBOSS-6.3.1/ajax/graphics/ajgraph.h	2010-08-03 08:01:37.982131238 -0400
@@ -29,7 +29,7 @@ extern "C"
 #ifndef ajgraph_h
 #define ajgraph_h
 
-#include "plplot.h"
+#include <plplot.h>
 #include "ajgraphstruct.h"
 #include "ajdefine.h"
 #include "ajstr.h"
diff -up EMBOSS-6.3.1/ajax/graphics/Makefile.am.system-plplot EMBOSS-6.3.1/ajax/graphics/Makefile.am
--- EMBOSS-6.3.1/ajax/graphics/Makefile.am.system-plplot	2010-08-03 08:01:37.956253741 -0400
+++ EMBOSS-6.3.1/ajax/graphics/Makefile.am	2010-08-03 08:01:37.982131238 -0400
@@ -10,11 +10,11 @@ CYGWIN_LDAJAXG = -L../../plplot -L../exp
 endif
 
 if !ESYSTEMLIBS
-EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre
+EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
 endif
 
 
-INCLUDES = -I$(top_srcdir)/plplot \
+INCLUDES = $(PLPLOT_CFLAGS) \
 $(EXTRA_INCLUDES) -I$(top_srcdir)/ajax/core
 
 AJAXGSRC = ajgraph.c ajhist.c
diff -up EMBOSS-6.3.1/ajax/graphics/Makefile.in.system-plplot EMBOSS-6.3.1/ajax/graphics/Makefile.in
--- EMBOSS-6.3.1/ajax/graphics/Makefile.in.system-plplot	2010-08-03 08:01:37.956253741 -0400
+++ EMBOSS-6.3.1/ajax/graphics/Makefile.in	2010-08-03 08:01:37.983130749 -0400
@@ -42,7 +42,8 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 \
 	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
 	$(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
@@ -174,6 +175,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
@@ -251,8 +254,8 @@ lib_LTLIBRARIES = libajaxg.la
 AM_CFLAGS = $(WARN_CFLAGS) $(DEVWARN_CFLAGS)
 @ISCYGWIN_TRUE@CYGWIN_LDFLAGS = -no-undefined -Wl,--add-stdcall-alias -Wl,--export-all-symbols -Wl,--enable-auto-import
 @ISCYGWIN_TRUE@CYGWIN_LDAJAXG = -L../../plplot -L../expat -L../pcre -L../core -lajax -leplplot -leexpat -lepcre
-@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre
-INCLUDES = -I$(top_srcdir)/plplot \
+@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
+INCLUDES = $(PLPLOT_CFLAGS) \
 $(EXTRA_INCLUDES) -I$(top_srcdir)/ajax/core
 
 AJAXGSRC = ajgraph.c ajhist.c
diff -up EMBOSS-6.3.1/ajax/Makefile.in.system-plplot EMBOSS-6.3.1/ajax/Makefile.in
--- EMBOSS-6.3.1/ajax/Makefile.in.system-plplot	2010-08-03 08:01:37.957253392 -0400
+++ EMBOSS-6.3.1/ajax/Makefile.in	2010-08-03 08:01:37.983130749 -0400
@@ -39,7 +39,8 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 \
 	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
 	$(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
@@ -165,6 +166,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
diff -up EMBOSS-6.3.1/configure.in.system-plplot EMBOSS-6.3.1/configure.in
--- EMBOSS-6.3.1/configure.in.system-plplot	2010-08-03 08:01:37.957253392 -0400
+++ EMBOSS-6.3.1/configure.in	2010-08-03 08:01:37.983130749 -0400
@@ -288,6 +288,7 @@ CHECK_GENERAL
 CHECK_JAVA
 CHECK_JAVAOS
 CHECK_HPDF
+CHECK_PLPLOT
 CHECK_PNGDRIVER
 CHECK_AUTH
 CHECK_AMD64
@@ -659,8 +660,8 @@ dnl check and set compilation flags for 
 CHECK_THREADS
 
 
-AC_OUTPUT([plplot/Makefile plplot/lib/Makefile nucleus/Makefile ajax/Makefile
-ajax/expat/Makefile ajax/zlib/Makefile ajax/core/Makefile
+AC_OUTPUT([nucleus/Makefile ajax/Makefile
+ajax/core/Makefile
 ajax/graphics/Makefile ajax/ensembl/Makefile ajax/ajaxdb/Makefile
 ajax/acd/Makefile
 emboss/Makefile emboss/acd/Makefile test/Makefile test/data/Makefile
diff -up EMBOSS-6.3.1/configure.system-plplot EMBOSS-6.3.1/configure
--- EMBOSS-6.3.1/configure.system-plplot	2010-08-03 08:01:37.962261284 -0400
+++ EMBOSS-6.3.1/configure	2010-08-03 08:01:37.986131587 -0400
@@ -792,6 +792,8 @@ MYSQL_LDFLAGS
 MYSQL_CFLAGS
 MYSQL_VERSION
 MYSQL_CONFIG
+PLPLOT_LIBS
+PLPLOT_CFLAGS
 JAVA_OK
 havejavac
 AMPDF_FALSE
@@ -13647,6 +13649,199 @@ $as_echo "no" >&6; }
 fi
 
 
+PLPLOT_LIBS=""
+OLIBS="$LIBS"
+LIBS=""
+
+check_plplot_ok=yes
+check_plplotpkg_ok=no
+if test x = x && test x = x; then
+  { $as_echo "$as_me:${as_lineno-$LINENO}: checking for PLPlot pkg-config info" >&5
+$as_echo_n "checking for PLPlot pkg-config info... " >&6; }
+  if pkg-config --exists plplotd; then
+    { $as_echo "$as_me:${as_lineno-$LINENO}: result: yes" >&5
+$as_echo "yes" >&6; }
+    PLPLOT_CFLAGS=`pkg-config --cflags plplotd`
+    PLPLOT_LIBS=`pkg-config --libs plplotd`
+
+$as_echo "#define PLPLOT_H \"plplot.h\"" >>confdefs.h
+
+
+$as_echo "#define PLPLOTP_H \"plplotP.h\"" >>confdefs.h
+
+    check_plplotpkg_ok=yes
+  else
+    { $as_echo "$as_me:${as_lineno-$LINENO}: result: no" >&5
+$as_echo "no" >&6; }
+  fi
+fi
+if test x$check_plplotpkg_ok = xno; then
+  if test x = x; then
+    ac_fn_c_check_header_mongrel "$LINENO" "plplot.h" "ac_cv_header_plplot_h" "$ac_includes_default"
+if test "x$ac_cv_header_plplot_h" = x""yes; then :
+  check_plplothead_ok=yes
+else
+  check_plplothead_ok=no
+fi
+
+
+    if test x$check_plplothead_ok = xyes; then
+
+$as_echo "#define PLPLOT_H \"plplot.h\"" >>confdefs.h
+
+
+$as_echo "#define PLPLOTP_H \"plplotP.h\"" >>confdefs.h
+
+    else
+      ac_fn_c_check_header_mongrel "$LINENO" "plplot/plplot.h" "ac_cv_header_plplot_plplot_h" "$ac_includes_default"
+if test "x$ac_cv_header_plplot_plplot_h" = x""yes; then :
+  check_plplothead_ok=yes
+else
+  check_plplothead_ok=no
+fi
+
+
+      if test x$check_plplothead_ok = xyes; then
+
+$as_echo "#define PLPLOT_H \"plplot/plplot.h\"" >>confdefs.h
+
+
+$as_echo "#define PLPLOTP_H \"plplot/plplotP.h\"" >>confdefs.h
+
+      else
+        check_plplot_ok=no
+      fi
+    fi
+  else
+    ac_fn_c_check_header_mongrel "$LINENO" "/plplot.h" "ac_cv_header__plplot_h" "$ac_includes_default"
+if test "x$ac_cv_header__plplot_h" = x""yes; then :
+  check_plplothead_ok=yes
+else
+  check_plplothead_ok=no
+fi
+
+
+    if test x$check_plplothead_ok = xyes; then
+
+$as_echo "#define PLPLOT_H \"plplot.h\"" >>confdefs.h
+
+    
+$as_echo "#define PLPLOTP_H \"plplotP.h\"" >>confdefs.h
+    
+     PLPLOT_CFLAGS="-I"
+    else
+      check_plplot_ok=no
+    fi
+  fi
+  if test x = x; then
+    { $as_echo "$as_me:${as_lineno-$LINENO}: checking for c_plinit in -lplplotd" >&5
+$as_echo_n "checking for c_plinit in -lplplotd... " >&6; }
+if test "${ac_cv_lib_plplotd_c_plinit+set}" = set; then :
+  $as_echo_n "(cached) " >&6
+else
+  ac_check_lib_save_LIBS=$LIBS
+LIBS="-lplplotd  $LIBS"
+cat confdefs.h - <<_ACEOF >conftest.$ac_ext
+/* end confdefs.h.  */
+
+/* Override any GCC internal prototype to avoid an error.
+   Use char because int might match the return type of a GCC
+   builtin and then its argument prototype would still apply.  */
+#ifdef __cplusplus
+extern "C"
+#endif
+char c_plinit ();
+int
+main ()
+{
+return c_plinit ();
+  ;
+  return 0;
+}
+_ACEOF
+if ac_fn_c_try_link "$LINENO"; then :
+  ac_cv_lib_plplotd_c_plinit=yes
+else
+  ac_cv_lib_plplotd_c_plinit=no
+fi
+rm -f core conftest.err conftest.$ac_objext \
+    conftest$ac_exeext conftest.$ac_ext
+LIBS=$ac_check_lib_save_LIBS
+fi
+{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_lib_plplotd_c_plinit" >&5
+$as_echo "$ac_cv_lib_plplotd_c_plinit" >&6; }
+if test "x$ac_cv_lib_plplotd_c_plinit" = x""yes; then :
+  cat >>confdefs.h <<_ACEOF
+#define HAVE_LIBPLPLOTD 1
+_ACEOF
+
+  LIBS="-lplplotd $LIBS"
+
+else
+  check_plplot_ok=no
+fi
+
+    PLPLOT_LIBS="-lplplotd"
+  else
+    { $as_echo "$as_me:${as_lineno-$LINENO}: checking for c_plinit in -lplplotd" >&5
+$as_echo_n "checking for c_plinit in -lplplotd... " >&6; }
+if test "${ac_cv_lib_plplotd_c_plinit+set}" = set; then :
+  $as_echo_n "(cached) " >&6
+else
+  ac_check_lib_save_LIBS=$LIBS
+LIBS="-lplplotd -L $LIBS"
+cat confdefs.h - <<_ACEOF >conftest.$ac_ext
+/* end confdefs.h.  */
+
+/* Override any GCC internal prototype to avoid an error.
+   Use char because int might match the return type of a GCC
+   builtin and then its argument prototype would still apply.  */
+#ifdef __cplusplus
+extern "C"
+#endif
+char c_plinit ();
+int
+main ()
+{
+return c_plinit ();
+  ;
+  return 0;
+}
+_ACEOF
+if ac_fn_c_try_link "$LINENO"; then :
+  ac_cv_lib_plplotd_c_plinit=yes
+else
+  ac_cv_lib_plplotd_c_plinit=no
+fi
+rm -f core conftest.err conftest.$ac_objext \
+    conftest$ac_exeext conftest.$ac_ext
+LIBS=$ac_check_lib_save_LIBS
+fi
+{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_lib_plplotd_c_plinit" >&5
+$as_echo "$ac_cv_lib_plplotd_c_plinit" >&6; }
+if test "x$ac_cv_lib_plplotd_c_plinit" = x""yes; then :
+  cat >>confdefs.h <<_ACEOF
+#define HAVE_LIBPLPLOTD 1
+_ACEOF
+
+  LIBS="-lplplotd $LIBS"
+
+else
+  check_plplot_ok=no
+fi
+
+    PLPLOT_LIBS="-L -lplplotd"
+  fi
+fi
+
+LIBS="$OLIBS"
+if test x$check_plplot_ok = xyes; then
+
+
+
+$as_echo "#define HAVE_PLPLOT 1" >>confdefs.h
+
+fi
 
