diff -up EMBOSS-6.3.1/ajax/acd/Makefile.am.system-pcre EMBOSS-6.3.1/ajax/acd/Makefile.am --- EMBOSS-6.3.1/ajax/acd/Makefile.am.system-pcre 2010-06-16 07:36:00.000000000 -0400 +++ EMBOSS-6.3.1/ajax/acd/Makefile.am 2010-08-02 15:53:45.289153815 -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 +EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre endif -INCLUDES = -I$(top_srcdir)/plplot -I$(top_srcdir)/ajax/pcre \ +INCLUDES = -I$(top_srcdir)/plplot \ $(EXTRA_INCLUDES) \ -I$(top_srcdir)/ajax/core \ -I$(top_srcdir)/ajax/graphics \ diff -up EMBOSS-6.3.1/ajax/acd/Makefile.in.system-pcre EMBOSS-6.3.1/ajax/acd/Makefile.in --- EMBOSS-6.3.1/ajax/acd/Makefile.in.system-pcre 2010-07-19 07:55:40.000000000 -0400 +++ EMBOSS-6.3.1/ajax/acd/Makefile.in 2010-08-02 15:54:22.726269678 -0400 @@ -130,8 +130,6 @@ ESYSTEMLIBS = @ESYSTEMLIBS@ EXEEXT = @EXEEXT@ FGREP = @FGREP@ GREP = @GREP@ -HAVE_MEMMOVE = @HAVE_MEMMOVE@ -HAVE_STRERROR = @HAVE_STRERROR@ INSTALL = @INSTALL@ INSTALL_DATA = @INSTALL_DATA@ INSTALL_PROGRAM = @INSTALL_PROGRAM@ @@ -258,8 +256,8 @@ 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$(top_srcdir)/ajax/zlib -INCLUDES = -I$(top_srcdir)/plplot -I$(top_srcdir)/ajax/pcre \ +@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre +INCLUDES = -I$(top_srcdir)/plplot \ $(EXTRA_INCLUDES) \ -I$(top_srcdir)/ajax/core \ -I$(top_srcdir)/ajax/graphics \ @@ -286,9 +284,9 @@ $(srcdir)/Makefile.in: $(srcdir)/Makefi exit 1;; \ esac; \ done; \ - echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu ajax/acd/Makefile'; \ + echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnits ajax/acd/Makefile'; \ $(am__cd) $(top_srcdir) && \ - $(AUTOMAKE) --gnu ajax/acd/Makefile + $(AUTOMAKE) --gnits ajax/acd/Makefile .PRECIOUS: Makefile Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status @case '$?' in \ diff -up EMBOSS-6.3.1/ajax/ajaxdb/Makefile.am.system-pcre EMBOSS-6.3.1/ajax/ajaxdb/Makefile.am --- EMBOSS-6.3.1/ajax/ajaxdb/Makefile.am.system-pcre 2010-06-16 07:36:00.000000000 -0400 +++ EMBOSS-6.3.1/ajax/ajaxdb/Makefile.am 2010-08-02 15:54:56.056144703 -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 +EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre endif -INCLUDES = -I$(top_srcdir)/plplot -I$(top_srcdir)/ajax/pcre \ +INCLUDES = -I$(top_srcdir)/plplot \ $(EXTRA_INCLUDES) \ -I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/ensembl diff -up EMBOSS-6.3.1/ajax/ajaxdb/Makefile.in.system-pcre EMBOSS-6.3.1/ajax/ajaxdb/Makefile.in --- EMBOSS-6.3.1/ajax/ajaxdb/Makefile.in.system-pcre 2010-07-19 07:55:40.000000000 -0400 +++ EMBOSS-6.3.1/ajax/ajaxdb/Makefile.in 2010-08-02 15:55:40.350270055 -0400 @@ -130,8 +130,6 @@ ESYSTEMLIBS = @ESYSTEMLIBS@ EXEEXT = @EXEEXT@ FGREP = @FGREP@ GREP = @GREP@ -HAVE_MEMMOVE = @HAVE_MEMMOVE@ -HAVE_STRERROR = @HAVE_STRERROR@ INSTALL = @INSTALL@ INSTALL_DATA = @INSTALL_DATA@ INSTALL_PROGRAM = @INSTALL_PROGRAM@ @@ -257,8 +255,8 @@ 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$(top_srcdir)/ajax/zlib -INCLUDES = -I$(top_srcdir)/plplot -I$(top_srcdir)/ajax/pcre \ +@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre +INCLUDES = -I$(top_srcdir)/plplot \ $(EXTRA_INCLUDES) \ -I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/ensembl @@ -284,9 +282,9 @@ $(srcdir)/Makefile.in: $(srcdir)/Makefi exit 1;; \ esac; \ done; \ - echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu ajax/ajaxdb/Makefile'; \ + echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnits ajax/ajaxdb/Makefile'; \ $(am__cd) $(top_srcdir) && \ - $(AUTOMAKE) --gnu ajax/ajaxdb/Makefile + $(AUTOMAKE) --gnits ajax/ajaxdb/Makefile .PRECIOUS: Makefile Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status @case '$?' in \ diff -up EMBOSS-6.3.1/ajax/core/ajreg.h.system-pcre EMBOSS-6.3.1/ajax/core/ajreg.h --- EMBOSS-6.3.1/ajax/core/ajreg.h.system-pcre 2010-04-14 03:44:20.000000000 -0400 +++ EMBOSS-6.3.1/ajax/core/ajreg.h 2010-08-02 15:51:12.877269709 -0400 @@ -16,9 +16,8 @@ extern "C" #define ajreg_h #include "ajax.h" -#include "pcre_config.h" -#include "pcre_internal.h" -#include "pcreposix.h" +#include +#include #define AJREG_OVECSIZE 30 @@ -41,7 +40,7 @@ extern "C" ******************************************************************************/ typedef struct AjSRegexp { - real_pcre *pcre; + struct real_pcre *pcre; pcre_extra *extra; int *ovector; const char* orig; diff -up EMBOSS-6.3.1/ajax/core/Makefile.am.system-pcre EMBOSS-6.3.1/ajax/core/Makefile.am --- EMBOSS-6.3.1/ajax/core/Makefile.am.system-pcre 2010-06-16 07:36:00.000000000 -0400 +++ EMBOSS-6.3.1/ajax/core/Makefile.am 2010-08-02 15:56:46.987145446 -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 +EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre endif INCLUDES = -DAJAX_FIXED_ROOT=$(AJAX_FIXED_ROOT) \ -DAJAX_SYSTEM="$(AJAX_SYSTEM)" -DPREFIX=\"$(prefix)\" \ --I$(top_srcdir)/plplot -I$(top_srcdir)/ajax/pcre $(EXTRA_INCLUDES) +-I$(top_srcdir)/plplot $(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-pcre EMBOSS-6.3.1/ajax/core/Makefile.in --- EMBOSS-6.3.1/ajax/core/Makefile.in.system-pcre 2010-07-19 07:55:40.000000000 -0400 +++ EMBOSS-6.3.1/ajax/core/Makefile.in 2010-08-02 15:57:14.969269966 -0400 @@ -139,8 +139,6 @@ ESYSTEMLIBS = @ESYSTEMLIBS@ EXEEXT = @EXEEXT@ FGREP = @FGREP@ GREP = @GREP@ -HAVE_MEMMOVE = @HAVE_MEMMOVE@ -HAVE_STRERROR = @HAVE_STRERROR@ INSTALL = @INSTALL@ INSTALL_DATA = @INSTALL_DATA@ INSTALL_PROGRAM = @INSTALL_PROGRAM@ @@ -266,10 +264,10 @@ 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$(top_srcdir)/ajax/zlib +@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre INCLUDES = -DAJAX_FIXED_ROOT=$(AJAX_FIXED_ROOT) \ -DAJAX_SYSTEM="$(AJAX_SYSTEM)" -DPREFIX=\"$(prefix)\" \ --I$(top_srcdir)/plplot -I$(top_srcdir)/ajax/pcre $(EXTRA_INCLUDES) +-I$(top_srcdir)/plplot $(EXTRA_INCLUDES) AJAXSRC = ajalign.c ajarr.c ajassert.c \ ajbase.c ajcall.c ajcod.c \ @@ -318,9 +316,9 @@ $(srcdir)/Makefile.in: $(srcdir)/Makefi exit 1;; \ esac; \ done; \ - echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu ajax/core/Makefile'; \ + echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnits ajax/core/Makefile'; \ $(am__cd) $(top_srcdir) && \ - $(AUTOMAKE) --gnu ajax/core/Makefile + $(AUTOMAKE) --gnits ajax/core/Makefile .PRECIOUS: Makefile Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status @case '$?' in \ diff -up EMBOSS-6.3.1/ajax/ensembl/Makefile.am.system-pcre EMBOSS-6.3.1/ajax/ensembl/Makefile.am --- EMBOSS-6.3.1/ajax/ensembl/Makefile.am.system-pcre 2010-06-16 07:36:00.000000000 -0400 +++ EMBOSS-6.3.1/ajax/ensembl/Makefile.am 2010-08-02 15:57:44.938305995 -0400 @@ -10,12 +10,12 @@ CYGWIN_LDENSEMBL = -L../../plplot -L../e endif if !ESYSTEMLIBS -EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat +EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre endif INCLUDES = -I$(top_srcdir)/plplot $(EXTRA_INCLUDES) \ --I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/ajax/core +-I$(top_srcdir)/ajax/core ENSEMBLSRC = ensanalysis.c ensassembly.c ensassemblyexception.c \ ensassemblymapper.c ensattribute.c ensbaseadaptor.c enscache.c \ diff -up EMBOSS-6.3.1/ajax/ensembl/Makefile.in.system-pcre EMBOSS-6.3.1/ajax/ensembl/Makefile.in --- EMBOSS-6.3.1/ajax/ensembl/Makefile.in.system-pcre 2010-07-19 07:55:40.000000000 -0400 +++ EMBOSS-6.3.1/ajax/ensembl/Makefile.in 2010-08-02 15:58:24.860163822 -0400 @@ -143,8 +143,6 @@ ESYSTEMLIBS = @ESYSTEMLIBS@ EXEEXT = @EXEEXT@ FGREP = @FGREP@ GREP = @GREP@ -HAVE_MEMMOVE = @HAVE_MEMMOVE@ -HAVE_STRERROR = @HAVE_STRERROR@ INSTALL = @INSTALL@ INSTALL_DATA = @INSTALL_DATA@ INSTALL_PROGRAM = @INSTALL_PROGRAM@ @@ -266,9 +264,9 @@ 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 +@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre INCLUDES = -I$(top_srcdir)/plplot $(EXTRA_INCLUDES) \ --I$(top_srcdir)/ajax/pcre -I$(top_srcdir)/ajax/core +-I$(top_srcdir)/ajax/core ENSEMBLSRC = ensanalysis.c ensassembly.c ensassemblyexception.c \ ensassemblymapper.c ensattribute.c