--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/GEMBASSY-1.0.3/src/Makefile.am	Fri Jun 26 05:19:29 2015 -0400
@@ -0,0 +1,164 @@
+## Process this file with automake to produce Makefile.in
+
+if LOCALLINK
+INCLUDES = -I../include -I../../../nucleus -I../../../ajax/pcre \
+	-I../../../ajax/expat -I../../../ajax/zlib \
+	-I../../../ajax/core -I../../../ajax/graphics \
+	-I../../../ajax/ensembl -I../../../ajax/ajaxdb \
+	-I../../../ajax/acd -I../../../plplot -I../gsoap
+else
+INCLUDES = -I../include -I${embprefix}/include -I${embprefix}/include/eplplot -I${embprefix}/include/epcre -I${embprefix}/include/ezlib -I../gsoap
+endif
+
+if ISSHARED
+if ISAIXIA64
+if LOCALLINK
+AIX_CFLAGS = -Wl,-bdynamic -Wl,-brtl -L../../../plplot/.libs \
+-L../../../ajax/pcre/.libs -L../../../ajax/expat/.libs \
+-L../../../ajax/zlib/.libs -L../../../ajax/core/.libs \
+-L../../../ajax/graphics/.libs -L../../../ajax/ensembl/.libs \
+-L../../../ajax/ajaxdb/.libs -L../../../ajax/acd/.libs \
+-L../../../nucleus/.libs \
+-lnucleus -lacd -lajaxdb -lensembl -lajaxg -lajax -leexpat -lepcre \
+-lezlib -leplplot
+else
+AIX_CFLAGS = -Wl,-bdynamic -Wl,-brtl -L${embprefix}/lib -lnucleus -lacd \
+-lajaxdb -lensembl -lajaxg -lajax -leexpat -lepcre -lezlib -leplplot
+endif
+endif
+endif
+
+AM_CFLAGS =  $(AIX_CFLAGS) $(WARN_CFLAGS) $(DEVWARN_CFLAGS)
+
+## To add programs
+## Add the program binary name to bin_PROGRAMS
+## (using \ as a continuation character for multiple lines)
+##
+## And add a programname_SOURCES line to define the source files
+## to be compiled and linked
+##
+## make will compile and link the program
+## make install will copy the program to the install directory
+
+bin_PROGRAMS = genret \
+               gaaui\
+               gaminoinfo\
+               gb1\
+               gb2\
+               gbasecounter\
+               gbaseentropy\
+               gbaseinformationcontent\
+               gbaserelativeentropy\
+               gbasezvalue\
+	       gbui\
+               gcai\
+               gcbi\
+               gcgr\
+               gcircularmap\
+               gcodoncompiler\
+               gconsensusz\
+               gdeltaenc\
+               gdeltagcskew\
+               gdinuc\
+               gdistincc\
+               gdnawalk\
+               genc\
+               gentrez\
+               gew\
+               gfindoriter\
+               gfop\
+               ggcsi\
+               ggcskew\
+               ggcwin\
+               ggeneskew\
+               ggenomicskew\
+               ggenomemap3\
+               gicdi\
+               gkmertable\
+               gldabias\
+               gnucleotideperiodicity\
+	       goligomercounter\
+	       goligomersearch\
+               gp2\
+               gpalindrome\
+               gphx\
+               gqueryarm\
+               gquerystrand\
+               greporiter\
+               gsvalue\
+               gscs\
+               gseq2png\
+               gseqinfo\
+               gshuffleseq\
+               gsignature\
+               gviewcds\
+               gwvalue
+
+genret_SOURCES                  = genret.c
+gaaui_SOURCES                   = gaaui.c
+gaminoinfo_SOURCES              = gaminoinfo.c
+gb1_SOURCES                     = gb1.c
+gb2_SOURCES                     = gb2.c
+gbasecounter_SOURCES            = gbasecounter.c
+gbaseentropy_SOURCES            = gbaseentropy.c
+gbaseinformationcontent_SOURCES = gbaseinformationcontent.c
+gbaserelativeentropy_SOURCES    = gbaserelativeentropy.c
+gbasezvalue_SOURCES             = gbasezvalue.c
+gbui_SOURCES                    = gbui.c
+gcai_SOURCES                    = gcai.c
+gcbi_SOURCES                    = gcbi.c
+gcgr_SOURCES                    = gcgr.c
+gcircularmap_SOURCES            = gcircularmap.c
+gcodoncompiler_SOURCES          = gcodoncompiler.c
+gconsensusz_SOURCES             = gconsensusz.c
+gdeltaenc_SOURCES               = gdeltaenc.c
+gdeltagcskew_SOURCES            = gdeltagcskew.c
+gdistincc_SOURCES               = gdistincc.c
+gdinuc_SOURCES                  = gdinuc.c
+gdnawalk_SOURCES                = gdnawalk.c
+genc_SOURCES                    = genc.c
+gentrez_SOURCES                 = gentrez.c
+gew_SOURCES                     = gew.c
+gfindoriter_SOURCES             = gfindoriter.c
+gfop_SOURCES                    = gfop.c
+ggcsi_SOURCES                   = ggcsi.c
+ggcwin_SOURCES                  = ggcwin.c
+ggeneskew_SOURCES               = ggeneskew.c
+ggenomicskew_SOURCES            = ggenomicskew.c
+ggenomemap3_SOURCES             = ggenomemap3.c
+gicdi_SOURCES                   = gicdi.c
+gkmertable_SOURCES              = gkmertable.c
+gldabias_SOURCES                = gldabias.c
+gnucleotideperiodicity_SOURCES  = gnucleotideperiodicity.c
+goligomercounter_SOURCES        = goligomercounter.c
+goligomersearch_SOURCES         = goligomersearch.c
+gp2_SOURCES                     = gp2.c
+gpalindrome_SOURCES             = gpalindrome.c
+gphx_SOURCES                    = gphx.c
+gqueryarm_SOURCES               = gqueryarm.c
+gquerystrand_SOURCES            = gquerystrand.c
+greporiter_SOURCES              = greporiter.c
+gsvalue_SOURCES                 = gsvalue.c
+gscs_SOURCES                    = gscs.c
+gseq2png_SOURCES                = gseq2png.c
+gseqinfo_SOURCES                = gseqinfo.c
+gshuffleseq_SOURCES             = gshuffleseq.c
+gsignature_SOURCES              = gsignature.c
+gviewcds_SOURCES                = gviewcds.c
+gwvalue_SOURCES                 = gwvalue.c
+
+if LOCALLINK
+LDADD = ../../../nucleus/libnucleus.la ../../../ajax/acd/libacd.la \
+	../../../ajax/ajaxdb/libajaxdb.la \
+	../../../ajax/ensembl/libensembl.la \
+	../../../ajax/graphics/libajaxg.la \
+	../../../ajax/core/libajax.la \
+	../../../ajax/zlib/libezlib.la \
+	../../../ajax/expat/libeexpat.la \
+	../../../ajax/pcre/libepcre.la \
+	../../../plplot/libeplplot.la \
+        $(XLIB)
+else
+LDADD = -L${embprefix}/lib -L../include -lnucleus -lacd -lajaxdb -lensembl \
+        -lajaxg -lajax -leexpat -lepcre -lezlib -leplplot $(XLIB)
+endif