 
 #
@@ -13780,6 +13975,204 @@ fi
 
 
 
+
+
+
+PLPLOT_LIBS=""
+OLIBS="$LIBS"
+LIBS=""
+
+check_plplot_ok=yes
+check_plplotpkg_ok=no
+if test x = x && test x = x; then
+  { $as_echo "$as_me:${as_lineno-$LINENO}: checking for PLPlot pkg-config info" >&5
+$as_echo_n "checking for PLPlot pkg-config info... " >&6; }
+  if pkg-config --exists plplotd; then
+    { $as_echo "$as_me:${as_lineno-$LINENO}: result: yes" >&5
+$as_echo "yes" >&6; }
+    PLPLOT_CFLAGS=`pkg-config --cflags plplotd`
+    PLPLOT_LIBS=`pkg-config --libs plplotd`
+
+$as_echo "#define PLPLOT_H \"plplot.h\"" >>confdefs.h
+
+
+$as_echo "#define PLPLOTP_H \"plplotP.h\"" >>confdefs.h
+
+    check_plplotpkg_ok=yes
+  else
+    { $as_echo "$as_me:${as_lineno-$LINENO}: result: no" >&5
+$as_echo "no" >&6; }
+  fi
+fi
+if test x$check_plplotpkg_ok = xno; then
+  if test x = x; then
+    ac_fn_c_check_header_mongrel "$LINENO" "plplot.h" "ac_cv_header_plplot_h" "$ac_includes_default"
+if test "x$ac_cv_header_plplot_h" = x""yes; then :
+  check_plplothead_ok=yes
+else
+  check_plplothead_ok=no
+fi
+
+
+    if test x$check_plplothead_ok = xyes; then
+
+$as_echo "#define PLPLOT_H \"plplot.h\"" >>confdefs.h
+
+
+$as_echo "#define PLPLOTP_H \"plplotP.h\"" >>confdefs.h
+
+    else
+      ac_fn_c_check_header_mongrel "$LINENO" "plplot/plplot.h" "ac_cv_header_plplot_plplot_h" "$ac_includes_default"
+if test "x$ac_cv_header_plplot_plplot_h" = x""yes; then :
+  check_plplothead_ok=yes
+else
+  check_plplothead_ok=no
+fi
+
+
+      if test x$check_plplothead_ok = xyes; then
+
+$as_echo "#define PLPLOT_H \"plplot/plplot.h\"" >>confdefs.h
+
+
+$as_echo "#define PLPLOTP_H \"plplot/plplotP.h\"" >>confdefs.h
+
+      else
+        check_plplot_ok=no
+      fi
+    fi
+  else
+    ac_fn_c_check_header_mongrel "$LINENO" "/plplot.h" "ac_cv_header__plplot_h" "$ac_includes_default"
+if test "x$ac_cv_header__plplot_h" = x""yes; then :
+  check_plplothead_ok=yes
+else
+  check_plplothead_ok=no
+fi
+
+
+    if test x$check_plplothead_ok = xyes; then
+
+$as_echo "#define PLPLOT_H \"plplot.h\"" >>confdefs.h
+
+
+$as_echo "#define PLPLOTP_H \"plplotP.h\"" >>confdefs.h
+
+     PLPLOT_CFLAGS="-I"
+    else
+      check_plplot_ok=no
+    fi
+  fi
+  if test x = x; then
+    { $as_echo "$as_me:${as_lineno-$LINENO}: checking for c_plinit in -lplplotd" >&5
+$as_echo_n "checking for c_plinit in -lplplotd... " >&6; }
+if test "${ac_cv_lib_plplotd_c_plinit+set}" = set; then :
+  $as_echo_n "(cached) " >&6
+else
+  ac_check_lib_save_LIBS=$LIBS
+LIBS="-lplplotd  $LIBS"
+cat confdefs.h - <<_ACEOF >conftest.$ac_ext
+/* end confdefs.h.  */
+
+/* Override any GCC internal prototype to avoid an error.
+   Use char because int might match the return type of a GCC
+   builtin and then its argument prototype would still apply.  */
+#ifdef __cplusplus
+extern "C"
+#endif
+char c_plinit ();
+int
+main ()
+{
+return c_plinit ();
+  ;
+  return 0;
+}
+_ACEOF
+if ac_fn_c_try_link "$LINENO"; then :
+  ac_cv_lib_plplotd_c_plinit=yes
+else
+  ac_cv_lib_plplotd_c_plinit=no
+fi
+rm -f core conftest.err conftest.$ac_objext \
+    conftest$ac_exeext conftest.$ac_ext
+LIBS=$ac_check_lib_save_LIBS
+fi
+{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_lib_plplotd_c_plinit" >&5
+$as_echo "$ac_cv_lib_plplotd_c_plinit" >&6; }
+if test "x$ac_cv_lib_plplotd_c_plinit" = x""yes; then :
+  cat >>confdefs.h <<_ACEOF
+#define HAVE_LIBPLPLOTD 1
+_ACEOF
+
+  LIBS="-lplplotd $LIBS"
+
+else
+  check_plplot_ok=no
+fi
+
+    PLPLOT_LIBS="-lplplotd"
+  else
+    { $as_echo "$as_me:${as_lineno-$LINENO}: checking for c_plinit in -lplplotd" >&5
+$as_echo_n "checking for c_plinit in -lplplotd... " >&6; }
+if test "${ac_cv_lib_plplotd_c_plinit+set}" = set; then :
+  $as_echo_n "(cached) " >&6
+else
+  ac_check_lib_save_LIBS=$LIBS
+LIBS="-lplplotd -L $LIBS"
+cat confdefs.h - <<_ACEOF >conftest.$ac_ext
+/* end confdefs.h.  */
+
+/* Override any GCC internal prototype to avoid an error.
+   Use char because int might match the return type of a GCC
+   builtin and then its argument prototype would still apply.  */
+#ifdef __cplusplus
+extern "C"
+#endif
+char c_plinit ();
+int
+main ()
+{
+return c_plinit ();
+  ;
+  return 0;
+}
+_ACEOF
+if ac_fn_c_try_link "$LINENO"; then :
+  ac_cv_lib_plplotd_c_plinit=yes
+else
+  ac_cv_lib_plplotd_c_plinit=no
+fi
+rm -f core conftest.err conftest.$ac_objext \
+    conftest$ac_exeext conftest.$ac_ext
+LIBS=$ac_check_lib_save_LIBS
+fi
+{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_lib_plplotd_c_plinit" >&5
+$as_echo "$ac_cv_lib_plplotd_c_plinit" >&6; }
+if test "x$ac_cv_lib_plplotd_c_plinit" = x""yes; then :
+  cat >>confdefs.h <<_ACEOF
+#define HAVE_LIBPLPLOTD 1
+_ACEOF
+
+  LIBS="-lplplotd $LIBS"
+
+else
+  check_plplot_ok=no
+fi
+
+    PLPLOT_LIBS="-L -lplplotd"
+  fi
+fi
+
+LIBS="$OLIBS"
+if test x$check_plplot_ok = xyes; then
+
+
+
+$as_echo "#define HAVE_PLPLOT 1" >>confdefs.h
+
+fi
+
+
 #
 # Handle user hints
 #
@@ -15299,7 +15692,7 @@ fi
 
 
 
-ac_config_files="$ac_config_files plplot/Makefile plplot/lib/Makefile nucleus/Makefile ajax/Makefile ajax/expat/Makefile ajax/zlib/Makefile ajax/core/Makefile ajax/graphics/Makefile ajax/ensembl/Makefile ajax/ajaxdb/Makefile ajax/acd/Makefile emboss/Makefile emboss/acd/Makefile test/Makefile test/data/Makefile test/embl/Makefile test/genbank/Makefile test/pir/Makefile test/swiss/Makefile test/swnew/Makefile test/testdb/Makefile emboss/data/Makefile emboss/data/AAINDEX/Makefile emboss/data/CODONS/Makefile emboss/data/REBASE/Makefile emboss/data/JASPAR_CORE/Makefile emboss/data/JASPAR_FAM/Makefile emboss/data/JASPAR_PHYLOFACTS/Makefile emboss/data/JASPAR_CNE/Makefile emboss/data/JASPAR_POLII/Makefile emboss/data/JASPAR_SPLICE/Makefile emboss/data/JASPAR_PBM/Makefile emboss/data/JASPAR_PBM_HLH/Makefile emboss/data/JASPAR_PBM_HOMEO/Makefile emboss/data/PRINTS/Makefile emboss/data/PROSITE/Makefile doc/Makefile doc/manuals/Makefile doc/tutorials/Makefile doc/programs/Makefile doc/programs/html/Makefile doc/programs/text/Makefile jemboss/Makefile jemboss/images/Makefile jemboss/lib/Makefile jemboss/lib/axis/Makefile jemboss/resources/Makefile jemboss/utils/Makefile Makefile"
+ac_config_files="$ac_config_files nucleus/Makefile ajax/Makefile ajax/core/Makefile ajax/graphics/Makefile ajax/ensembl/Makefile ajax/ajaxdb/Makefile ajax/acd/Makefile emboss/Makefile emboss/acd/Makefile test/Makefile test/data/Makefile test/embl/Makefile test/genbank/Makefile test/pir/Makefile test/swiss/Makefile test/swnew/Makefile test/testdb/Makefile emboss/data/Makefile emboss/data/AAINDEX/Makefile emboss/data/CODONS/Makefile emboss/data/REBASE/Makefile emboss/data/JASPAR_CORE/Makefile emboss/data/JASPAR_FAM/Makefile emboss/data/JASPAR_PHYLOFACTS/Makefile emboss/data/JASPAR_CNE/Makefile emboss/data/JASPAR_POLII/Makefile emboss/data/JASPAR_SPLICE/Makefile emboss/data/JASPAR_PBM/Makefile emboss/data/JASPAR_PBM_HLH/Makefile emboss/data/JASPAR_PBM_HOMEO/Makefile emboss/data/PRINTS/Makefile emboss/data/PROSITE/Makefile doc/Makefile doc/manuals/Makefile doc/tutorials/Makefile doc/programs/Makefile doc/programs/html/Makefile doc/programs/text/Makefile jemboss/Makefile jemboss/images/Makefile jemboss/lib/Makefile jemboss/lib/axis/Makefile jemboss/resources/Makefile jemboss/utils/Makefile Makefile"
 
 cat >confcache <<\_ACEOF
 # This file is a shell script that caches the results of configure
@@ -16353,12 +16746,8 @@ do
   case $ac_config_target in
     "depfiles") CONFIG_COMMANDS="$CONFIG_COMMANDS depfiles" ;;
     "libtool") CONFIG_COMMANDS="$CONFIG_COMMANDS libtool" ;;
-    "plplot/Makefile") CONFIG_FILES="$CONFIG_FILES plplot/Makefile" ;;
-    "plplot/lib/Makefile") CONFIG_FILES="$CONFIG_FILES plplot/lib/Makefile" ;;
     "nucleus/Makefile") CONFIG_FILES="$CONFIG_FILES nucleus/Makefile" ;;
     "ajax/Makefile") CONFIG_FILES="$CONFIG_FILES ajax/Makefile" ;;
-    "ajax/expat/Makefile") CONFIG_FILES="$CONFIG_FILES ajax/expat/Makefile" ;;
-    "ajax/zlib/Makefile") CONFIG_FILES="$CONFIG_FILES ajax/zlib/Makefile" ;;
     "ajax/core/Makefile") CONFIG_FILES="$CONFIG_FILES ajax/core/Makefile" ;;
     "ajax/graphics/Makefile") CONFIG_FILES="$CONFIG_FILES ajax/graphics/Makefile" ;;
     "ajax/ensembl/Makefile") CONFIG_FILES="$CONFIG_FILES ajax/ensembl/Makefile" ;;
diff -up EMBOSS-6.3.1/emboss/Makefile.am.system-plplot EMBOSS-6.3.1/emboss/Makefile.am
--- EMBOSS-6.3.1/emboss/Makefile.am.system-plplot	2010-08-03 08:01:37.963254649 -0400
+++ EMBOSS-6.3.1/emboss/Makefile.am	2010-08-03 08:02:04.639273502 -0400
@@ -79,14 +79,14 @@ wordcount wordfinder wordmatch wossname 
 yank
 
 if !ESYSTEMLIBS
-EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
+EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
 endif
 