ensbaseadaptor.c enscache.c \ @@ -316,9 +314,9 @@ $(srcdir)/Makefile.in: $(srcdir)/Makefi exit 1;; \ esac; \ done; \ - echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu ajax/ensembl/Makefile'; \ + echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnits ajax/ensembl/Makefile'; \ $(am__cd) $(top_srcdir) && \ - $(AUTOMAKE) --gnu ajax/ensembl/Makefile + $(AUTOMAKE) --gnits ajax/ensembl/Makefile .PRECIOUS: Makefile Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status @case '$?' in \ diff -up EMBOSS-6.3.1/ajax/graphics/Makefile.am.system-pcre EMBOSS-6.3.1/ajax/graphics/Makefile.am --- EMBOSS-6.3.1/ajax/graphics/Makefile.am.system-pcre 2010-06-16 07:36:00.000000000 -0400 +++ EMBOSS-6.3.1/ajax/graphics/Makefile.am 2010-08-02 15:59:19.049155233 -0400 @@ -10,11 +10,11 @@ CYGWIN_LDAJAXG = -L../../plplot -L../exp endif if !ESYSTEMLIBS -EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat +EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre endif -INCLUDES = -I$(top_srcdir)/plplot -I$(top_srcdir)/ajax/pcre \ +INCLUDES = -I$(top_srcdir)/plplot \ $(EXTRA_INCLUDES) -I$(top_srcdir)/ajax/core AJAXGSRC = ajgraph.c ajhist.c diff -up EMBOSS-6.3.1/ajax/graphics/Makefile.in.system-pcre EMBOSS-6.3.1/ajax/graphics/Makefile.in --- EMBOSS-6.3.1/ajax/graphics/Makefile.in.system-pcre 2010-07-19 07:55:40.000000000 -0400 +++ EMBOSS-6.3.1/ajax/graphics/Makefile.in 2010-08-02 15:59:40.355144835 -0400 @@ -130,8 +130,6 @@ ESYSTEMLIBS = @ESYSTEMLIBS@ EXEEXT = @EXEEXT@ FGREP = @FGREP@ GREP = @GREP@ -HAVE_MEMMOVE = @HAVE_MEMMOVE@ -HAVE_STRERROR = @HAVE_STRERROR@ INSTALL = @INSTALL@ INSTALL_DATA = @INSTALL_DATA@ INSTALL_PROGRAM = @INSTALL_PROGRAM@ @@ -253,8 +251,8 @@ 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 -INCLUDES = -I$(top_srcdir)/plplot -I$(top_srcdir)/ajax/pcre \ +@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/pcre +INCLUDES = -I$(top_srcdir)/plplot \ $(EXTRA_INCLUDES) -I$(top_srcdir)/ajax/core AJAXGSRC = ajgraph.c ajhist.c @@ -277,9 +275,9 @@ $(srcdir)/Makefile.in: $(srcdir)/Makefi exit 1;; \ esac; \ done; \ - echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu ajax/graphics/Makefile'; \ + echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnits ajax/graphics/Makefile'; \ $(am__cd) $(top_srcdir) && \ - $(AUTOMAKE) --gnu ajax/graphics/Makefile + $(AUTOMAKE) --gnits ajax/graphics/Makefile .PRECIOUS: Makefile Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status @case '$?' in \ diff -up EMBOSS-6.3.1/ajax/Makefile.am.system-pcre EMBOSS-6.3.1/ajax/Makefile.am --- EMBOSS-6.3.1/ajax/Makefile.am.system-pcre 2010-06-16 06:26:45.000000000 -0400 +++ EMBOSS-6.3.1/ajax/Makefile.am 2010-08-02 16:00:21.489296489 -0400 @@ -1,6 +1,6 @@ ## Process this file with automake to produce Makefile.in if !ESYSTEMLIBS -EXTRA_DIRS = expat zlib +EXTRA_DIRS = expat zlib pcre endif -SUBDIRS = pcre $(EXTRA_DIRS) core graphics ensembl ajaxdb acd +SUBDIRS = $(EXTRA_DIRS) core graphics ensembl ajaxdb acd diff -up EMBOSS-6.3.1/ajax/Makefile.in.system-pcre EMBOSS-6.3.1/ajax/Makefile.in --- EMBOSS-6.3.1/ajax/Makefile.in.system-pcre 2010-07-19 07:55:40.000000000 -0400 +++ EMBOSS-6.3.1/ajax/Makefile.in 2010-08-02 16:00:52.531270101 -0400 @@ -121,8 +121,6 @@ ESYSTEMLIBS = @ESYSTEMLIBS@ EXEEXT = @EXEEXT@ FGREP = @FGREP@ GREP = @GREP@ -HAVE_MEMMOVE = @HAVE_MEMMOVE@ -HAVE_STRERROR = @HAVE_STRERROR@ INSTALL = @INSTALL@ INSTALL_DATA = @INSTALL_DATA@ INSTALL_PROGRAM = @INSTALL_PROGRAM@ @@ -240,8 +238,8 @@ target_alias = @target_alias@ top_build_prefix = @top_build_prefix@ top_builddir = @top_builddir@ top_srcdir = @top_srcdir@ -@ESYSTEMLIBS_FALSE@EXTRA_DIRS = expat zlib -SUBDIRS = pcre $(EXTRA_DIRS) core graphics ensembl ajaxdb acd +@ESYSTEMLIBS_FALSE@EXTRA_DIRS = expat zlib pcre +SUBDIRS = $(EXTRA_DIRS) core graphics ensembl ajaxdb acd all: all-recursive .SUFFIXES: @@ -254,9 +252,9 @@ $(srcdir)/Makefile.in: $(srcdir)/Makefi exit 1;; \ esac; \ done; \ - echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu ajax/Makefile'; \ + echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnits ajax/Makefile'; \ $(am__cd) $(top_srcdir) && \ - $(AUTOMAKE) --gnu ajax/Makefile + $(AUTOMAKE) --gnits ajax/Makefile .PRECIOUS: Makefile Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status @case '$?' in \ diff -up EMBOSS-6.3.1/configure.in.system-pcre EMBOSS-6.3.1/configure.in --- EMBOSS-6.3.1/configure.in.system-pcre 2010-07-19 07:45:34.000000000 -0400 +++ EMBOSS-6.3.1/configure.in 2010-08-02 16:23:19.710145317 -0400 @@ -196,30 +196,6 @@ fi dnl endian test for indexing system AC_C_BIGENDIAN(CPPFLAGS="$CPPFLAGS -DBENDIAN",CPPFLAGS="$CPPFLAGS -DLENDIAN") -dnl PCRE library definitions - see the MAJOR and MINOR values -dnl to see which version's configure.in these lines come from - -dnl Provide the current PCRE version information. Do not use numbers -dnl with leading zeros for the minor version, as they end up in a C -dnl macro, and may be treated as octal constants. Stick to single -dnl digits for minor numbers less than 10. There are unlikely to be -dnl that many releases anyway. - -PCRE_MAJOR=7 -PCRE_MINOR=9 -PCRE_DATE=11-Apr-2009 -PCRE_VERSION=${PCRE_MAJOR}.${PCRE_MINOR} - -dnl Default values for miscellaneous macros - -POSIX_MALLOC_THRESHOLD=-DPOSIX_MALLOC_THRESHOLD=10 - -dnl Provide versioning information for libtool shared libraries that -dnl are built by default on Unix systems. - -PCRE_LIB_VERSION=0:1:0 -PCRE_POSIXLIB_VERSION=0:0:0 - dnl Define where the EMBOSS package is located AC_SUBST(AJAX_FIXED_ROOT) @@ -447,6 +423,7 @@ AC_ARG_ENABLE(systemlibs, AS_HELP_STRING([--enable-systemlibs], [utility for RPM/dpkg bundles])) if test "${enable_systemlibs}" = "yes" ; then have_systemlibs=yes + AC_CHECK_LIB(pcre, pcre_compile) fi AM_CONDITIONAL(ESYSTEMLIBS, test "$have_systemlibs" = "yes") AC_SUBST(ESYSTEMLIBS) @@ -683,7 +660,7 @@ CHECK_THREADS AC_OUTPUT([plplot/Makefile plplot/lib/Makefile nucleus/Makefile ajax/Makefile -ajax/pcre/Makefile ajax/expat/Makefile ajax/zlib/Makefile ajax/core/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 diff -up EMBOSS-6.3.1/configure.system-pcre EMBOSS-6.3.1/configure --- EMBOSS-6.3.1/configure.system-pcre 2010-08-02 16:26:26.125269290 -0400 +++ EMBOSS-6.3.1/configure 2010-08-02 16:23:38.092267468 -0400 @@ -11891,20 +11891,6 @@ $as_echo "#define AC_APPLE_UNIVERSAL_BUI -PCRE_MAJOR=7 -PCRE_MINOR=9 -PCRE_DATE=11-Apr-2009 -PCRE_VERSION=${PCRE_MAJOR}.${PCRE_MINOR} - - -POSIX_MALLOC_THRESHOLD=-DPOSIX_MALLOC_THRESHOLD=10 - - -PCRE_LIB_VERSION=0:1:0 -PCRE_POSIXLIB_VERSION=0:0:0 - - - AJAX_FIXED_ROOT="\\\"`pwd`/emboss\\\"" EMBOSS_TOP=`pwd` @@ -14915,6 +14901,51 @@ fi if test "${enable_systemlibs}" = "yes" ; then have_systemlibs=yes + { $as_echo "$as_me:${as_lineno-$LINENO}: checking for pcre_compile in -lpcre" >&5 +$as_echo_n "checking for pcre_compile in -lpcre... " >&6; } +if test "${ac_cv_lib_pcre_pcre_compile+set}" = set; then : + $as_echo_n "(cached) " >&6 +else + ac_check_lib_save_LIBS=$LIBS +LIBS="-lpcre $LIBS" +cat confdefs.h - <<_ACEOF >conftest.$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 pcre_compile (); +int +main () +{ +return pcre_compile (); + ; + return 0; +} +_ACEOF +if ac_fn_c_try_link "$LINENO"; then : + ac_cv_lib_pcre_pcre_compile=yes +else + ac_cv_lib_pcre_pcre_compile=no +fi +rm -f core conftest.err conftest.$ac_objext \ + conftest$ac_exeext conftest.