 INCLUDES = -I$(top_srcdir)/nucleus \
-	$(EXTRA_INCLUDES) \
+	$(EXTRA_INCLUDES) $(PLPLOT_CFLAGS) \
 	-I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/graphics \
 	-I$(top_srcdir)/ajax/ensembl -I$(top_srcdir)/ajax/ajaxdb \
-	-I$(top_srcdir)/ajax/acd -I$(top_srcdir)/plplot
+	-I$(top_srcdir)/ajax/acd
 
 
 aaindexextract_SOURCES = aaindexextract.c
@@ -319,7 +319,7 @@ testplot_SOURCES = testplot.c
 treetypedisplay_SOURCES = treetypedisplay.c
 
 if !ESYSTEMLIBS
-EXTRA_LDS = ../ajax/zlib/libezlib.la ../ajax/expat/libeexpat.la ../ajax/pcre/libepcre.la 
+EXTRA_LDS = ../ajax/zlib/libezlib.la ../ajax/expat/libeexpat.la ../ajax/pcre/libepcre.la ../plplot/libeplplot.la
 endif
 
 
@@ -327,7 +327,7 @@ LDADD = ../nucleus/libnucleus.la ../ajax
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
 	$(EXTRA_LDS) \
-	../plplot/libeplplot.la \
+	$(PLPLOT_LIBS) \
 	$(XLIB)
 
 pkgdata_DATA = emboss.default.template
diff -up EMBOSS-6.3.1/emboss/Makefile.in.system-plplot EMBOSS-6.3.1/emboss/Makefile.in
--- EMBOSS-6.3.1/emboss/Makefile.in.system-plplot	2010-08-03 08:01:37.968108260 -0400
+++ EMBOSS-6.3.1/emboss/Makefile.in	2010-08-03 08:02:28.757235378 -0400
@@ -119,7 +119,8 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 \
 	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
 	$(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
@@ -137,14 +138,14 @@ aaindexextract_DEPENDENCIES = ../nucleus
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_abiview_OBJECTS = abiview.$(OBJEXT)
 abiview_OBJECTS = $(am_abiview_OBJECTS)
 abiview_LDADD = $(LDADD)
 abiview_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_acdc_OBJECTS = acdc.$(OBJEXT)
 acdc_OBJECTS = $(am_acdc_OBJECTS)
@@ -152,7 +153,7 @@ acdc_LDADD = $(LDADD)
 acdc_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_acdgalaxy_OBJECTS = acdgalaxy.$(OBJEXT)
 acdgalaxy_OBJECTS = $(am_acdgalaxy_OBJECTS)
@@ -161,14 +162,14 @@ acdgalaxy_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_acdlog_OBJECTS = acdlog.$(OBJEXT)
 acdlog_OBJECTS = $(am_acdlog_OBJECTS)
 acdlog_LDADD = $(LDADD)
 acdlog_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_acdpretty_OBJECTS = acdpretty.$(OBJEXT)
 acdpretty_OBJECTS = $(am_acdpretty_OBJECTS)
@@ -177,7 +178,7 @@ acdpretty_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_acdrelations_OBJECTS = acdrelations.$(OBJEXT)
 acdrelations_OBJECTS = $(am_acdrelations_OBJECTS)
 acdrelations_LDADD = $(LDADD)
@@ -185,14 +186,14 @@ acdrelations_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_acdtable_OBJECTS = acdtable.$(OBJEXT)
 acdtable_OBJECTS = $(am_acdtable_OBJECTS)
 acdtable_LDADD = $(LDADD)
 acdtable_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_acdtrace_OBJECTS = acdtrace.$(OBJEXT)
 acdtrace_OBJECTS = $(am_acdtrace_OBJECTS)
@@ -200,7 +201,7 @@ acdtrace_LDADD = $(LDADD)
 acdtrace_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_acdvalid_OBJECTS = acdvalid.$(OBJEXT)
 acdvalid_OBJECTS = $(am_acdvalid_OBJECTS)
@@ -208,7 +209,7 @@ acdvalid_LDADD = $(LDADD)
 acdvalid_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_acdxsd_OBJECTS = acdxsd.$(OBJEXT)
 acdxsd_OBJECTS = $(am_acdxsd_OBJECTS)
@@ -216,7 +217,7 @@ acdxsd_LDADD = $(LDADD)
 acdxsd_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_ajtest_OBJECTS = ajtest.$(OBJEXT)
 ajtest_OBJECTS = $(am_ajtest_OBJECTS)
@@ -224,7 +225,7 @@ ajtest_LDADD = $(LDADD)
 ajtest_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_aligncopy_OBJECTS = aligncopy.$(OBJEXT)
 aligncopy_OBJECTS = $(am_aligncopy_OBJECTS)
@@ -233,7 +234,7 @@ aligncopy_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_aligncopypair_OBJECTS = aligncopypair.$(OBJEXT)
 aligncopypair_OBJECTS = $(am_aligncopypair_OBJECTS)
 aligncopypair_LDADD = $(LDADD)
@@ -241,7 +242,7 @@ aligncopypair_DEPENDENCIES = ../nucleus/
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_antigenic_OBJECTS = antigenic.$(OBJEXT)
 antigenic_OBJECTS = $(am_antigenic_OBJECTS)
 antigenic_LDADD = $(LDADD)
@@ -249,7 +250,7 @@ antigenic_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_backtranambig_OBJECTS = backtranambig.$(OBJEXT)
 backtranambig_OBJECTS = $(am_backtranambig_OBJECTS)
 backtranambig_LDADD = $(LDADD)
@@ -257,7 +258,7 @@ backtranambig_DEPENDENCIES = ../nucleus/
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_backtranseq_OBJECTS = backtranseq.$(OBJEXT)
 backtranseq_OBJECTS = $(am_backtranseq_OBJECTS)
 backtranseq_LDADD = $(LDADD)
@@ -265,14 +266,14 @@ backtranseq_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_banana_OBJECTS = banana.$(OBJEXT)
 banana_OBJECTS = $(am_banana_OBJECTS)
 banana_LDADD = $(LDADD)
 banana_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_biosed_OBJECTS = biosed.$(OBJEXT)
 biosed_OBJECTS = $(am_biosed_OBJECTS)
@@ -280,7 +281,7 @@ biosed_LDADD = $(LDADD)
 biosed_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_btwisted_OBJECTS = btwisted.$(OBJEXT)
 btwisted_OBJECTS = $(am_btwisted_OBJECTS)
@@ -288,7 +289,7 @@ btwisted_LDADD = $(LDADD)
 btwisted_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_cai_OBJECTS = cai.$(OBJEXT)
 cai_OBJECTS = $(am_cai_OBJECTS)
@@ -296,7 +297,7 @@ cai_LDADD = $(LDADD)
 cai_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_chaos_OBJECTS = chaos.$(OBJEXT)
 chaos_OBJECTS = $(am_chaos_OBJECTS)
@@ -304,7 +305,7 @@ chaos_LDADD = $(LDADD)
 chaos_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_charge_OBJECTS = charge.$(OBJEXT)
 charge_OBJECTS = $(am_charge_OBJECTS)
@@ -312,7 +313,7 @@ charge_LDADD = $(LDADD)
 charge_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_checktrans_OBJECTS = checktrans.$(OBJEXT)
 checktrans_OBJECTS = $(am_checktrans_OBJECTS)
@@ -321,14 +322,14 @@ checktrans_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_chips_OBJECTS = chips.$(OBJEXT)
 chips_OBJECTS = $(am_chips_OBJECTS)
 chips_LDADD = $(LDADD)
 chips_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_cirdna_OBJECTS = cirdna.$(OBJEXT)
 cirdna_OBJECTS = $(am_cirdna_OBJECTS)
@@ -336,7 +337,7 @@ cirdna_LDADD = $(LDADD)
 cirdna_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_codcmp_OBJECTS = codcmp.$(OBJEXT)
 codcmp_OBJECTS = $(am_codcmp_OBJECTS)
@@ -344,7 +345,7 @@ codcmp_LDADD = $(LDADD)
 codcmp_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 codcopy_SOURCES = codcopy.c
 codcopy_OBJECTS = codcopy.$(OBJEXT)
@@ -352,7 +353,7 @@ codcopy_LDADD = $(LDADD)
 codcopy_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_coderet_OBJECTS = coderet.$(OBJEXT)
 coderet_OBJECTS = $(am_coderet_OBJECTS)
@@ -360,7 +361,7 @@ coderet_LDADD = $(LDADD)
 coderet_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_complex_OBJECTS = complex.$(OBJEXT)
 complex_OBJECTS = $(am_complex_OBJECTS)
@@ -368,7 +369,7 @@ complex_LDADD = $(LDADD)
 complex_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_compseq_OBJECTS = compseq.$(OBJEXT)
 compseq_OBJECTS = $(am_compseq_OBJECTS)
@@ -376,7 +377,7 @@ compseq_LDADD = $(LDADD)
 compseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_cons_OBJECTS = cons.$(OBJEXT)
 cons_OBJECTS = $(am_cons_OBJECTS)
@@ -384,7 +385,7 @@ cons_LDADD = $(LDADD)
 cons_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_consambig_OBJECTS = consambig.$(OBJEXT)
 consambig_OBJECTS = $(am_consambig_OBJECTS)
@@ -393,7 +394,7 @@ consambig_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_corbatest_OBJECTS = corbatest.$(OBJEXT)
 corbatest_OBJECTS = $(am_corbatest_OBJECTS)
 corbatest_LDADD = $(LDADD)
@@ -401,14 +402,14 @@ corbatest_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_cpgplot_OBJECTS = cpgplot.$(OBJEXT)
 cpgplot_OBJECTS = $(am_cpgplot_OBJECTS)
 cpgplot_LDADD = $(LDADD)
 cpgplot_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_cpgreport_OBJECTS = cpgreport.$(OBJEXT)
 cpgreport_OBJECTS = $(am_cpgreport_OBJECTS)
@@ -417,14 +418,14 @@ cpgreport_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_cusp_OBJECTS = cusp.$(OBJEXT)
 cusp_OBJECTS = $(am_cusp_OBJECTS)
 cusp_LDADD = $(LDADD)
 cusp_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_cutgextract_OBJECTS = cutgextract.$(OBJEXT)
 cutgextract_OBJECTS = $(am_cutgextract_OBJECTS)
@@ -433,14 +434,14 @@ cutgextract_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_cutseq_OBJECTS = cutseq.$(OBJEXT)
 cutseq_OBJECTS = $(am_cutseq_OBJECTS)
 cutseq_LDADD = $(LDADD)
 cutseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dan_OBJECTS = dan.$(OBJEXT)
 dan_OBJECTS = $(am_dan_OBJECTS)
@@ -448,7 +449,7 @@ dan_LDADD = $(LDADD)
 dan_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dbiblast_OBJECTS = dbiblast.$(OBJEXT)
 dbiblast_OBJECTS = $(am_dbiblast_OBJECTS)
@@ -456,7 +457,7 @@ dbiblast_LDADD = $(LDADD)
 dbiblast_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dbifasta_OBJECTS = dbifasta.$(OBJEXT)
 dbifasta_OBJECTS = $(am_dbifasta_OBJECTS)
@@ -464,7 +465,7 @@ dbifasta_LDADD = $(LDADD)
 dbifasta_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dbiflat_OBJECTS = dbiflat.$(OBJEXT)
 dbiflat_OBJECTS = $(am_dbiflat_OBJECTS)
@@ -472,7 +473,7 @@ dbiflat_LDADD = $(LDADD)
 dbiflat_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dbigcg_OBJECTS = dbigcg.$(OBJEXT)
 dbigcg_OBJECTS = $(am_dbigcg_OBJECTS)
@@ -480,7 +481,7 @@ dbigcg_LDADD = $(LDADD)
 dbigcg_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dbxfasta_OBJECTS = dbxfasta.$(OBJEXT)
 dbxfasta_OBJECTS = $(am_dbxfasta_OBJECTS)
@@ -488,7 +489,7 @@ dbxfasta_LDADD = $(LDADD)
 dbxfasta_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dbxflat_OBJECTS = dbxflat.$(OBJEXT)
 dbxflat_OBJECTS = $(am_dbxflat_OBJECTS)
@@ -496,7 +497,7 @@ dbxflat_LDADD = $(LDADD)
 dbxflat_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dbxgcg_OBJECTS = dbxgcg.$(OBJEXT)
 dbxgcg_OBJECTS = $(am_dbxgcg_OBJECTS)
@@ -504,7 +505,7 @@ dbxgcg_LDADD = $(LDADD)
 dbxgcg_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_degapseq_OBJECTS = degapseq.$(OBJEXT)
 degapseq_OBJECTS = $(am_degapseq_OBJECTS)
@@ -512,7 +513,7 @@ degapseq_LDADD = $(LDADD)
 degapseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_density_OBJECTS = density.$(OBJEXT)
 density_OBJECTS = $(am_density_OBJECTS)
@@ -520,7 +521,7 @@ density_LDADD = $(LDADD)
 density_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_descseq_OBJECTS = descseq.$(OBJEXT)
 descseq_OBJECTS = $(am_descseq_OBJECTS)
@@ -528,7 +529,7 @@ descseq_LDADD = $(LDADD)
 descseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_diffseq_OBJECTS = diffseq.$(OBJEXT)
 diffseq_OBJECTS = $(am_diffseq_OBJECTS)
@@ -536,7 +537,7 @@ diffseq_LDADD = $(LDADD)
 diffseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_digest_OBJECTS = digest.$(OBJEXT)
 digest_OBJECTS = $(am_digest_OBJECTS)
@@ -544,7 +545,7 @@ digest_LDADD = $(LDADD)
 digest_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_distmat_OBJECTS = distmat.$(OBJEXT)
 distmat_OBJECTS = $(am_distmat_OBJECTS)
@@ -552,7 +553,7 @@ distmat_LDADD = $(LDADD)
 distmat_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 domtesta_SOURCES = domtesta.c
 domtesta_OBJECTS = domtesta.$(OBJEXT)
@@ -560,7 +561,7 @@ domtesta_LDADD = $(LDADD)
 domtesta_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 domtestb_SOURCES = domtestb.c
 domtestb_OBJECTS = domtestb.$(OBJEXT)
@@ -568,7 +569,7 @@ domtestb_LDADD = $(LDADD)
 domtestb_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 domtestc_SOURCES = domtestc.c
 domtestc_OBJECTS = domtestc.$(OBJEXT)
@@ -576,7 +577,7 @@ domtestc_LDADD = $(LDADD)
 domtestc_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 domtestd_SOURCES = domtestd.c
 domtestd_OBJECTS = domtestd.$(OBJEXT)
@@ -584,7 +585,7 @@ domtestd_LDADD = $(LDADD)
 domtestd_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dotmatcher_OBJECTS = dotmatcher.$(OBJEXT)
 dotmatcher_OBJECTS = $(am_dotmatcher_OBJECTS)
@@ -593,14 +594,14 @@ dotmatcher_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_dotpath_OBJECTS = dotpath.$(OBJEXT)
 dotpath_OBJECTS = $(am_dotpath_OBJECTS)
 dotpath_LDADD = $(LDADD)
 dotpath_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dottup_OBJECTS = dottup.$(OBJEXT)
 dottup_OBJECTS = $(am_dottup_OBJECTS)
@@ -608,7 +609,7 @@ dottup_LDADD = $(LDADD)
 dottup_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_dreg_OBJECTS = dreg.$(OBJEXT)
 dreg_OBJECTS = $(am_dreg_OBJECTS)
@@ -616,7 +617,7 @@ dreg_LDADD = $(LDADD)
 dreg_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_edamclean_OBJECTS = edamclean.$(OBJEXT)
 edamclean_OBJECTS = $(am_edamclean_OBJECTS)
@@ -625,14 +626,14 @@ edamclean_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_edialign_OBJECTS = edialign.$(OBJEXT)
 edialign_OBJECTS = $(am_edialign_OBJECTS)
 edialign_LDADD = $(LDADD)
 edialign_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_einverted_OBJECTS = einverted.$(OBJEXT)
 einverted_OBJECTS = $(am_einverted_OBJECTS)
@@ -641,7 +642,7 @@ einverted_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_embossdata_OBJECTS = embossdata.$(OBJEXT)
 embossdata_OBJECTS = $(am_embossdata_OBJECTS)
 embossdata_LDADD = $(LDADD)
@@ -649,7 +650,7 @@ embossdata_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_embossversion_OBJECTS = embossversion.$(OBJEXT)
 embossversion_OBJECTS = $(am_embossversion_OBJECTS)
 embossversion_LDADD = $(LDADD)
@@ -657,14 +658,14 @@ embossversion_DEPENDENCIES = ../nucleus/
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_emma_OBJECTS = emma.$(OBJEXT)
 emma_OBJECTS = $(am_emma_OBJECTS)
 emma_LDADD = $(LDADD)
 emma_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_emowse_OBJECTS = emowse.$(OBJEXT)
 emowse_OBJECTS = $(am_emowse_OBJECTS)
@@ -672,7 +673,7 @@ emowse_LDADD = $(LDADD)
 emowse_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_ensembltest_OBJECTS = ensembltest.$(OBJEXT)
 ensembltest_OBJECTS = $(am_ensembltest_OBJECTS)
@@ -681,14 +682,14 @@ ensembltest_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_entrails_OBJECTS = entrails.$(OBJEXT)
 entrails_OBJECTS = $(am_entrails_OBJECTS)
 entrails_LDADD = $(LDADD)
 entrails_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_entrailsbook_OBJECTS = entrailsbook.$(OBJEXT)
 entrailsbook_OBJECTS = $(am_entrailsbook_OBJECTS)
@@ -697,7 +698,7 @@ entrailsbook_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_entrailshtml_OBJECTS = entrailshtml.$(OBJEXT)
 entrailshtml_OBJECTS = $(am_entrailshtml_OBJECTS)
 entrailshtml_LDADD = $(LDADD)
@@ -705,7 +706,7 @@ entrailshtml_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_entrailswiki_OBJECTS = entrailswiki.$(OBJEXT)
 entrailswiki_OBJECTS = $(am_entrailswiki_OBJECTS)
 entrailswiki_LDADD = $(LDADD)
@@ -713,14 +714,14 @@ entrailswiki_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_entret_OBJECTS = entret.$(OBJEXT)
 entret_OBJECTS = $(am_entret_OBJECTS)
 entret_LDADD = $(LDADD)
 entret_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_epestfind_OBJECTS = epestfind.$(OBJEXT)
 epestfind_OBJECTS = $(am_epestfind_OBJECTS)
@@ -729,14 +730,14 @@ epestfind_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_eprimer3_OBJECTS = eprimer3.$(OBJEXT)
 eprimer3_OBJECTS = $(am_eprimer3_OBJECTS)
 eprimer3_LDADD = $(LDADD)
 eprimer3_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_equicktandem_OBJECTS = equicktandem.$(OBJEXT)
 equicktandem_OBJECTS = $(am_equicktandem_OBJECTS)
@@ -745,7 +746,7 @@ equicktandem_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_est2genome_OBJECTS = est2genome.$(OBJEXT)
 est2genome_OBJECTS = $(am_est2genome_OBJECTS)
 est2genome_LDADD = $(LDADD)
@@ -753,14 +754,14 @@ est2genome_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_etandem_OBJECTS = etandem.$(OBJEXT)
 etandem_OBJECTS = $(am_etandem_OBJECTS)
 etandem_LDADD = $(LDADD)
 etandem_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_extractalign_OBJECTS = extractalign.$(OBJEXT)
 extractalign_OBJECTS = $(am_extractalign_OBJECTS)
@@ -769,7 +770,7 @@ extractalign_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_extractfeat_OBJECTS = extractfeat.$(OBJEXT)
 extractfeat_OBJECTS = $(am_extractfeat_OBJECTS)
 extractfeat_LDADD = $(LDADD)
@@ -777,7 +778,7 @@ extractfeat_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_extractseq_OBJECTS = extractseq.$(OBJEXT)
 extractseq_OBJECTS = $(am_extractseq_OBJECTS)
 extractseq_LDADD = $(LDADD)
@@ -785,14 +786,14 @@ extractseq_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_featcopy_OBJECTS = featcopy.$(OBJEXT)
 featcopy_OBJECTS = $(am_featcopy_OBJECTS)
 featcopy_LDADD = $(LDADD)
 featcopy_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_featreport_OBJECTS = featreport.$(OBJEXT)
 featreport_OBJECTS = $(am_featreport_OBJECTS)
@@ -801,14 +802,14 @@ featreport_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_findkm_OBJECTS = findkm.$(OBJEXT)
 findkm_OBJECTS = $(am_findkm_OBJECTS)
 findkm_LDADD = $(LDADD)
 findkm_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_freak_OBJECTS = freak.$(OBJEXT)
 freak_OBJECTS = $(am_freak_OBJECTS)
@@ -816,7 +817,7 @@ freak_LDADD = $(LDADD)
 freak_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_fuzznuc_OBJECTS = fuzznuc.$(OBJEXT)
 fuzznuc_OBJECTS = $(am_fuzznuc_OBJECTS)
@@ -824,7 +825,7 @@ fuzznuc_LDADD = $(LDADD)
 fuzznuc_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_fuzzpro_OBJECTS = fuzzpro.$(OBJEXT)
 fuzzpro_OBJECTS = $(am_fuzzpro_OBJECTS)
@@ -832,7 +833,7 @@ fuzzpro_LDADD = $(LDADD)
 fuzzpro_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_fuzztran_OBJECTS = fuzztran.$(OBJEXT)
 fuzztran_OBJECTS = $(am_fuzztran_OBJECTS)
@@ -840,7 +841,7 @@ fuzztran_LDADD = $(LDADD)
 fuzztran_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_garnier_OBJECTS = garnier.$(OBJEXT)
 garnier_OBJECTS = $(am_garnier_OBJECTS)
@@ -848,7 +849,7 @@ garnier_LDADD = $(LDADD)
 garnier_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_geecee_OBJECTS = geecee.$(OBJEXT)
 geecee_OBJECTS = $(am_geecee_OBJECTS)
@@ -856,7 +857,7 @@ geecee_LDADD = $(LDADD)
 geecee_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_getorf_OBJECTS = getorf.$(OBJEXT)
 getorf_OBJECTS = $(am_getorf_OBJECTS)
@@ -864,7 +865,7 @@ getorf_LDADD = $(LDADD)
 getorf_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_helixturnhelix_OBJECTS = helixturnhelix.$(OBJEXT)
 helixturnhelix_OBJECTS = $(am_helixturnhelix_OBJECTS)
@@ -873,7 +874,7 @@ helixturnhelix_DEPENDENCIES = ../nucleus
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_histogramtest_OBJECTS = histogramtest.$(OBJEXT)
 histogramtest_OBJECTS = $(am_histogramtest_OBJECTS)
 histogramtest_LDADD = $(LDADD)
@@ -881,14 +882,14 @@ histogramtest_DEPENDENCIES = ../nucleus/
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_hmoment_OBJECTS = hmoment.$(OBJEXT)
 hmoment_OBJECTS = $(am_hmoment_OBJECTS)
 hmoment_LDADD = $(LDADD)
 hmoment_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_iep_OBJECTS = iep.$(OBJEXT)
 iep_OBJECTS = $(am_iep_OBJECTS)
@@ -896,7 +897,7 @@ iep_LDADD = $(LDADD)
 iep_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_infoalign_OBJECTS = infoalign.$(OBJEXT)
 infoalign_OBJECTS = $(am_infoalign_OBJECTS)
@@ -905,14 +906,14 @@ infoalign_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_infobase_OBJECTS = infobase.$(OBJEXT)
 infobase_OBJECTS = $(am_infobase_OBJECTS)
 infobase_LDADD = $(LDADD)
 infobase_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_inforesidue_OBJECTS = inforesidue.$(OBJEXT)
 inforesidue_OBJECTS = $(am_inforesidue_OBJECTS)
@@ -921,14 +922,14 @@ inforesidue_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_infoseq_OBJECTS = infoseq.$(OBJEXT)
 infoseq_OBJECTS = $(am_infoseq_OBJECTS)
 infoseq_LDADD = $(LDADD)
 infoseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_intconv_OBJECTS = intconv.$(OBJEXT)
 intconv_OBJECTS = $(am_intconv_OBJECTS)
@@ -936,7 +937,7 @@ intconv_LDADD = $(LDADD)
 intconv_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_isochore_OBJECTS = isochore.$(OBJEXT)
 isochore_OBJECTS = $(am_isochore_OBJECTS)
@@ -944,7 +945,7 @@ isochore_LDADD = $(LDADD)
 isochore_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_jaspextract_OBJECTS = jaspextract.$(OBJEXT)
 jaspextract_OBJECTS = $(am_jaspextract_OBJECTS)
@@ -953,14 +954,14 @@ jaspextract_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_jaspscan_OBJECTS = jaspscan.$(OBJEXT)
 jaspscan_OBJECTS = $(am_jaspscan_OBJECTS)
 jaspscan_LDADD = $(LDADD)
 jaspscan_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_jembossctl_OBJECTS = jembossctl.$(OBJEXT)
 jembossctl_OBJECTS = $(am_jembossctl_OBJECTS)
@@ -969,14 +970,14 @@ jembossctl_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_lindna_OBJECTS = lindna.$(OBJEXT)
 lindna_OBJECTS = $(am_lindna_OBJECTS)
 lindna_LDADD = $(LDADD)
 lindna_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_listor_OBJECTS = listor.$(OBJEXT)
 listor_OBJECTS = $(am_listor_OBJECTS)
@@ -984,7 +985,7 @@ listor_LDADD = $(LDADD)
 listor_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 makenucseq_SOURCES = makenucseq.c
 makenucseq_OBJECTS = makenucseq.$(OBJEXT)
@@ -993,7 +994,7 @@ makenucseq_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 makeprotseq_SOURCES = makeprotseq.c
 makeprotseq_OBJECTS = makeprotseq.$(OBJEXT)
 makeprotseq_LDADD = $(LDADD)
@@ -1001,14 +1002,14 @@ makeprotseq_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_marscan_OBJECTS = marscan.$(OBJEXT)
 marscan_OBJECTS = $(am_marscan_OBJECTS)
 marscan_LDADD = $(LDADD)
 marscan_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_martattributes_OBJECTS = martattributes.$(OBJEXT)
 martattributes_OBJECTS = $(am_martattributes_OBJECTS)
@@ -1017,7 +1018,7 @@ martattributes_DEPENDENCIES = ../nucleus
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_martdatasets_OBJECTS = martdatasets.$(OBJEXT)
 martdatasets_OBJECTS = $(am_martdatasets_OBJECTS)
 martdatasets_LDADD = $(LDADD)
@@ -1025,7 +1026,7 @@ martdatasets_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_martfilters_OBJECTS = martfilters.$(OBJEXT)
 martfilters_OBJECTS = $(am_martfilters_OBJECTS)
 martfilters_LDADD = $(LDADD)
@@ -1033,7 +1034,7 @@ martfilters_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_martquery_OBJECTS = martquery.$(OBJEXT)
 martquery_OBJECTS = $(am_martquery_OBJECTS)
 martquery_LDADD = $(LDADD)
@@ -1041,7 +1042,7 @@ martquery_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_martregistry_OBJECTS = martregistry.$(OBJEXT)
 martregistry_OBJECTS = $(am_martregistry_OBJECTS)
 martregistry_LDADD = $(LDADD)
@@ -1049,14 +1050,14 @@ martregistry_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_martseqs_OBJECTS = martseqs.$(OBJEXT)
 martseqs_OBJECTS = $(am_martseqs_OBJECTS)
 martseqs_LDADD = $(LDADD)
 martseqs_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_maskambignuc_OBJECTS = maskambignuc.$(OBJEXT)
 maskambignuc_OBJECTS = $(am_maskambignuc_OBJECTS)
@@ -1065,7 +1066,7 @@ maskambignuc_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_maskambigprot_OBJECTS = maskambigprot.$(OBJEXT)
 maskambigprot_OBJECTS = $(am_maskambigprot_OBJECTS)
 maskambigprot_LDADD = $(LDADD)
@@ -1073,14 +1074,14 @@ maskambigprot_DEPENDENCIES = ../nucleus/
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_maskfeat_OBJECTS = maskfeat.$(OBJEXT)