$ac_ext +LIBS=$ac_check_lib_save_LIBS +fi +{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_lib_pcre_pcre_compile" >&5 +$as_echo "$ac_cv_lib_pcre_pcre_compile" >&6; } +if test "x$ac_cv_lib_pcre_pcre_compile" = x""yes; then : + cat >>confdefs.h <<_ACEOF +#define HAVE_LIBPCRE 1 +_ACEOF + + LIBS="-lpcre $LIBS" + +fi + fi if test "$have_systemlibs" = "yes"; then ESYSTEMLIBS_TRUE= @@ -15268,7 +15299,7 @@ fi -ac_config_files="$ac_config_files plplot/Makefile plplot/lib/Makefile nucleus/Makefile ajax/Makefile ajax/pcre/Makefile ajax/expat/Makefile ajax/zlib/Makefile ajax/core/Makefile ajax/graphics/Makefile ajax/ensembl/Makefile ajax/ajaxdb/Makefile ajax/acd/Makefile emboss/Makefile emboss/acd/Makefile test/Makefile test/data/Makefile test/embl/Makefile test/genbank/Makefile test/pir/Makefile test/swiss/Makefile test/swnew/Makefile test/testdb/Makefile emboss/data/Makefile emboss/data/AAINDEX/Makefile emboss/data/CODONS/Makefile emboss/data/REBASE/Makefile emboss/data/JASPAR_CORE/Makefile emboss/data/JASPAR_FAM/Makefile emboss/data/JASPAR_PHYLOFACTS/Makefile emboss/data/JASPAR_CNE/Makefile emboss/data/JASPAR_POLII/Makefile emboss/data/JASPAR_SPLICE/Makefile emboss/data/JASPAR_PBM/Makefile emboss/data/JASPAR_PBM_HLH/Makefile emboss/data/JASPAR_PBM_HOMEO/Makefile emboss/data/PRINTS/Makefile emboss/data/PROSITE/Makefile doc/Makefile doc/manuals/Makefile doc/tutorials/Makefile doc/programs/Makefile doc/programs/html/Makefile doc/programs/text/Makefile jemboss/Makefile jemboss/images/Makefile jemboss/lib/Makefile jemboss/lib/axis/Makefile jemboss/resources/Makefile jemboss/utils/Makefile Makefile" +ac_config_files="$ac_config_files 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" cat >confcache <<\_ACEOF # This file is a shell script that caches the results of configure @@ -16326,7 +16357,6 @@ do "plplot/lib/Makefile") CONFIG_FILES="$CONFIG_FILES plplot/lib/Makefile" ;; "nucleus/Makefile") CONFIG_FILES="$CONFIG_FILES nucleus/Makefile" ;; "ajax/Makefile") CONFIG_FILES="$CONFIG_FILES ajax/Makefile" ;; - "ajax/pcre/Makefile") CONFIG_FILES="$CONFIG_FILES ajax/pcre/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="$CONFIG_FILES ajax/core/Makefile" ;; diff -up EMBOSS-6.3.1/emboss/Makefile.am.system-pcre EMBOSS-6.3.1/emboss/Makefile.am --- EMBOSS-6.3.1/emboss/Makefile.am.system-pcre 2010-06-16 06:26:45.000000000 -0400 +++ EMBOSS-6.3.1/emboss/Makefile.am 2010-08-02 16:11:45.469145034 -0400 @@ -79,10 +79,10 @@ wordcount wordfinder wordmatch wossname yank if !ESYSTEMLIBS -EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib +EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre endif -INCLUDES = -I$(top_srcdir)/nucleus -I$(top_srcdir)/ajax/pcre \ +INCLUDES = -I$(top_srcdir)/nucleus \ $(EXTRA_INCLUDES) \ -I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/graphics \ -I$(top_srcdir)/ajax/ensembl -I$(top_srcdir)/ajax/ajaxdb \ @@ -319,7 +319,7 @@ testplot_SOURCES = testplot.c treetypedisplay_SOURCES = treetypedisplay.c if !ESYSTEMLIBS -EXTRA_LDS = ../ajax/zlib/libezlib.la ../ajax/expat/libeexpat.la +EXTRA_LDS = ../ajax/zlib/libezlib.la ../ajax/expat/libeexpat.la ../ajax/pcre/libepcre.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) \ - ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + ../plplot/libeplplot.la \ $(XLIB) pkgdata_DATA = emboss.default.template diff -up EMBOSS-6.3.1/emboss/Makefile.in.system-pcre EMBOSS-6.3.1/emboss/Makefile.in --- EMBOSS-6.3.1/emboss/Makefile.in.system-pcre 2010-07-19 07:55:41.000000000 -0400 +++ EMBOSS-6.3.1/emboss/Makefile.in 2010-08-02 16:20:31.985155163 -0400 @@ -136,7 +136,7 @@ am__DEPENDENCIES_1 = aaindexextract_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_abiview_OBJECTS = abiview.$(OBJEXT) abiview_OBJECTS = $(am_abiview_OBJECTS) @@ -144,7 +144,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_acdc_OBJECTS = acdc.$(OBJEXT) acdc_OBJECTS = $(am_acdc_OBJECTS) @@ -152,7 +152,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_acdgalaxy_OBJECTS = acdgalaxy.$(OBJEXT) acdgalaxy_OBJECTS = $(am_acdgalaxy_OBJECTS) @@ -160,7 +160,7 @@ acdgalaxy_LDADD = $(LDADD) acdgalaxy_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_acdlog_OBJECTS = acdlog.$(OBJEXT) acdlog_OBJECTS = $(am_acdlog_OBJECTS) @@ -168,7 +168,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_acdpretty_OBJECTS = acdpretty.$(OBJEXT) acdpretty_OBJECTS = $(am_acdpretty_OBJECTS) @@ -176,7 +176,7 @@ acdpretty_LDADD = $(LDADD) acdpretty_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_acdrelations_OBJECTS = acdrelations.$(OBJEXT) acdrelations_OBJECTS = $(am_acdrelations_OBJECTS) @@ -184,7 +184,7 @@ acdrelations_LDADD = $(LDADD) acdrelations_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_acdtable_OBJECTS = acdtable.$(OBJEXT) acdtable_OBJECTS = $(am_acdtable_OBJECTS) @@ -192,7 +192,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_acdtrace_OBJECTS = acdtrace.$(OBJEXT) acdtrace_OBJECTS = $(am_acdtrace_OBJECTS) @@ -200,7 +200,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_acdvalid_OBJECTS = acdvalid.$(OBJEXT) acdvalid_OBJECTS = $(am_acdvalid_OBJECTS) @@ -208,7 +208,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_acdxsd_OBJECTS = acdxsd.$(OBJEXT) acdxsd_OBJECTS = $(am_acdxsd_OBJECTS) @@ -216,7 +216,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_ajtest_OBJECTS = ajtest.$(OBJEXT) ajtest_OBJECTS = $(am_ajtest_OBJECTS) @@ -224,7 +224,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_aligncopy_OBJECTS = aligncopy.$(OBJEXT) aligncopy_OBJECTS = $(am_aligncopy_OBJECTS) @@ -232,7 +232,7 @@ aligncopy_LDADD = $(LDADD) aligncopy_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_aligncopypair_OBJECTS = aligncopypair.$(OBJEXT) aligncopypair_OBJECTS = $(am_aligncopypair_OBJECTS) @@ -240,7 +240,7 @@ aligncopypair_LDADD = $(LDADD) aligncopypair_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_antigenic_OBJECTS = antigenic.$(OBJEXT) antigenic_OBJECTS = $(am_antigenic_OBJECTS) @@ -248,7 +248,7 @@ antigenic_LDADD = $(LDADD) antigenic_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_backtranambig_OBJECTS = backtranambig.$(OBJEXT) backtranambig_OBJECTS = $(am_backtranambig_OBJECTS) @@ -256,7 +256,7 @@ backtranambig_LDADD = $(LDADD) backtranambig_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_backtranseq_OBJECTS = backtranseq.$(OBJEXT) backtranseq_OBJECTS = $(am_backtranseq_OBJECTS) @@ -264,7 +264,7 @@ backtranseq_LDADD = $(LDADD) backtranseq_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_banana_OBJECTS = banana.$(OBJEXT) banana_OBJECTS = $(am_banana_OBJECTS) @@ -272,7 +272,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_biosed_OBJECTS = biosed.$(OBJEXT) biosed_OBJECTS = $(am_biosed_OBJECTS) @@ -280,7 +280,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_btwisted_OBJECTS = btwisted.$(OBJEXT) btwisted_OBJECTS = $(am_btwisted_OBJECTS) @@ -288,7 +288,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_cai_OBJECTS = cai.$(OBJEXT) cai_OBJECTS = $(am_cai_OBJECTS) @@ -296,7 +296,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_chaos_OBJECTS = chaos.$(OBJEXT) chaos_OBJECTS = $(am_chaos_OBJECTS) @@ -304,7 +304,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_charge_OBJECTS = charge.$(OBJEXT) charge_OBJECTS = $(am_charge_OBJECTS) @@ -312,7 +312,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_checktrans_OBJECTS = checktrans.$(OBJEXT) checktrans_OBJECTS = $(am_checktrans_OBJECTS) @@ -320,7 +320,7 @@ checktrans_LDADD = $(LDADD) checktrans_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_chips_OBJECTS = chips.$(OBJEXT) chips_OBJECTS = $(am_chips_OBJECTS) @@ -328,7 +328,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_cirdna_OBJECTS = cirdna.$(OBJEXT) cirdna_OBJECTS = $(am_cirdna_OBJECTS) @@ -336,7 +336,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_codcmp_OBJECTS = codcmp.$(OBJEXT) codcmp_OBJECTS = $(am_codcmp_OBJECTS) @@ -344,7 +344,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) codcopy_SOURCES = codcopy.c codcopy_OBJECTS = codcopy.$(OBJEXT) @@ -352,7 +352,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_coderet_OBJECTS = coderet.$(OBJEXT) coderet_OBJECTS = $(am_coderet_OBJECTS) @@ -360,7 +360,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_complex_OBJECTS = complex.$(OBJEXT) complex_OBJECTS = $(am_complex_OBJECTS) @@ -368,7 +368,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_compseq_OBJECTS = compseq.$(OBJEXT) compseq_OBJECTS = $(am_compseq_OBJECTS) @@ -376,7 +376,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_cons_OBJECTS = cons.$(OBJEXT) cons_OBJECTS = $(am_cons_OBJECTS) @@ -384,7 +384,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_consambig_OBJECTS = consambig.$(OBJEXT) consambig_OBJECTS = $(am_consambig_OBJECTS) @@ -392,7 +392,7 @@ consambig_LDADD = $(LDADD) consambig_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_corbatest_OBJECTS = corbatest.$(OBJEXT) corbatest_OBJECTS = $(am_corbatest_OBJECTS) @@ -400,7 +400,7 @@ corbatest_LDADD = $(LDADD) corbatest_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_cpgplot_OBJECTS = cpgplot.$(OBJEXT) cpgplot_OBJECTS = $(am_cpgplot_OBJECTS) @@ -408,7 +408,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_cpgreport_OBJECTS = cpgreport.$(OBJEXT) cpgreport_OBJECTS = $(am_cpgreport_OBJECTS) @@ -416,7 +416,7 @@ cpgreport_LDADD = $(LDADD) cpgreport_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_cusp_OBJECTS = cusp.$(OBJEXT) cusp_OBJECTS = $(am_cusp_OBJECTS) @@ -424,7 +424,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_cutgextract_OBJECTS = cutgextract.$(OBJEXT) cutgextract_OBJECTS = $(am_cutgextract_OBJECTS) @@ -432,7 +432,7 @@ cutgextract_LDADD = $(LDADD) cutgextract_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_cutseq_OBJECTS = cutseq.$(OBJEXT) cutseq_OBJECTS = $(am_cutseq_OBJECTS) @@ -440,7 +440,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dan_OBJECTS = dan.$(OBJEXT) dan_OBJECTS = $(am_dan_OBJECTS) @@ -448,7 +448,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dbiblast_OBJECTS = dbiblast.$(OBJEXT) dbiblast_OBJECTS = $(am_dbiblast_OBJECTS) @@ -456,7 +456,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dbifasta_OBJECTS = dbifasta.$(OBJEXT) dbifasta_OBJECTS = $(am_dbifasta_OBJECTS) @@ -464,7 +464,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dbiflat_OBJECTS = dbiflat.$(OBJEXT) dbiflat_OBJECTS = $(am_dbiflat_OBJECTS) @@ -472,7 +472,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dbigcg_OBJECTS = dbigcg.$(OBJEXT) dbigcg_OBJECTS = $(am_dbigcg_OBJECTS) @@ -480,7 +480,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dbxfasta_OBJECTS = dbxfasta.$(OBJEXT) dbxfasta_OBJECTS = $(am_dbxfasta_OBJECTS) @@ -488,7 +488,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dbxflat_OBJECTS = dbxflat.$(OBJEXT) dbxflat_OBJECTS = $(am_dbxflat_OBJECTS) @@ -496,7 +496,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dbxgcg_OBJECTS = dbxgcg.$(OBJEXT) dbxgcg_OBJECTS = $(am_dbxgcg_OBJECTS) @@ -504,7 +504,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_degapseq_OBJECTS = degapseq.$(OBJEXT) degapseq_OBJECTS = $(am_degapseq_OBJECTS) @@ -512,7 +512,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_density_OBJECTS = density.$(OBJEXT) density_OBJECTS = $(am_density_OBJECTS) @@ -520,7 +520,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_descseq_OBJECTS = descseq.$(OBJEXT) descseq_OBJECTS = $(am_descseq_OBJECTS) @@ -528,7 +528,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_diffseq_OBJECTS = diffseq.$(OBJEXT) diffseq_OBJECTS = $(am_diffseq_OBJECTS) @@ -536,7 +536,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_digest_OBJECTS = digest.$(OBJEXT) digest_OBJECTS = $(am_digest_OBJECTS) @@ -544,7 +544,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_distmat_OBJECTS = distmat.$(OBJEXT) distmat_OBJECTS = $(am_distmat_OBJECTS) @@ -552,7 +552,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) domtesta_SOURCES = domtesta.c domtesta_OBJECTS = domtesta.$(OBJEXT) @@ -560,7 +560,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) domtestb_SOURCES = domtestb.c domtestb_OBJECTS = domtestb.$(OBJEXT) @@ -568,7 +568,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) domtestc_SOURCES = domtestc.c domtestc_OBJECTS = domtestc.$(OBJEXT) @@ -576,7 +576,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) domtestd_SOURCES = domtestd.c domtestd_OBJECTS = domtestd.$(OBJEXT) @@ -584,7 +584,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dotmatcher_OBJECTS = dotmatcher.$(OBJEXT) dotmatcher_OBJECTS = $(am_dotmatcher_OBJECTS) @@ -592,7 +592,7 @@ dotmatcher_LDADD = $(LDADD) dotmatcher_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_dotpath_OBJECTS = dotpath.$(OBJEXT) dotpath_OBJECTS = $(am_dotpath_OBJECTS) @@ -600,7 +600,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dottup_OBJECTS = dottup.$(OBJEXT) dottup_OBJECTS = $(am_dottup_OBJECTS) @@ -608,7 +608,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_dreg_OBJECTS = dreg.$(OBJEXT) dreg_OBJECTS = $(am_dreg_OBJECTS) @@ -616,7 +616,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_edamclean_OBJECTS = edamclean.$(OBJEXT) edamclean_OBJECTS = $(am_edamclean_OBJECTS) @@ -624,7 +624,7 @@ edamclean_LDADD = $(LDADD) edamclean_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_edialign_OBJECTS = edialign.$(OBJEXT) edialign_OBJECTS = $(am_edialign_OBJECTS) @@ -632,7 +632,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_einverted_OBJECTS = einverted.$(OBJEXT) einverted_OBJECTS = $(am_einverted_OBJECTS) @@ -640,7 +640,7 @@ einverted_LDADD = $(LDADD) einverted_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_embossdata_OBJECTS = embossdata.$(OBJEXT) embossdata_OBJECTS = $(am_embossdata_OBJECTS) @@ -648,7 +648,7 @@ embossdata_LDADD = $(LDADD) embossdata_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_embossversion_OBJECTS = embossversion.$(OBJEXT) embossversion_OBJECTS = $(am_embossversion_OBJECTS) @@ -656,7 +656,7 @@ embossversion_LDADD = $(LDADD) embossversion_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_emma_OBJECTS = emma.$(OBJEXT) emma_OBJECTS = $(am_emma_OBJECTS) @@ -664,7 +664,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_emowse_OBJECTS = emowse.$(OBJEXT) emowse_OBJECTS = $(am_emowse_OBJECTS) @@ -672,7 +672,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_ensembltest_OBJECTS = ensembltest.$(OBJEXT) ensembltest_OBJECTS = $(am_ensembltest_OBJECTS) @@ -680,7 +680,7 @@ ensembltest_LDADD = $(LDADD) ensembltest_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_entrails_OBJECTS = entrails.$(OBJEXT) entrails_OBJECTS = $(am_entrails_OBJECTS) @@ -688,7 +688,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_entrailsbook_OBJECTS = entrailsbook.$(OBJEXT) entrailsbook_OBJECTS = $(am_entrailsbook_OBJECTS) @@ -696,7 +696,7 @@ entrailsbook_LDADD = $(LDADD) entrailsbook_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_entrailshtml_OBJECTS = entrailshtml.$(OBJEXT) entrailshtml_OBJECTS = $(am_entrailshtml_OBJECTS) @@ -704,7 +704,7 @@ entrailshtml_LDADD = $(LDADD) entrailshtml_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_entrailswiki_OBJECTS = entrailswiki.$(OBJEXT) entrailswiki_OBJECTS = $(am_entrailswiki_OBJECTS) @@ -712,7 +712,7 @@ entrailswiki_LDADD = $(LDADD) entrailswiki_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_entret_OBJECTS = entret.$(OBJEXT) entret_OBJECTS = $(am_entret_OBJECTS) @@ -720,7 +720,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_epestfind_OBJECTS = epestfind.$(OBJEXT) epestfind_OBJECTS = $(am_epestfind_OBJECTS) @@ -728,7 +728,7 @@ epestfind_LDADD = $(LDADD) epestfind_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_eprimer3_OBJECTS = eprimer3.$(OBJEXT) eprimer3_OBJECTS = $(am_eprimer3_OBJECTS) @@ -736,7 +736,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_equicktandem_OBJECTS = equicktandem.$(OBJEXT) equicktandem_OBJECTS = $(am_equicktandem_OBJECTS) @@ -744,7 +744,7 @@ equicktandem_LDADD = $(LDADD) equicktandem_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_est2genome_OBJECTS = est2genome.$(OBJEXT) est2genome_OBJECTS = $(am_est2genome_OBJECTS) @@ -752,7 +752,7 @@ est2genome_LDADD = $(LDADD) est2genome_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_etandem_OBJECTS = etandem.$(OBJEXT) etandem_OBJECTS = $(am_etandem_OBJECTS) @@ -760,7 +760,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_extractalign_OBJECTS = extractalign.$(OBJEXT) extractalign_OBJECTS = $(am_extractalign_OBJECTS) @@ -768,7 +768,7 @@ extractalign_LDADD = $(LDADD) extractalign_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_extractfeat_OBJECTS = extractfeat.