 maskfeat_OBJECTS = $(am_maskfeat_OBJECTS)
 maskfeat_LDADD = $(LDADD)
 maskfeat_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_maskseq_OBJECTS = maskseq.$(OBJEXT)
 maskseq_OBJECTS = $(am_maskseq_OBJECTS)
@@ -1088,7 +1089,7 @@ maskseq_LDADD = $(LDADD)
 maskseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_matcher_OBJECTS = matcher.$(OBJEXT)
 matcher_OBJECTS = $(am_matcher_OBJECTS)
@@ -1096,7 +1097,7 @@ matcher_LDADD = $(LDADD)
 matcher_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_megamerger_OBJECTS = megamerger.$(OBJEXT)
 megamerger_OBJECTS = $(am_megamerger_OBJECTS)
@@ -1105,14 +1106,14 @@ megamerger_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_merger_OBJECTS = merger.$(OBJEXT)
 merger_OBJECTS = $(am_merger_OBJECTS)
 merger_LDADD = $(LDADD)
 merger_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_msbar_OBJECTS = msbar.$(OBJEXT)
 msbar_OBJECTS = $(am_msbar_OBJECTS)
@@ -1120,7 +1121,7 @@ msbar_LDADD = $(LDADD)
 msbar_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_mwcontam_OBJECTS = mwcontam.$(OBJEXT)
 mwcontam_OBJECTS = $(am_mwcontam_OBJECTS)
@@ -1128,7 +1129,7 @@ mwcontam_LDADD = $(LDADD)
 mwcontam_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_mwfilter_OBJECTS = mwfilter.$(OBJEXT)
 mwfilter_OBJECTS = $(am_mwfilter_OBJECTS)
@@ -1136,7 +1137,7 @@ mwfilter_LDADD = $(LDADD)
 mwfilter_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_needle_OBJECTS = needle.$(OBJEXT)
 needle_OBJECTS = $(am_needle_OBJECTS)
@@ -1144,7 +1145,7 @@ needle_LDADD = $(LDADD)
 needle_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_needleall_OBJECTS = needleall.$(OBJEXT)
 needleall_OBJECTS = $(am_needleall_OBJECTS)
@@ -1153,14 +1154,14 @@ needleall_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_newcoils_OBJECTS = newcoils.$(OBJEXT)
 newcoils_OBJECTS = $(am_newcoils_OBJECTS)
 newcoils_LDADD = $(LDADD)
 newcoils_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_newcpgreport_OBJECTS = newcpgreport.$(OBJEXT)
 newcpgreport_OBJECTS = $(am_newcpgreport_OBJECTS)
@@ -1169,7 +1170,7 @@ newcpgreport_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_newcpgseek_OBJECTS = newcpgseek.$(OBJEXT)
 newcpgseek_OBJECTS = $(am_newcpgseek_OBJECTS)
 newcpgseek_LDADD = $(LDADD)
@@ -1177,14 +1178,14 @@ newcpgseek_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_newseq_OBJECTS = newseq.$(OBJEXT)
 newseq_OBJECTS = $(am_newseq_OBJECTS)
 newseq_LDADD = $(LDADD)
 newseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_nohtml_OBJECTS = nohtml.$(OBJEXT)
 nohtml_OBJECTS = $(am_nohtml_OBJECTS)
@@ -1192,7 +1193,7 @@ nohtml_LDADD = $(LDADD)
 nohtml_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_noreturn_OBJECTS = noreturn.$(OBJEXT)
 noreturn_OBJECTS = $(am_noreturn_OBJECTS)
@@ -1200,7 +1201,7 @@ noreturn_LDADD = $(LDADD)
 noreturn_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_nospace_OBJECTS = nospace.$(OBJEXT)
 nospace_OBJECTS = $(am_nospace_OBJECTS)
@@ -1208,7 +1209,7 @@ nospace_LDADD = $(LDADD)
 nospace_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_notab_OBJECTS = notab.$(OBJEXT)
 notab_OBJECTS = $(am_notab_OBJECTS)
@@ -1216,7 +1217,7 @@ notab_LDADD = $(LDADD)
 notab_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_notseq_OBJECTS = notseq.$(OBJEXT)
 notseq_OBJECTS = $(am_notseq_OBJECTS)
@@ -1224,7 +1225,7 @@ notseq_LDADD = $(LDADD)
 notseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_nthseq_OBJECTS = nthseq.$(OBJEXT)
 nthseq_OBJECTS = $(am_nthseq_OBJECTS)
@@ -1232,7 +1233,7 @@ nthseq_LDADD = $(LDADD)
 nthseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_nthseqset_OBJECTS = nthseqset.$(OBJEXT)
 nthseqset_OBJECTS = $(am_nthseqset_OBJECTS)
@@ -1241,14 +1242,14 @@ nthseqset_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_octanol_OBJECTS = octanol.$(OBJEXT)
 octanol_OBJECTS = $(am_octanol_OBJECTS)
 octanol_LDADD = $(LDADD)
 octanol_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_oddcomp_OBJECTS = oddcomp.$(OBJEXT)
 oddcomp_OBJECTS = $(am_oddcomp_OBJECTS)
@@ -1256,7 +1257,7 @@ oddcomp_LDADD = $(LDADD)
 oddcomp_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_origsplitter_OBJECTS = origsplitter.$(OBJEXT)
 origsplitter_OBJECTS = $(am_origsplitter_OBJECTS)
@@ -1265,7 +1266,7 @@ origsplitter_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_origunion_OBJECTS = origunion.$(OBJEXT)
 origunion_OBJECTS = $(am_origunion_OBJECTS)
 origunion_LDADD = $(LDADD)
@@ -1273,7 +1274,7 @@ origunion_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_palindrome_OBJECTS = palindrome.$(OBJEXT)
 palindrome_OBJECTS = $(am_palindrome_OBJECTS)
 palindrome_LDADD = $(LDADD)
@@ -1281,14 +1282,14 @@ palindrome_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_pasteseq_OBJECTS = pasteseq.$(OBJEXT)
 pasteseq_OBJECTS = $(am_pasteseq_OBJECTS)
 pasteseq_LDADD = $(LDADD)
 pasteseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_patmatdb_OBJECTS = patmatdb.$(OBJEXT)
 patmatdb_OBJECTS = $(am_patmatdb_OBJECTS)
@@ -1296,7 +1297,7 @@ patmatdb_LDADD = $(LDADD)
 patmatdb_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_patmatmotifs_OBJECTS = patmatmotifs.$(OBJEXT)
 patmatmotifs_OBJECTS = $(am_patmatmotifs_OBJECTS)
@@ -1305,7 +1306,7 @@ patmatmotifs_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_patmattest_OBJECTS = patmattest.$(OBJEXT)
 patmattest_OBJECTS = $(am_patmattest_OBJECTS)
 patmattest_LDADD = $(LDADD)
@@ -1313,14 +1314,14 @@ patmattest_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_pepcoil_OBJECTS = pepcoil.$(OBJEXT)
 pepcoil_OBJECTS = $(am_pepcoil_OBJECTS)
 pepcoil_LDADD = $(LDADD)
 pepcoil_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_pepinfo_OBJECTS = pepinfo.$(OBJEXT)
 pepinfo_OBJECTS = $(am_pepinfo_OBJECTS)
@@ -1328,7 +1329,7 @@ pepinfo_LDADD = $(LDADD)
 pepinfo_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_pepnet_OBJECTS = pepnet.$(OBJEXT)
 pepnet_OBJECTS = $(am_pepnet_OBJECTS)
@@ -1336,7 +1337,7 @@ pepnet_LDADD = $(LDADD)
 pepnet_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_pepstats_OBJECTS = pepstats.$(OBJEXT)
 pepstats_OBJECTS = $(am_pepstats_OBJECTS)
@@ -1344,7 +1345,7 @@ pepstats_LDADD = $(LDADD)
 pepstats_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_pepwheel_OBJECTS = pepwheel.$(OBJEXT)
 pepwheel_OBJECTS = $(am_pepwheel_OBJECTS)
@@ -1352,7 +1353,7 @@ pepwheel_LDADD = $(LDADD)
 pepwheel_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_pepwindow_OBJECTS = pepwindow.$(OBJEXT)
 pepwindow_OBJECTS = $(am_pepwindow_OBJECTS)
@@ -1361,7 +1362,7 @@ pepwindow_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_pepwindowall_OBJECTS = pepwindowall.$(OBJEXT)
 pepwindowall_OBJECTS = $(am_pepwindowall_OBJECTS)
 pepwindowall_LDADD = $(LDADD)
@@ -1369,14 +1370,14 @@ pepwindowall_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_plotcon_OBJECTS = plotcon.$(OBJEXT)
 plotcon_OBJECTS = $(am_plotcon_OBJECTS)
 plotcon_LDADD = $(LDADD)
 plotcon_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_plotorf_OBJECTS = plotorf.$(OBJEXT)
 plotorf_OBJECTS = $(am_plotorf_OBJECTS)
@@ -1384,7 +1385,7 @@ plotorf_LDADD = $(LDADD)
 plotorf_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_polydot_OBJECTS = polydot.$(OBJEXT)
 polydot_OBJECTS = $(am_polydot_OBJECTS)
@@ -1392,7 +1393,7 @@ polydot_LDADD = $(LDADD)
 polydot_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_preg_OBJECTS = preg.$(OBJEXT)
 preg_OBJECTS = $(am_preg_OBJECTS)
@@ -1400,7 +1401,7 @@ preg_LDADD = $(LDADD)
 preg_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_prettyplot_OBJECTS = prettyplot.$(OBJEXT)
 prettyplot_OBJECTS = $(am_prettyplot_OBJECTS)
@@ -1409,7 +1410,7 @@ prettyplot_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_prettyseq_OBJECTS = prettyseq.$(OBJEXT)
 prettyseq_OBJECTS = $(am_prettyseq_OBJECTS)
 prettyseq_LDADD = $(LDADD)
@@ -1417,14 +1418,14 @@ prettyseq_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_prima_OBJECTS = prima.$(OBJEXT)
 prima_OBJECTS = $(am_prima_OBJECTS)
 prima_LDADD = $(LDADD)
 prima_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_primers_OBJECTS = primers.$(OBJEXT)
 primers_OBJECTS = $(am_primers_OBJECTS)
@@ -1432,7 +1433,7 @@ primers_LDADD = $(LDADD)
 primers_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_primersearch_OBJECTS = primersearch.$(OBJEXT)
 primersearch_OBJECTS = $(am_primersearch_OBJECTS)
@@ -1441,7 +1442,7 @@ primersearch_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_printsextract_OBJECTS = printsextract.$(OBJEXT)
 printsextract_OBJECTS = $(am_printsextract_OBJECTS)
 printsextract_LDADD = $(LDADD)
@@ -1449,14 +1450,14 @@ printsextract_DEPENDENCIES = ../nucleus/
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_profit_OBJECTS = profit.$(OBJEXT)
 profit_OBJECTS = $(am_profit_OBJECTS)
 profit_LDADD = $(LDADD)
 profit_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_prophecy_OBJECTS = prophecy.$(OBJEXT)
 prophecy_OBJECTS = $(am_prophecy_OBJECTS)
@@ -1464,7 +1465,7 @@ prophecy_LDADD = $(LDADD)
 prophecy_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_prophet_OBJECTS = prophet.$(OBJEXT)
 prophet_OBJECTS = $(am_prophet_OBJECTS)
@@ -1472,7 +1473,7 @@ prophet_LDADD = $(LDADD)
 prophet_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_prosextract_OBJECTS = prosextract.$(OBJEXT)
 prosextract_OBJECTS = $(am_prosextract_OBJECTS)
@@ -1481,14 +1482,14 @@ prosextract_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_pscan_OBJECTS = pscan.$(OBJEXT)
 pscan_OBJECTS = $(am_pscan_OBJECTS)
 pscan_LDADD = $(LDADD)
 pscan_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_psiphi_OBJECTS = psiphi.$(OBJEXT)
 psiphi_OBJECTS = $(am_psiphi_OBJECTS)
@@ -1496,7 +1497,7 @@ psiphi_LDADD = $(LDADD)
 psiphi_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_rebaseextract_OBJECTS = rebaseextract.$(OBJEXT)
 rebaseextract_OBJECTS = $(am_rebaseextract_OBJECTS)
@@ -1505,14 +1506,14 @@ rebaseextract_DEPENDENCIES = ../nucleus/
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_recoder_OBJECTS = recoder.$(OBJEXT)
 recoder_OBJECTS = $(am_recoder_OBJECTS)
 recoder_LDADD = $(LDADD)
 recoder_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_redata_OBJECTS = redata.$(OBJEXT)
 redata_OBJECTS = $(am_redata_OBJECTS)
@@ -1520,7 +1521,7 @@ redata_LDADD = $(LDADD)
 redata_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_remap_OBJECTS = remap.$(OBJEXT)
 remap_OBJECTS = $(am_remap_OBJECTS)
@@ -1528,7 +1529,7 @@ remap_LDADD = $(LDADD)
 remap_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_restover_OBJECTS = restover.$(OBJEXT)
 restover_OBJECTS = $(am_restover_OBJECTS)
@@ -1536,7 +1537,7 @@ restover_LDADD = $(LDADD)
 restover_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_restrict_OBJECTS = restrict.$(OBJEXT)
 restrict_OBJECTS = $(am_restrict_OBJECTS)
@@ -1544,7 +1545,7 @@ restrict_LDADD = $(LDADD)
 restrict_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_revseq_OBJECTS = revseq.$(OBJEXT)
 revseq_OBJECTS = $(am_revseq_OBJECTS)
@@ -1552,7 +1553,7 @@ revseq_LDADD = $(LDADD)
 revseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_seealso_OBJECTS = seealso.$(OBJEXT)
 seealso_OBJECTS = $(am_seealso_OBJECTS)
@@ -1560,7 +1561,7 @@ seealso_LDADD = $(LDADD)
 seealso_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_seqinfo_OBJECTS = seqinfo.$(OBJEXT)
 seqinfo_OBJECTS = $(am_seqinfo_OBJECTS)
@@ -1568,7 +1569,7 @@ seqinfo_LDADD = $(LDADD)
 seqinfo_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_seqmatchall_OBJECTS = seqmatchall.$(OBJEXT)
 seqmatchall_OBJECTS = $(am_seqmatchall_OBJECTS)
@@ -1577,14 +1578,14 @@ seqmatchall_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_seqret_OBJECTS = seqret.$(OBJEXT)
 seqret_OBJECTS = $(am_seqret_OBJECTS)
 seqret_LDADD = $(LDADD)
 seqret_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_seqretall_OBJECTS = seqretall.$(OBJEXT)
 seqretall_OBJECTS = $(am_seqretall_OBJECTS)
@@ -1593,7 +1594,7 @@ seqretall_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_seqretallfeat_OBJECTS = seqretallfeat.$(OBJEXT)
 seqretallfeat_OBJECTS = $(am_seqretallfeat_OBJECTS)
 seqretallfeat_LDADD = $(LDADD)
@@ -1601,7 +1602,7 @@ seqretallfeat_DEPENDENCIES = ../nucleus/
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_seqretset_OBJECTS = seqretset.$(OBJEXT)
 seqretset_OBJECTS = $(am_seqretset_OBJECTS)
 seqretset_LDADD = $(LDADD)
@@ -1609,7 +1610,7 @@ seqretset_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_seqretsetall_OBJECTS = seqretsetall.$(OBJEXT)
 seqretsetall_OBJECTS = $(am_seqretsetall_OBJECTS)
 seqretsetall_LDADD = $(LDADD)
@@ -1617,7 +1618,7 @@ seqretsetall_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_seqretsingle_OBJECTS = seqretsingle.$(OBJEXT)
 seqretsingle_OBJECTS = $(am_seqretsingle_OBJECTS)
 seqretsingle_LDADD = $(LDADD)
@@ -1625,7 +1626,7 @@ seqretsingle_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_seqretsplit_OBJECTS = seqretsplit.$(OBJEXT)
 seqretsplit_OBJECTS = $(am_seqretsplit_OBJECTS)
 seqretsplit_LDADD = $(LDADD)
@@ -1633,7 +1634,7 @@ seqretsplit_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_seqrettype_OBJECTS = seqrettype.$(OBJEXT)
 seqrettype_OBJECTS = $(am_seqrettype_OBJECTS)
 seqrettype_LDADD = $(LDADD)
@@ -1641,7 +1642,7 @@ seqrettype_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_showalign_OBJECTS = showalign.$(OBJEXT)
 showalign_OBJECTS = $(am_showalign_OBJECTS)
 showalign_LDADD = $(LDADD)
@@ -1649,14 +1650,14 @@ showalign_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_showdb_OBJECTS = showdb.$(OBJEXT)
 showdb_OBJECTS = $(am_showdb_OBJECTS)
 showdb_LDADD = $(LDADD)
 showdb_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_showfeat_OBJECTS = showfeat.$(OBJEXT)
 showfeat_OBJECTS = $(am_showfeat_OBJECTS)
@@ -1664,7 +1665,7 @@ showfeat_LDADD = $(LDADD)
 showfeat_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_showorf_OBJECTS = showorf.$(OBJEXT)
 showorf_OBJECTS = $(am_showorf_OBJECTS)
@@ -1672,7 +1673,7 @@ showorf_LDADD = $(LDADD)
 showorf_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_showpep_OBJECTS = showpep.$(OBJEXT)
 showpep_OBJECTS = $(am_showpep_OBJECTS)
@@ -1680,7 +1681,7 @@ showpep_LDADD = $(LDADD)
 showpep_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_showseq_OBJECTS = showseq.$(OBJEXT)
 showseq_OBJECTS = $(am_showseq_OBJECTS)
@@ -1688,7 +1689,7 @@ showseq_LDADD = $(LDADD)
 showseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_shuffleseq_OBJECTS = shuffleseq.$(OBJEXT)
 shuffleseq_OBJECTS = $(am_shuffleseq_OBJECTS)
@@ -1697,7 +1698,7 @@ shuffleseq_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_sigcleave_OBJECTS = sigcleave.$(OBJEXT)
 sigcleave_OBJECTS = $(am_sigcleave_OBJECTS)
 sigcleave_LDADD = $(LDADD)
@@ -1705,14 +1706,14 @@ sigcleave_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_silent_OBJECTS = silent.$(OBJEXT)
 silent_OBJECTS = $(am_silent_OBJECTS)
 silent_LDADD = $(LDADD)
 silent_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_sirna_OBJECTS = sirna.$(OBJEXT)
 sirna_OBJECTS = $(am_sirna_OBJECTS)
@@ -1720,7 +1721,7 @@ sirna_LDADD = $(LDADD)
 sirna_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_sixpack_OBJECTS = sixpack.$(OBJEXT)
 sixpack_OBJECTS = $(am_sixpack_OBJECTS)
@@ -1728,7 +1729,7 @@ sixpack_LDADD = $(LDADD)
 sixpack_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_sizeseq_OBJECTS = sizeseq.$(OBJEXT)
 sizeseq_OBJECTS = $(am_sizeseq_OBJECTS)
@@ -1736,7 +1737,7 @@ sizeseq_LDADD = $(LDADD)
 sizeseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_skipredundant_OBJECTS = skipredundant.$(OBJEXT)
 skipredundant_OBJECTS = $(am_skipredundant_OBJECTS)
@@ -1745,14 +1746,14 @@ skipredundant_DEPENDENCIES = ../nucleus/
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_skipseq_OBJECTS = skipseq.$(OBJEXT)
 skipseq_OBJECTS = $(am_skipseq_OBJECTS)
 skipseq_LDADD = $(LDADD)
 skipseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 splitsource_SOURCES = splitsource.c
 splitsource_OBJECTS = splitsource.$(OBJEXT)
@@ -1761,14 +1762,14 @@ splitsource_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_splitter_OBJECTS = splitter.$(OBJEXT)
 splitter_OBJECTS = $(am_splitter_OBJECTS)
 splitter_LDADD = $(LDADD)
 splitter_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_sqltest_OBJECTS = sqltest.$(OBJEXT)
 sqltest_OBJECTS = $(am_sqltest_OBJECTS)
@@ -1776,7 +1777,7 @@ sqltest_LDADD = $(LDADD)
 sqltest_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_stretcher_OBJECTS = stretcher.$(OBJEXT)
 stretcher_OBJECTS = $(am_stretcher_OBJECTS)
@@ -1785,7 +1786,7 @@ stretcher_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_stssearch_OBJECTS = stssearch.$(OBJEXT)
 stssearch_OBJECTS = $(am_stssearch_OBJECTS)
 stssearch_LDADD = $(LDADD)
@@ -1793,7 +1794,7 @@ stssearch_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_supermatcher_OBJECTS = supermatcher.$(OBJEXT)
 supermatcher_OBJECTS = $(am_supermatcher_OBJECTS)
 supermatcher_LDADD = $(LDADD)
@@ -1801,14 +1802,14 @@ supermatcher_DEPENDENCIES = ../nucleus/l
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_syco_OBJECTS = syco.$(OBJEXT)
 syco_OBJECTS = $(am_syco_OBJECTS)
 syco_LDADD = $(LDADD)
 syco_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_tcode_OBJECTS = tcode.$(OBJEXT)
 tcode_OBJECTS = $(am_tcode_OBJECTS)
@@ -1816,7 +1817,7 @@ tcode_LDADD = $(LDADD)
 tcode_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_testplot_OBJECTS = testplot.$(OBJEXT)
 testplot_OBJECTS = $(am_testplot_OBJECTS)
@@ -1824,7 +1825,7 @@ testplot_LDADD = $(LDADD)
 testplot_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_textsearch_OBJECTS = textsearch.$(OBJEXT)
 textsearch_OBJECTS = $(am_textsearch_OBJECTS)
@@ -1833,7 +1834,7 @@ textsearch_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_tfextract_OBJECTS = tfextract.$(OBJEXT)
 tfextract_OBJECTS = $(am_tfextract_OBJECTS)
 tfextract_LDADD = $(LDADD)
@@ -1841,14 +1842,14 @@ tfextract_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_tfm_OBJECTS = tfm.$(OBJEXT)
 tfm_OBJECTS = $(am_tfm_OBJECTS)
 tfm_LDADD = $(LDADD)
 tfm_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_tfscan_OBJECTS = tfscan.$(OBJEXT)
 tfscan_OBJECTS = $(am_tfscan_OBJECTS)
@@ -1856,7 +1857,7 @@ tfscan_LDADD = $(LDADD)
 tfscan_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_tmap_OBJECTS = tmap.$(OBJEXT)
 tmap_OBJECTS = $(am_tmap_OBJECTS)
@@ -1864,7 +1865,7 @@ tmap_LDADD = $(LDADD)
 tmap_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_tranalign_OBJECTS = tranalign.$(OBJEXT)
 tranalign_OBJECTS = $(am_tranalign_OBJECTS)
@@ -1873,14 +1874,14 @@ tranalign_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_transeq_OBJECTS = transeq.$(OBJEXT)
 transeq_OBJECTS = $(am_transeq_OBJECTS)
 transeq_LDADD = $(LDADD)
 transeq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_treetypedisplay_OBJECTS = treetypedisplay.$(OBJEXT)
 treetypedisplay_OBJECTS = $(am_treetypedisplay_OBJECTS)
@@ -1889,14 +1890,14 @@ treetypedisplay_DEPENDENCIES = ../nucleu
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_trimest_OBJECTS = trimest.$(OBJEXT)
 trimest_OBJECTS = $(am_trimest_OBJECTS)
 trimest_LDADD = $(LDADD)
 trimest_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_trimseq_OBJECTS = trimseq.$(OBJEXT)
 trimseq_OBJECTS = $(am_trimseq_OBJECTS)
@@ -1904,7 +1905,7 @@ trimseq_LDADD = $(LDADD)
 trimseq_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_trimspace_OBJECTS = trimspace.$(OBJEXT)
 trimspace_OBJECTS = $(am_trimspace_OBJECTS)
@@ -1913,14 +1914,14 @@ trimspace_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_twofeat_OBJECTS = twofeat.$(OBJEXT)
 twofeat_OBJECTS = $(am_twofeat_OBJECTS)
 twofeat_LDADD = $(LDADD)
 twofeat_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_union_OBJECTS = union.$(OBJEXT)
 union_OBJECTS = $(am_union_OBJECTS)
@@ -1928,7 +1929,7 @@ union_LDADD = $(LDADD)
 union_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_vectorstrip_OBJECTS = vectorstrip.$(OBJEXT)
 vectorstrip_OBJECTS = $(am_vectorstrip_OBJECTS)
@@ -1937,14 +1938,14 @@ vectorstrip_DEPENDENCIES = ../nucleus/li
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_water_OBJECTS = water.$(OBJEXT)
 water_OBJECTS = $(am_water_OBJECTS)
 water_LDADD = $(LDADD)
 water_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_whichdb_OBJECTS = whichdb.$(OBJEXT)
 whichdb_OBJECTS = $(am_whichdb_OBJECTS)
@@ -1952,7 +1953,7 @@ whichdb_LDADD = $(LDADD)
 whichdb_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_wobble_OBJECTS = wobble.$(OBJEXT)
 wobble_OBJECTS = $(am_wobble_OBJECTS)
@@ -1960,7 +1961,7 @@ wobble_LDADD = $(LDADD)
 wobble_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_wordcount_OBJECTS = wordcount.$(OBJEXT)
 wordcount_OBJECTS = $(am_wordcount_OBJECTS)
@@ -1969,7 +1970,7 @@ wordcount_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_wordfinder_OBJECTS = wordfinder.$(OBJEXT)
 wordfinder_OBJECTS = $(am_wordfinder_OBJECTS)
 wordfinder_LDADD = $(LDADD)
@@ -1977,7 +1978,7 @@ wordfinder_DEPENDENCIES = ../nucleus/lib
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_wordmatch_OBJECTS = wordmatch.$(OBJEXT)
 wordmatch_OBJECTS = $(am_wordmatch_OBJECTS)
 wordmatch_LDADD = $(LDADD)
@@ -1985,14 +1986,14 @@ wordmatch_DEPENDENCIES = ../nucleus/libn
 	../ajax/acd/libacd.la ../ajax/ajaxdb/libajaxdb.la \
 	../ajax/ensembl/libensembl.la ../ajax/graphics/libajaxg.la \
 	../ajax/core/libajax.la $(EXTRA_LDS) \
-	../plplot/libeplplot.la $(am__DEPENDENCIES_1)
+	$(am__DEPENDENCIES_1)
 am_wossname_OBJECTS = wossname.$(OBJEXT)
 wossname_OBJECTS = $(am_wossname_OBJECTS)
 wossname_LDADD = $(LDADD)
 wossname_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 am_yank_OBJECTS = yank.$(OBJEXT)
 yank_OBJECTS = $(am_yank_OBJECTS)
@@ -2000,7 +2001,7 @@ yank_LDADD = $(LDADD)
 yank_DEPENDENCIES = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
-	$(EXTRA_LDS) ../plplot/libeplplot.la \
+	$(EXTRA_LDS)  \
 	$(am__DEPENDENCIES_1)
 DEFAULT_INCLUDES = -I.@am__isrc@
 depcomp = $(SHELL) $(top_srcdir)/depcomp
@@ -2328,6 +2329,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
@@ -2410,12 +2413,12 @@ EXTRA_DIST = emboss.default.template
 @ISAIXIA64_TRUE@@ISSHARED_TRUE@ -lacd -lajaxdb -lensembl -lajaxg -lajax -leexpat -lepcre -lezlib
 