$(OBJEXT) extractfeat_OBJECTS = $(am_extractfeat_OBJECTS) @@ -776,7 +776,7 @@ extractfeat_LDADD = $(LDADD) extractfeat_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_extractseq_OBJECTS = extractseq.$(OBJEXT) extractseq_OBJECTS = $(am_extractseq_OBJECTS) @@ -784,7 +784,7 @@ extractseq_LDADD = $(LDADD) extractseq_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_featcopy_OBJECTS = featcopy.$(OBJEXT) featcopy_OBJECTS = $(am_featcopy_OBJECTS) @@ -792,7 +792,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_featreport_OBJECTS = featreport.$(OBJEXT) featreport_OBJECTS = $(am_featreport_OBJECTS) @@ -800,7 +800,7 @@ featreport_LDADD = $(LDADD) featreport_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_findkm_OBJECTS = findkm.$(OBJEXT) findkm_OBJECTS = $(am_findkm_OBJECTS) @@ -808,7 +808,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_freak_OBJECTS = freak.$(OBJEXT) freak_OBJECTS = $(am_freak_OBJECTS) @@ -816,7 +816,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_fuzznuc_OBJECTS = fuzznuc.$(OBJEXT) fuzznuc_OBJECTS = $(am_fuzznuc_OBJECTS) @@ -824,7 +824,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_fuzzpro_OBJECTS = fuzzpro.$(OBJEXT) fuzzpro_OBJECTS = $(am_fuzzpro_OBJECTS) @@ -832,7 +832,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_fuzztran_OBJECTS = fuzztran.$(OBJEXT) fuzztran_OBJECTS = $(am_fuzztran_OBJECTS) @@ -840,7 +840,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_garnier_OBJECTS = garnier.$(OBJEXT) garnier_OBJECTS = $(am_garnier_OBJECTS) @@ -848,7 +848,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_geecee_OBJECTS = geecee.$(OBJEXT) geecee_OBJECTS = $(am_geecee_OBJECTS) @@ -856,7 +856,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_getorf_OBJECTS = getorf.$(OBJEXT) getorf_OBJECTS = $(am_getorf_OBJECTS) @@ -864,7 +864,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_helixturnhelix_OBJECTS = helixturnhelix.$(OBJEXT) helixturnhelix_OBJECTS = $(am_helixturnhelix_OBJECTS) @@ -872,7 +872,7 @@ helixturnhelix_LDADD = $(LDADD) helixturnhelix_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_histogramtest_OBJECTS = histogramtest.$(OBJEXT) histogramtest_OBJECTS = $(am_histogramtest_OBJECTS) @@ -880,7 +880,7 @@ histogramtest_LDADD = $(LDADD) histogramtest_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_hmoment_OBJECTS = hmoment.$(OBJEXT) hmoment_OBJECTS = $(am_hmoment_OBJECTS) @@ -888,7 +888,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_iep_OBJECTS = iep.$(OBJEXT) iep_OBJECTS = $(am_iep_OBJECTS) @@ -896,7 +896,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_infoalign_OBJECTS = infoalign.$(OBJEXT) infoalign_OBJECTS = $(am_infoalign_OBJECTS) @@ -904,7 +904,7 @@ infoalign_LDADD = $(LDADD) infoalign_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_infobase_OBJECTS = infobase.$(OBJEXT) infobase_OBJECTS = $(am_infobase_OBJECTS) @@ -912,7 +912,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_inforesidue_OBJECTS = inforesidue.$(OBJEXT) inforesidue_OBJECTS = $(am_inforesidue_OBJECTS) @@ -920,7 +920,7 @@ inforesidue_LDADD = $(LDADD) inforesidue_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_infoseq_OBJECTS = infoseq.$(OBJEXT) infoseq_OBJECTS = $(am_infoseq_OBJECTS) @@ -928,7 +928,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_intconv_OBJECTS = intconv.$(OBJEXT) intconv_OBJECTS = $(am_intconv_OBJECTS) @@ -936,7 +936,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_isochore_OBJECTS = isochore.$(OBJEXT) isochore_OBJECTS = $(am_isochore_OBJECTS) @@ -944,7 +944,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_jaspextract_OBJECTS = jaspextract.$(OBJEXT) jaspextract_OBJECTS = $(am_jaspextract_OBJECTS) @@ -952,7 +952,7 @@ jaspextract_LDADD = $(LDADD) jaspextract_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_jaspscan_OBJECTS = jaspscan.$(OBJEXT) jaspscan_OBJECTS = $(am_jaspscan_OBJECTS) @@ -960,7 +960,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_jembossctl_OBJECTS = jembossctl.$(OBJEXT) jembossctl_OBJECTS = $(am_jembossctl_OBJECTS) @@ -968,7 +968,7 @@ jembossctl_LDADD = $(LDADD) jembossctl_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_lindna_OBJECTS = lindna.$(OBJEXT) lindna_OBJECTS = $(am_lindna_OBJECTS) @@ -976,7 +976,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_listor_OBJECTS = listor.$(OBJEXT) listor_OBJECTS = $(am_listor_OBJECTS) @@ -984,7 +984,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) makenucseq_SOURCES = makenucseq.c makenucseq_OBJECTS = makenucseq.$(OBJEXT) @@ -992,7 +992,7 @@ makenucseq_LDADD = $(LDADD) makenucseq_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) makeprotseq_SOURCES = makeprotseq.c makeprotseq_OBJECTS = makeprotseq.$(OBJEXT) @@ -1000,7 +1000,7 @@ makeprotseq_LDADD = $(LDADD) makeprotseq_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_marscan_OBJECTS = marscan.$(OBJEXT) marscan_OBJECTS = $(am_marscan_OBJECTS) @@ -1008,7 +1008,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_martattributes_OBJECTS = martattributes.$(OBJEXT) martattributes_OBJECTS = $(am_martattributes_OBJECTS) @@ -1016,7 +1016,7 @@ martattributes_LDADD = $(LDADD) martattributes_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_martdatasets_OBJECTS = martdatasets.$(OBJEXT) martdatasets_OBJECTS = $(am_martdatasets_OBJECTS) @@ -1024,7 +1024,7 @@ martdatasets_LDADD = $(LDADD) martdatasets_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_martfilters_OBJECTS = martfilters.$(OBJEXT) martfilters_OBJECTS = $(am_martfilters_OBJECTS) @@ -1032,7 +1032,7 @@ martfilters_LDADD = $(LDADD) martfilters_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_martquery_OBJECTS = martquery.$(OBJEXT) martquery_OBJECTS = $(am_martquery_OBJECTS) @@ -1040,7 +1040,7 @@ martquery_LDADD = $(LDADD) martquery_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_martregistry_OBJECTS = martregistry.$(OBJEXT) martregistry_OBJECTS = $(am_martregistry_OBJECTS) @@ -1048,7 +1048,7 @@ martregistry_LDADD = $(LDADD) martregistry_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_martseqs_OBJECTS = martseqs.$(OBJEXT) martseqs_OBJECTS = $(am_martseqs_OBJECTS) @@ -1056,7 +1056,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_maskambignuc_OBJECTS = maskambignuc.$(OBJEXT) maskambignuc_OBJECTS = $(am_maskambignuc_OBJECTS) @@ -1064,7 +1064,7 @@ maskambignuc_LDADD = $(LDADD) maskambignuc_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_maskambigprot_OBJECTS = maskambigprot.$(OBJEXT) maskambigprot_OBJECTS = $(am_maskambigprot_OBJECTS) @@ -1072,7 +1072,7 @@ maskambigprot_LDADD = $(LDADD) maskambigprot_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_maskfeat_OBJECTS = maskfeat.$(OBJEXT) maskfeat_OBJECTS = $(am_maskfeat_OBJECTS) @@ -1080,7 +1080,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_maskseq_OBJECTS = maskseq.$(OBJEXT) maskseq_OBJECTS = $(am_maskseq_OBJECTS) @@ -1088,7 +1088,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_matcher_OBJECTS = matcher.$(OBJEXT) matcher_OBJECTS = $(am_matcher_OBJECTS) @@ -1096,7 +1096,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_megamerger_OBJECTS = megamerger.$(OBJEXT) megamerger_OBJECTS = $(am_megamerger_OBJECTS) @@ -1104,7 +1104,7 @@ megamerger_LDADD = $(LDADD) megamerger_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_merger_OBJECTS = merger.$(OBJEXT) merger_OBJECTS = $(am_merger_OBJECTS) @@ -1112,7 +1112,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_msbar_OBJECTS = msbar.$(OBJEXT) msbar_OBJECTS = $(am_msbar_OBJECTS) @@ -1120,7 +1120,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_mwcontam_OBJECTS = mwcontam.$(OBJEXT) mwcontam_OBJECTS = $(am_mwcontam_OBJECTS) @@ -1128,7 +1128,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_mwfilter_OBJECTS = mwfilter.$(OBJEXT) mwfilter_OBJECTS = $(am_mwfilter_OBJECTS) @@ -1136,7 +1136,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_needle_OBJECTS = needle.$(OBJEXT) needle_OBJECTS = $(am_needle_OBJECTS) @@ -1144,7 +1144,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_needleall_OBJECTS = needleall.$(OBJEXT) needleall_OBJECTS = $(am_needleall_OBJECTS) @@ -1152,7 +1152,7 @@ needleall_LDADD = $(LDADD) needleall_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_newcoils_OBJECTS = newcoils.$(OBJEXT) newcoils_OBJECTS = $(am_newcoils_OBJECTS) @@ -1160,7 +1160,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_newcpgreport_OBJECTS = newcpgreport.$(OBJEXT) newcpgreport_OBJECTS = $(am_newcpgreport_OBJECTS) @@ -1168,7 +1168,7 @@ newcpgreport_LDADD = $(LDADD) newcpgreport_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_newcpgseek_OBJECTS = newcpgseek.$(OBJEXT) newcpgseek_OBJECTS = $(am_newcpgseek_OBJECTS) @@ -1176,7 +1176,7 @@ newcpgseek_LDADD = $(LDADD) newcpgseek_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_newseq_OBJECTS = newseq.$(OBJEXT) newseq_OBJECTS = $(am_newseq_OBJECTS) @@ -1184,7 +1184,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_nohtml_OBJECTS = nohtml.$(OBJEXT) nohtml_OBJECTS = $(am_nohtml_OBJECTS) @@ -1192,7 +1192,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_noreturn_OBJECTS = noreturn.$(OBJEXT) noreturn_OBJECTS = $(am_noreturn_OBJECTS) @@ -1200,7 +1200,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_nospace_OBJECTS = nospace.$(OBJEXT) nospace_OBJECTS = $(am_nospace_OBJECTS) @@ -1208,7 +1208,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_notab_OBJECTS = notab.$(OBJEXT) notab_OBJECTS = $(am_notab_OBJECTS) @@ -1216,7 +1216,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_notseq_OBJECTS = notseq.$(OBJEXT) notseq_OBJECTS = $(am_notseq_OBJECTS) @@ -1224,7 +1224,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_nthseq_OBJECTS = nthseq.$(OBJEXT) nthseq_OBJECTS = $(am_nthseq_OBJECTS) @@ -1232,7 +1232,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_nthseqset_OBJECTS = nthseqset.$(OBJEXT) nthseqset_OBJECTS = $(am_nthseqset_OBJECTS) @@ -1240,7 +1240,7 @@ nthseqset_LDADD = $(LDADD) nthseqset_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_octanol_OBJECTS = octanol.$(OBJEXT) octanol_OBJECTS = $(am_octanol_OBJECTS) @@ -1248,7 +1248,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_oddcomp_OBJECTS = oddcomp.$(OBJEXT) oddcomp_OBJECTS = $(am_oddcomp_OBJECTS) @@ -1256,7 +1256,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_origsplitter_OBJECTS = origsplitter.$(OBJEXT) origsplitter_OBJECTS = $(am_origsplitter_OBJECTS) @@ -1264,7 +1264,7 @@ origsplitter_LDADD = $(LDADD) origsplitter_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_origunion_OBJECTS = origunion.$(OBJEXT) origunion_OBJECTS = $(am_origunion_OBJECTS) @@ -1272,7 +1272,7 @@ origunion_LDADD = $(LDADD) origunion_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_palindrome_OBJECTS = palindrome.$(OBJEXT) palindrome_OBJECTS = $(am_palindrome_OBJECTS) @@ -1280,7 +1280,7 @@ palindrome_LDADD = $(LDADD) palindrome_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_pasteseq_OBJECTS = pasteseq.$(OBJEXT) pasteseq_OBJECTS = $(am_pasteseq_OBJECTS) @@ -1288,7 +1288,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_patmatdb_OBJECTS = patmatdb.$(OBJEXT) patmatdb_OBJECTS = $(am_patmatdb_OBJECTS) @@ -1296,7 +1296,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_patmatmotifs_OBJECTS = patmatmotifs.$(OBJEXT) patmatmotifs_OBJECTS = $(am_patmatmotifs_OBJECTS) @@ -1304,7 +1304,7 @@ patmatmotifs_LDADD = $(LDADD) patmatmotifs_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_patmattest_OBJECTS = patmattest.$(OBJEXT) patmattest_OBJECTS = $(am_patmattest_OBJECTS) @@ -1312,7 +1312,7 @@ patmattest_LDADD = $(LDADD) patmattest_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_pepcoil_OBJECTS = pepcoil.$(OBJEXT) pepcoil_OBJECTS = $(am_pepcoil_OBJECTS) @@ -1320,7 +1320,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_pepinfo_OBJECTS = pepinfo.$(OBJEXT) pepinfo_OBJECTS = $(am_pepinfo_OBJECTS) @@ -1328,7 +1328,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_pepnet_OBJECTS = pepnet.$(OBJEXT) pepnet_OBJECTS = $(am_pepnet_OBJECTS) @@ -1336,7 +1336,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_pepstats_OBJECTS = pepstats.$(OBJEXT) pepstats_OBJECTS = $(am_pepstats_OBJECTS) @@ -1344,7 +1344,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_pepwheel_OBJECTS = pepwheel.$(OBJEXT) pepwheel_OBJECTS = $(am_pepwheel_OBJECTS) @@ -1352,7 +1352,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_pepwindow_OBJECTS = pepwindow.$(OBJEXT) pepwindow_OBJECTS = $(am_pepwindow_OBJECTS) @@ -1360,7 +1360,7 @@ pepwindow_LDADD = $(LDADD) pepwindow_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_pepwindowall_OBJECTS = pepwindowall.$(OBJEXT) pepwindowall_OBJECTS = $(am_pepwindowall_OBJECTS) @@ -1368,7 +1368,7 @@ pepwindowall_LDADD = $(LDADD) pepwindowall_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_plotcon_OBJECTS = plotcon.$(OBJEXT) plotcon_OBJECTS = $(am_plotcon_OBJECTS) @@ -1376,7 +1376,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_plotorf_OBJECTS = plotorf.$(OBJEXT) plotorf_OBJECTS = $(am_plotorf_OBJECTS) @@ -1384,7 +1384,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_polydot_OBJECTS = polydot.$(OBJEXT) polydot_OBJECTS = $(am_polydot_OBJECTS) @@ -1392,7 +1392,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_preg_OBJECTS = preg.$(OBJEXT) preg_OBJECTS = $(am_preg_OBJECTS) @@ -1400,7 +1400,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_prettyplot_OBJECTS = prettyplot.$(OBJEXT) prettyplot_OBJECTS = $(am_prettyplot_OBJECTS) @@ -1408,7 +1408,7 @@ prettyplot_LDADD = $(LDADD) prettyplot_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_prettyseq_OBJECTS = prettyseq.$(OBJEXT) prettyseq_OBJECTS = $(am_prettyseq_OBJECTS) @@ -1416,7 +1416,7 @@ prettyseq_LDADD = $(LDADD) prettyseq_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_prima_OBJECTS = prima.$(OBJEXT) prima_OBJECTS = $(am_prima_OBJECTS) @@ -1424,7 +1424,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_primers_OBJECTS = primers.$(OBJEXT) primers_OBJECTS = $(am_primers_OBJECTS) @@ -1432,7 +1432,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_primersearch_OBJECTS = primersearch.$(OBJEXT) primersearch_OBJECTS = $(am_primersearch_OBJECTS) @@ -1440,7 +1440,7 @@ primersearch_LDADD = $(LDADD) primersearch_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_printsextract_OBJECTS = printsextract.$(OBJEXT) printsextract_OBJECTS = $(am_printsextract_OBJECTS) @@ -1448,7 +1448,7 @@ printsextract_LDADD = $(LDADD) printsextract_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_profit_OBJECTS = profit.$(OBJEXT) profit_OBJECTS = $(am_profit_OBJECTS) @@ -1456,7 +1456,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_prophecy_OBJECTS = prophecy.$(OBJEXT) prophecy_OBJECTS = $(am_prophecy_OBJECTS) @@ -1464,7 +1464,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_prophet_OBJECTS = prophet.$(OBJEXT) prophet_OBJECTS = $(am_prophet_OBJECTS) @@ -1472,7 +1472,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_prosextract_OBJECTS = prosextract.$(OBJEXT) prosextract_OBJECTS = $(am_prosextract_OBJECTS) @@ -1480,7 +1480,7 @@ prosextract_LDADD = $(LDADD) prosextract_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_pscan_OBJECTS = pscan.$(OBJEXT) pscan_OBJECTS = $(am_pscan_OBJECTS) @@ -1488,7 +1488,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_psiphi_OBJECTS = psiphi.$(OBJEXT) psiphi_OBJECTS = $(am_psiphi_OBJECTS) @@ -1496,7 +1496,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_rebaseextract_OBJECTS = rebaseextract.$(OBJEXT) rebaseextract_OBJECTS = $(am_rebaseextract_OBJECTS) @@ -1504,7 +1504,7 @@ rebaseextract_LDADD = $(LDADD) rebaseextract_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_recoder_OBJECTS = recoder.$(OBJEXT) recoder_OBJECTS = $(am_recoder_OBJECTS) @@ -1512,7 +1512,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_redata_OBJECTS = redata.$(OBJEXT) redata_OBJECTS = $(am_redata_OBJECTS) @@ -1520,7 +1520,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_remap_OBJECTS = remap.