 AM_CFLAGS = $(AIX_CFLAGS) $(WARN_CFLAGS) $(DEVWARN_CFLAGS)
-@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
+@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
 INCLUDES = -I$(top_srcdir)/nucleus \
-	$(EXTRA_INCLUDES) \
+	$(EXTRA_INCLUDES) $(PLPLOT_CFLAGS) \
 	-I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/graphics \
 	-I$(top_srcdir)/ajax/ensembl -I$(top_srcdir)/ajax/ajaxdb \
-	-I$(top_srcdir)/ajax/acd -I$(top_srcdir)/plplot
+	-I$(top_srcdir)/ajax/acd
 
 aaindexextract_SOURCES = aaindexextract.c
 abiview_SOURCES = abiview.c
@@ -2643,12 +2646,12 @@ seqrettype_SOURCES = seqrettype.c
 sqltest_SOURCES = sqltest.c
 testplot_SOURCES = testplot.c
 treetypedisplay_SOURCES = treetypedisplay.c
-@ESYSTEMLIBS_FALSE@EXTRA_LDS = ../ajax/zlib/libezlib.la ../ajax/expat/libeexpat.la ../ajax/pcre/libepcre.la
+@ESYSTEMLIBS_FALSE@EXTRA_LDS = ../ajax/zlib/libezlib.la ../ajax/expat/libeexpat.la ../ajax/pcre/libepcre.la ../plplot/libeplplot.la
 LDADD = ../nucleus/libnucleus.la ../ajax/acd/libacd.la \
 	../ajax/ajaxdb/libajaxdb.la ../ajax/ensembl/libensembl.la \
 	../ajax/graphics/libajaxg.la ../ajax/core/libajax.la \
 	$(EXTRA_LDS) \
-	../plplot/libeplplot.la \
+	$(PLPLOT_LIBS) \
 	$(XLIB)
 
 pkgdata_DATA = emboss.default.template
diff -up EMBOSS-6.3.1/m4/plplot.m4.system-plplot EMBOSS-6.3.1/m4/plplot.m4
--- EMBOSS-6.3.1/m4/plplot.m4.system-plplot	2010-08-03 08:01:37.989233208 -0400
+++ EMBOSS-6.3.1/m4/plplot.m4	2010-08-03 08:01:37.989233208 -0400
@@ -0,0 +1,84 @@
+dnl @synopsis CHECK_PLPLOT([PLPLOT_LIBDIR, PLPLOT_INCDIR,
+dnl                      [ACTION-IF-FOUND[, ACTION-IF-NOT-FOUND]]])
+dnl This macro figures out if the PlPlot library and header files
+dnl are installed.
+dnl You may wish to use these variables in your default LIBS and CFLAGS:
+dnl
+dnl        LIBS="$PLPLOT_LIBS $LIBS"
+dnl        CFLAGS="$CFLAGS $PLPLOT_CFLAGS"
+dnl
+dnl ACTION-IF-FOUND is a list of shell commands to run if PlPlot
+dnl is found (HAVE_PLPLOT is defined first), and ACTION-IF-NOT-FOUND
+dnl is a list of commands to run it if it is not found.
+dnl
+dnl @author Emmanuel Bertin <bertin@iap.fr>
+ 
+AC_DEFUN([CHECK_PLPLOT], [
+AC_REQUIRE([AC_CANONICAL_HOST])
+ 
+PLPLOT_LIBS=""
+OLIBS="$LIBS"
+LIBS=""
+ 
+check_plplot_ok=yes
+check_plplotpkg_ok=no
+if test x$2 = x && test x$1 = x; then
+  AC_MSG_CHECKING([for PLPlot pkg-config info])
+  if pkg-config --exists plplotd; then
+    AC_MSG_RESULT([yes])
+    [PLPLOT_CFLAGS=`pkg-config --cflags plplotd`]
+    [PLPLOT_LIBS=`pkg-config --libs plplotd`]
+    AC_DEFINE(PLPLOT_H, "plplot.h", [PLPlot header filename.])
+    AC_DEFINE(PLPLOTP_H, "plplotP.h", [PLPlot private header filename.])
+    check_plplotpkg_ok=yes
+  else
+    AC_MSG_RESULT([no])
+  fi
+fi
+if test x$check_plplotpkg_ok = xno; then
+  if test x$2 = x; then
+    AC_CHECK_HEADER(plplot.h, [check_plplothead_ok=yes], [check_plplothead_ok=no])
+    if test x$check_plplothead_ok = xyes; then
+      AC_DEFINE(PLPLOT_H, "plplot.h", [PLPlot header filename.])
+      AC_DEFINE(PLPLOTP_H, "plplotP.h", [PLPlot private header filename.])
+    else
+      AC_CHECK_HEADER(plplot/plplot.h,
+		[check_plplothead_ok=yes], [check_plplothead_ok=no])
+      if test x$check_plplothead_ok = xyes; then
+        AC_DEFINE(PLPLOT_H, "plplot/plplot.h", [PLPlot header filename.])
+        AC_DEFINE(PLPLOTP_H, "plplot/plplotP.h",
+		[PLPlot private header filename.])
+      else
+        check_plplot_ok=no
+      fi
+    fi
+  else
+    AC_CHECK_HEADER($2/plplot.h,
+		[check_plplothead_ok=yes], [check_plplothead_ok=no])
+    if test x$check_plplothead_ok = xyes; then
+      AC_DEFINE(PLPLOT_H, "plplot.h", [PLPlot header filename.])
+      AC_DEFINE(PLPLOTP_H, "plplotP.h", [PLPlot private header filename.])
+     [PLPLOT_CFLAGS="-I$2"]
+    else
+      check_plplot_ok=no
+    fi
+  fi
+  if test x$1 = x; then
+    AC_CHECK_LIB(plplotd, c_plinit,, [check_plplot_ok=no])
+    [PLPLOT_LIBS="-lplplotd"]
+  else
+    AC_CHECK_LIB(plplotd, c_plinit,, [check_plplot_ok=no], [-L$1])
+    [PLPLOT_LIBS="-L$1 -lplplotd"]
+  fi
+fi
+ 
+LIBS="$OLIBS"
+if test x$check_plplot_ok = xyes; then
+  AC_SUBST(PLPLOT_CFLAGS)
+  AC_SUBST(PLPLOT_LIBS)
+  AC_DEFINE(HAVE_PLPLOT,1,
+	[Define if you have the PLPlot libraries and header files.])
+fi
+ 
+])dnl CHECK_PLPLOT
+
diff -up EMBOSS-6.3.1/Makefile.am.system-plplot EMBOSS-6.3.1/Makefile.am
--- EMBOSS-6.3.1/Makefile.am.system-plplot	2010-01-11 08:15:41.000000000 -0500
+++ EMBOSS-6.3.1/Makefile.am	2010-08-03 08:01:37.989233208 -0400
@@ -5,7 +5,7 @@ ACLOCAL_AMFLAGS = -I m4
 