$(OBJEXT) remap_OBJECTS = $(am_remap_OBJECTS) @@ -1528,7 +1528,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_restover_OBJECTS = restover.$(OBJEXT) restover_OBJECTS = $(am_restover_OBJECTS) @@ -1536,7 +1536,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_restrict_OBJECTS = restrict.$(OBJEXT) restrict_OBJECTS = $(am_restrict_OBJECTS) @@ -1544,7 +1544,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_revseq_OBJECTS = revseq.$(OBJEXT) revseq_OBJECTS = $(am_revseq_OBJECTS) @@ -1552,7 +1552,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_seealso_OBJECTS = seealso.$(OBJEXT) seealso_OBJECTS = $(am_seealso_OBJECTS) @@ -1560,7 +1560,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_seqinfo_OBJECTS = seqinfo.$(OBJEXT) seqinfo_OBJECTS = $(am_seqinfo_OBJECTS) @@ -1568,7 +1568,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_seqmatchall_OBJECTS = seqmatchall.$(OBJEXT) seqmatchall_OBJECTS = $(am_seqmatchall_OBJECTS) @@ -1576,7 +1576,7 @@ seqmatchall_LDADD = $(LDADD) seqmatchall_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_seqret_OBJECTS = seqret.$(OBJEXT) seqret_OBJECTS = $(am_seqret_OBJECTS) @@ -1584,7 +1584,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_seqretall_OBJECTS = seqretall.$(OBJEXT) seqretall_OBJECTS = $(am_seqretall_OBJECTS) @@ -1592,7 +1592,7 @@ seqretall_LDADD = $(LDADD) seqretall_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_seqretallfeat_OBJECTS = seqretallfeat.$(OBJEXT) seqretallfeat_OBJECTS = $(am_seqretallfeat_OBJECTS) @@ -1600,7 +1600,7 @@ seqretallfeat_LDADD = $(LDADD) seqretallfeat_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_seqretset_OBJECTS = seqretset.$(OBJEXT) seqretset_OBJECTS = $(am_seqretset_OBJECTS) @@ -1608,7 +1608,7 @@ seqretset_LDADD = $(LDADD) seqretset_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_seqretsetall_OBJECTS = seqretsetall.$(OBJEXT) seqretsetall_OBJECTS = $(am_seqretsetall_OBJECTS) @@ -1616,7 +1616,7 @@ seqretsetall_LDADD = $(LDADD) seqretsetall_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_seqretsingle_OBJECTS = seqretsingle.$(OBJEXT) seqretsingle_OBJECTS = $(am_seqretsingle_OBJECTS) @@ -1624,7 +1624,7 @@ seqretsingle_LDADD = $(LDADD) seqretsingle_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_seqretsplit_OBJECTS = seqretsplit.$(OBJEXT) seqretsplit_OBJECTS = $(am_seqretsplit_OBJECTS) @@ -1632,7 +1632,7 @@ seqretsplit_LDADD = $(LDADD) seqretsplit_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_seqrettype_OBJECTS = seqrettype.$(OBJEXT) seqrettype_OBJECTS = $(am_seqrettype_OBJECTS) @@ -1640,7 +1640,7 @@ seqrettype_LDADD = $(LDADD) seqrettype_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_showalign_OBJECTS = showalign.$(OBJEXT) showalign_OBJECTS = $(am_showalign_OBJECTS) @@ -1648,7 +1648,7 @@ showalign_LDADD = $(LDADD) showalign_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_showdb_OBJECTS = showdb.$(OBJEXT) showdb_OBJECTS = $(am_showdb_OBJECTS) @@ -1656,7 +1656,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_showfeat_OBJECTS = showfeat.$(OBJEXT) showfeat_OBJECTS = $(am_showfeat_OBJECTS) @@ -1664,7 +1664,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_showorf_OBJECTS = showorf.$(OBJEXT) showorf_OBJECTS = $(am_showorf_OBJECTS) @@ -1672,7 +1672,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_showpep_OBJECTS = showpep.$(OBJEXT) showpep_OBJECTS = $(am_showpep_OBJECTS) @@ -1680,7 +1680,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_showseq_OBJECTS = showseq.$(OBJEXT) showseq_OBJECTS = $(am_showseq_OBJECTS) @@ -1688,7 +1688,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_shuffleseq_OBJECTS = shuffleseq.$(OBJEXT) shuffleseq_OBJECTS = $(am_shuffleseq_OBJECTS) @@ -1696,7 +1696,7 @@ shuffleseq_LDADD = $(LDADD) shuffleseq_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_sigcleave_OBJECTS = sigcleave.$(OBJEXT) sigcleave_OBJECTS = $(am_sigcleave_OBJECTS) @@ -1704,7 +1704,7 @@ sigcleave_LDADD = $(LDADD) sigcleave_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_silent_OBJECTS = silent.$(OBJEXT) silent_OBJECTS = $(am_silent_OBJECTS) @@ -1712,7 +1712,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_sirna_OBJECTS = sirna.$(OBJEXT) sirna_OBJECTS = $(am_sirna_OBJECTS) @@ -1720,7 +1720,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_sixpack_OBJECTS = sixpack.$(OBJEXT) sixpack_OBJECTS = $(am_sixpack_OBJECTS) @@ -1728,7 +1728,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_sizeseq_OBJECTS = sizeseq.$(OBJEXT) sizeseq_OBJECTS = $(am_sizeseq_OBJECTS) @@ -1736,7 +1736,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_skipredundant_OBJECTS = skipredundant.$(OBJEXT) skipredundant_OBJECTS = $(am_skipredundant_OBJECTS) @@ -1744,7 +1744,7 @@ skipredundant_LDADD = $(LDADD) skipredundant_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_skipseq_OBJECTS = skipseq.$(OBJEXT) skipseq_OBJECTS = $(am_skipseq_OBJECTS) @@ -1752,7 +1752,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) splitsource_SOURCES = splitsource.c splitsource_OBJECTS = splitsource.$(OBJEXT) @@ -1760,7 +1760,7 @@ splitsource_LDADD = $(LDADD) splitsource_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_splitter_OBJECTS = splitter.$(OBJEXT) splitter_OBJECTS = $(am_splitter_OBJECTS) @@ -1768,7 +1768,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_sqltest_OBJECTS = sqltest.$(OBJEXT) sqltest_OBJECTS = $(am_sqltest_OBJECTS) @@ -1776,7 +1776,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_stretcher_OBJECTS = stretcher.$(OBJEXT) stretcher_OBJECTS = $(am_stretcher_OBJECTS) @@ -1784,7 +1784,7 @@ stretcher_LDADD = $(LDADD) stretcher_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_stssearch_OBJECTS = stssearch.$(OBJEXT) stssearch_OBJECTS = $(am_stssearch_OBJECTS) @@ -1792,7 +1792,7 @@ stssearch_LDADD = $(LDADD) stssearch_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_supermatcher_OBJECTS = supermatcher.$(OBJEXT) supermatcher_OBJECTS = $(am_supermatcher_OBJECTS) @@ -1800,7 +1800,7 @@ supermatcher_LDADD = $(LDADD) supermatcher_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_syco_OBJECTS = syco.$(OBJEXT) syco_OBJECTS = $(am_syco_OBJECTS) @@ -1808,7 +1808,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_tcode_OBJECTS = tcode.$(OBJEXT) tcode_OBJECTS = $(am_tcode_OBJECTS) @@ -1816,7 +1816,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_testplot_OBJECTS = testplot.$(OBJEXT) testplot_OBJECTS = $(am_testplot_OBJECTS) @@ -1824,7 +1824,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_textsearch_OBJECTS = textsearch.$(OBJEXT) textsearch_OBJECTS = $(am_textsearch_OBJECTS) @@ -1832,7 +1832,7 @@ textsearch_LDADD = $(LDADD) textsearch_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_tfextract_OBJECTS = tfextract.$(OBJEXT) tfextract_OBJECTS = $(am_tfextract_OBJECTS) @@ -1840,7 +1840,7 @@ tfextract_LDADD = $(LDADD) tfextract_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_tfm_OBJECTS = tfm.$(OBJEXT) tfm_OBJECTS = $(am_tfm_OBJECTS) @@ -1848,7 +1848,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_tfscan_OBJECTS = tfscan.$(OBJEXT) tfscan_OBJECTS = $(am_tfscan_OBJECTS) @@ -1856,7 +1856,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_tmap_OBJECTS = tmap.$(OBJEXT) tmap_OBJECTS = $(am_tmap_OBJECTS) @@ -1864,7 +1864,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_tranalign_OBJECTS = tranalign.$(OBJEXT) tranalign_OBJECTS = $(am_tranalign_OBJECTS) @@ -1872,7 +1872,7 @@ tranalign_LDADD = $(LDADD) tranalign_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_transeq_OBJECTS = transeq.$(OBJEXT) transeq_OBJECTS = $(am_transeq_OBJECTS) @@ -1880,7 +1880,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_treetypedisplay_OBJECTS = treetypedisplay.$(OBJEXT) treetypedisplay_OBJECTS = $(am_treetypedisplay_OBJECTS) @@ -1888,7 +1888,7 @@ treetypedisplay_LDADD = $(LDADD) treetypedisplay_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_trimest_OBJECTS = trimest.$(OBJEXT) trimest_OBJECTS = $(am_trimest_OBJECTS) @@ -1896,7 +1896,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_trimseq_OBJECTS = trimseq.