 AUTOMAKE_OPTIONS = gnits
 
-SUBDIRS = plplot ajax nucleus emboss test doc jemboss
+SUBDIRS = ajax nucleus emboss test doc jemboss
 
 # AJAX_FIXED_ROOT = \"`pwd`/emboss/acd\"
 
@@ -20,6 +20,5 @@ dist-hook:
 	tar cBf - test | ( cd $(distdir); tar xBf - ; rm -rf test/CVS test/*/CVS ) 
 	tar cBf - emboss/acd | ( cd $(distdir); tar xBf - ; cd emboss/acd; rm -rf CVS ) 
 	tar cBf - emboss/data | ( cd $(distdir); tar xBf - ; cd emboss/data; rm -rf CVS */CVS */*/CVS ) 
-	tar cBf - plplot/lib | ( cd $(distdir); tar xBf - ; find plplot -name CVS | xargs rm -rf ) 
 	tar cBf - doc | ( cd $(distdir); tar xBf - ; find doc -name CVS | xargs rm -rf; ) 
 	tar cBf - jemboss | ( cd $(distdir); tar xBf - ; find jemboss -name CVS | xargs rm -rf; find jemboss -name Makefile | xargs rm -rf; find jemboss -name .cvsignore | xargs rm -rf )
diff -up EMBOSS-6.3.1/Makefile.in.system-plplot EMBOSS-6.3.1/Makefile.in
--- EMBOSS-6.3.1/Makefile.in.system-plplot	2010-07-19 07:55:42.000000000 -0400
+++ EMBOSS-6.3.1/Makefile.in	2010-08-03 08:01:37.989233208 -0400
@@ -42,7 +42,8 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 \
 	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
 	$(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
@@ -182,6 +183,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
@@ -257,7 +260,7 @@ top_builddir = @top_builddir@
 top_srcdir = @top_srcdir@
 ACLOCAL_AMFLAGS = -I m4
 AUTOMAKE_OPTIONS = gnits
-SUBDIRS = plplot ajax nucleus emboss test doc jemboss
+SUBDIRS = ajax nucleus emboss test doc jemboss
 
 # AJAX_FIXED_ROOT = \"`pwd`/emboss/acd\"
 
@@ -757,7 +760,6 @@ dist-hook:
 	tar cBf - test | ( cd $(distdir); tar xBf - ; rm -rf test/CVS test/*/CVS ) 
 	tar cBf - emboss/acd | ( cd $(distdir); tar xBf - ; cd emboss/acd; rm -rf CVS ) 
 	tar cBf - emboss/data | ( cd $(distdir); tar xBf - ; cd emboss/data; rm -rf CVS */CVS */*/CVS ) 
-	tar cBf - plplot/lib | ( cd $(distdir); tar xBf - ; find plplot -name CVS | xargs rm -rf ) 
 	tar cBf - doc | ( cd $(distdir); tar xBf - ; find doc -name CVS | xargs rm -rf; ) 
 	tar cBf - jemboss | ( cd $(distdir); tar xBf - ; find jemboss -name CVS | xargs rm -rf; find jemboss -name Makefile | xargs rm -rf; find jemboss -name .cvsignore | xargs rm -rf )
 
diff -up EMBOSS-6.3.1/nucleus/Makefile.am.system-plplot EMBOSS-6.3.1/nucleus/Makefile.am
--- EMBOSS-6.3.1/nucleus/Makefile.am.system-plplot	2010-08-03 08:01:37.969108470 -0400
+++ EMBOSS-6.3.1/nucleus/Makefile.am	2010-08-03 08:01:37.990233208 -0400
@@ -19,12 +19,12 @@ CYGWIN_LIBS = -L../plplot -L../ajax/pcre
 -lezlib -leplplot
 else
 if !ESYSTEMLIBS
-EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
+EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
 endif
 endif
 
 
-INCLUDES = -I$(top_srcdir)/plplot $(X_CFLAGS) -I$(srcdir)/ \
+INCLUDES = $(PLPLOT_CFLAGS) $(X_CFLAGS) -I$(srcdir)/ \
 	-I$(top_srcdir)/ajax \
 	$(EXTRA_INCLUDES) \
 	-I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/graphics \
diff -up EMBOSS-6.3.1/nucleus/Makefile.in.system-plplot EMBOSS-6.3.1/nucleus/Makefile.in
--- EMBOSS-6.3.1/nucleus/Makefile.in.system-plplot	2010-08-03 08:01:37.969108470 -0400
+++ EMBOSS-6.3.1/nucleus/Makefile.in	2010-08-03 08:01:37.990233208 -0400
@@ -42,7 +42,8 @@ ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
 am__aclocal_m4_deps = $(top_srcdir)/m4/amd64.m4 \
 	$(top_srcdir)/m4/general.m4 $(top_srcdir)/m4/hpdf.m4 \
 	$(top_srcdir)/m4/java.m4 $(top_srcdir)/m4/lf_x11.m4 \
-	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/pngdriver.m4 \
+	$(top_srcdir)/m4/mysql.m4 $(top_srcdir)/m4/plplot.m4 \
+	$(top_srcdir)/m4/pngdriver.m4 \
 	$(top_srcdir)/m4/postgresql.m4 $(top_srcdir)/m4/sgi.m4 \
 	$(top_srcdir)/configure.in
 am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
@@ -178,6 +179,8 @@ PCRE_MINOR = @PCRE_MINOR@
 PCRE_POSIXLIB_VERSION = @PCRE_POSIXLIB_VERSION@
 PCRE_VERSION = @PCRE_VERSION@
 PG_CONFIG = @PG_CONFIG@
+PLPLOT_CFLAGS = @PLPLOT_CFLAGS@
+PLPLOT_LIBS = @PLPLOT_LIBS@
 POSIX_MALLOC_THRESHOLD = @POSIX_MALLOC_THRESHOLD@
 POSTGRESQL_CFLAGS = @POSTGRESQL_CFLAGS@
 POSTGRESQL_LDFLAGS = @POSTGRESQL_LDFLAGS@
@@ -262,8 +265,8 @@ AM_CFLAGS = $(AIX_CFLAGS) $(WARN_CFLAGS)
 @ISCYGWIN_TRUE@-L../ajax/acd -lacd -lajaxdb -lensembl -lajaxg -lajax -leexpat -lepcre \
 @ISCYGWIN_TRUE@-lezlib -leplplot
 
-@ESYSTEMLIBS_FALSE@@ISCYGWIN_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre
-INCLUDES = -I$(top_srcdir)/plplot $(X_CFLAGS) -I$(srcdir)/ \
+@ESYSTEMLIBS_FALSE@@ISCYGWIN_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/plplot
+INCLUDES = $(PLPLOT_CFLAGS) $(X_CFLAGS) -I$(srcdir)/ \
 	-I$(top_srcdir)/ajax \
 	$(EXTRA_INCLUDES) \
 	-I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/graphics \
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