$(OBJEXT) trimseq_OBJECTS = $(am_trimseq_OBJECTS) @@ -1904,7 +1904,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_trimspace_OBJECTS = trimspace.$(OBJEXT) trimspace_OBJECTS = $(am_trimspace_OBJECTS) @@ -1912,7 +1912,7 @@ trimspace_LDADD = $(LDADD) trimspace_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_twofeat_OBJECTS = twofeat.$(OBJEXT) twofeat_OBJECTS = $(am_twofeat_OBJECTS) @@ -1920,7 +1920,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_union_OBJECTS = union.$(OBJEXT) union_OBJECTS = $(am_union_OBJECTS) @@ -1928,7 +1928,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_vectorstrip_OBJECTS = vectorstrip.$(OBJEXT) vectorstrip_OBJECTS = $(am_vectorstrip_OBJECTS) @@ -1936,7 +1936,7 @@ vectorstrip_LDADD = $(LDADD) vectorstrip_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_water_OBJECTS = water.$(OBJEXT) water_OBJECTS = $(am_water_OBJECTS) @@ -1944,7 +1944,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_whichdb_OBJECTS = whichdb.$(OBJEXT) whichdb_OBJECTS = $(am_whichdb_OBJECTS) @@ -1952,7 +1952,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_wobble_OBJECTS = wobble.$(OBJEXT) wobble_OBJECTS = $(am_wobble_OBJECTS) @@ -1960,7 +1960,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_wordcount_OBJECTS = wordcount.$(OBJEXT) wordcount_OBJECTS = $(am_wordcount_OBJECTS) @@ -1968,7 +1968,7 @@ wordcount_LDADD = $(LDADD) wordcount_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_wordfinder_OBJECTS = wordfinder.$(OBJEXT) wordfinder_OBJECTS = $(am_wordfinder_OBJECTS) @@ -1976,7 +1976,7 @@ wordfinder_LDADD = $(LDADD) wordfinder_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_wordmatch_OBJECTS = wordmatch.$(OBJEXT) wordmatch_OBJECTS = $(am_wordmatch_OBJECTS) @@ -1984,7 +1984,7 @@ wordmatch_LDADD = $(LDADD) wordmatch_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) ../ajax/pcre/libepcre.la \ + ../ajax/core/libajax.la $(EXTRA_LDS) \ ../plplot/libeplplot.la $(am__DEPENDENCIES_1) am_wossname_OBJECTS = wossname.$(OBJEXT) wossname_OBJECTS = $(am_wossname_OBJECTS) @@ -1992,7 +1992,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) am_yank_OBJECTS = yank.$(OBJEXT) yank_OBJECTS = $(am_yank_OBJECTS) @@ -2000,7 +2000,7 @@ 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) ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + $(EXTRA_LDS) ../plplot/libeplplot.la \ $(am__DEPENDENCIES_1) DEFAULT_INCLUDES = -I.@am__isrc@ depcomp = $(SHELL) $(top_srcdir)/depcomp @@ -2284,8 +2284,6 @@ ESYSTEMLIBS = @ESYSTEMLIBS@ EXEEXT = @EXEEXT@ FGREP = @FGREP@ GREP = @GREP@ -HAVE_MEMMOVE = @HAVE_MEMMOVE@ -HAVE_STRERROR = @HAVE_STRERROR@ INSTALL = @INSTALL@ INSTALL_DATA = @INSTALL_DATA@ INSTALL_PROGRAM = @INSTALL_PROGRAM@ @@ -2412,8 +2410,8 @@ 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$(top_srcdir)/ajax/zlib -INCLUDES = -I$(top_srcdir)/nucleus -I$(top_srcdir)/ajax/pcre \ +@ESYSTEMLIBS_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre +INCLUDES = -I$(top_srcdir)/nucleus \ $(EXTRA_INCLUDES) \ -I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/graphics \ -I$(top_srcdir)/ajax/ensembl -I$(top_srcdir)/ajax/ajaxdb \ @@ -2645,12 +2643,12 @@ 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 +@ESYSTEMLIBS_FALSE@EXTRA_LDS = ../ajax/zlib/libezlib.la ../ajax/expat/libeexpat.la ../ajax/pcre/libepcre.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) \ - ../ajax/pcre/libepcre.la ../plplot/libeplplot.la \ + ../plplot/libeplplot.la \ $(XLIB) pkgdata_DATA = emboss.default.template @@ -2667,9 +2665,9 @@ $(srcdir)/Makefile.in: $(srcdir)/Makefi exit 1;; \ esac; \ done; \ - echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu emboss/Makefile'; \ + echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnits emboss/Makefile'; \ $(am__cd) $(top_srcdir) && \ - $(AUTOMAKE) --gnu emboss/Makefile + $(AUTOMAKE) --gnits emboss/Makefile .PRECIOUS: Makefile Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status @case '$?' in \ @@ -2732,6 +2730,22 @@ clean-binPROGRAMS: echo " rm -f" $$list; \ rm -f $$list +installcheck-binPROGRAMS: $(bin_PROGRAMS) + bad=0; pid=$$$$; list="$(bin_PROGRAMS)"; for p in $$list; do \ + case ' $(AM_INSTALLCHECK_STD_OPTIONS_EXEMPT) ' in \ + *" $$p "* | *" $(srcdir)/$$p "*) continue;; \ + esac; \ + f=`echo "$$p" | \ + sed 's,^.*/,,;s/$(EXEEXT)$$//;$(transform);s/$$/$(EXEEXT)/'`; \ + for opt in --help --version; do \ + if "$(DESTDIR)$(bindir)/$$f" $$opt >c$${pid}_.out \ + 2>c$${pid}_.err &2; bad=1; fi; \ + done; \ + done; rm -f c$${pid}_.???; exit $$bad + clean-checkPROGRAMS: @list='$(check_PROGRAMS)'; test -n "$$list" || exit 0; \ echo " rm -f" $$list; \ @@ -4007,7 +4021,7 @@ install-ps: install-ps-recursive install-ps-am: -installcheck-am: +installcheck-am: installcheck-binPROGRAMS maintainer-clean: maintainer-clean-recursive -rm -rf ./$(DEPDIR) @@ -4042,12 +4056,12 @@ uninstall-am: uninstall-binPROGRAMS unin install-exec install-exec-am install-html install-html-am \ install-info install-info-am install-man install-pdf \ install-pdf-am install-pkgdataDATA install-ps install-ps-am \ - install-strip installcheck installcheck-am installdirs \ - installdirs-am maintainer-clean maintainer-clean-generic \ - mostlyclean mostlyclean-compile mostlyclean-generic \ - mostlyclean-libtool pdf pdf-am ps ps-am tags tags-recursive \ - uninstall uninstall-am uninstall-binPROGRAMS \ - uninstall-pkgdataDATA + install-strip installcheck installcheck-am \ + installcheck-binPROGRAMS installdirs installdirs-am \ + maintainer-clean maintainer-clean-generic mostlyclean \ + mostlyclean-compile mostlyclean-generic mostlyclean-libtool \ + pdf pdf-am ps ps-am tags tags-recursive uninstall uninstall-am \ + uninstall-binPROGRAMS uninstall-pkgdataDATA #if PURIFY diff -up EMBOSS-6.3.1/nucleus/Makefile.am.system-pcre EMBOSS-6.3.1/nucleus/Makefile.am --- EMBOSS-6.3.1/nucleus/Makefile.am.system-pcre 2010-06-16 07:36:00.000000000 -0400 +++ EMBOSS-6.3.1/nucleus/Makefile.am 2010-08-02 16:21:49.942306124 -0400 @@ -19,13 +19,13 @@ CYGWIN_LIBS = -L../plplot -L../ajax/pcre -lezlib -leplplot else if !ESYSTEMLIBS -EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib +EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre endif endif INCLUDES = -I$(top_srcdir)/plplot $(X_CFLAGS) -I$(srcdir)/ \ - -I$(top_srcdir)/ajax -I$(top_srcdir)/ajax/pcre \ + -I$(top_srcdir)/ajax \ $(EXTRA_INCLUDES) \ -I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/graphics \ -I$(top_srcdir)/ajax/ensembl -I$(top_srcdir)/ajax/ajaxdb \ diff -up EMBOSS-6.3.1/nucleus/Makefile.in.system-pcre EMBOSS-6.3.1/nucleus/Makefile.in --- EMBOSS-6.3.1/nucleus/Makefile.in.system-pcre 2010-07-19 07:55:42.000000000 -0400 +++ EMBOSS-6.3.1/nucleus/Makefile.in 2010-08-02 16:22:34.280145171 -0400 @@ -134,8 +134,6 @@ ESYSTEMLIBS = @ESYSTEMLIBS@ EXEEXT = @EXEEXT@ FGREP = @FGREP@ GREP = @GREP@ -HAVE_MEMMOVE = @HAVE_MEMMOVE@ -HAVE_STRERROR = @HAVE_STRERROR@ INSTALL = @INSTALL@ INSTALL_DATA = @INSTALL_DATA@ INSTALL_PROGRAM = @INSTALL_PROGRAM@ @@ -264,9 +262,9 @@ 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$(top_srcdir)/ajax/zlib +@ESYSTEMLIBS_FALSE@@ISCYGWIN_FALSE@EXTRA_INCLUDES = -I$(top_srcdir)/ajax/expat -I$(top_srcdir)/ajax/zlib -I$(top_srcdir)/ajax/pcre INCLUDES = -I$(top_srcdir)/plplot $(X_CFLAGS) -I$(srcdir)/ \ - -I$(top_srcdir)/ajax -I$(top_srcdir)/ajax/pcre \ + -I$(top_srcdir)/ajax \ $(EXTRA_INCLUDES) \ -I$(top_srcdir)/ajax/core -I$(top_srcdir)/ajax/graphics \ -I$(top_srcdir)/ajax/ensembl -I$(top_srcdir)/ajax/ajaxdb \ @@ -303,9 +301,9 @@ $(srcdir)/Makefile.in: $(srcdir)/Makefi exit 1;; \ esac; \ done; \ - echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnu nucleus/Makefile'; \ + echo ' cd $(top_srcdir) && $(AUTOMAKE) --gnits nucleus/Makefile'; \ $(am__cd) $(top_srcdir) && \ - $(AUTOMAKE) --gnu nucleus/Makefile + $(AUTOMAKE) --gnits nucleus/Makefile .PRECIOUS: Makefile Makefile: $(srcdir)/Makefile.in $(top_builddir)/config.status @case '$?' in \