--- /dev/null
+#
+# Unix Makefile for readseq
+# to use, command me:
+# % make -- or --
+# % make CC=your-c-compiler-name
+#
+
+# pick an ANSI C compiler (the default Sun CC is not ANSI)
+CC=gcc # Gnu C Compiler
+#CC=cc # SGI Irix
+#CC=vcc # some DEC Ultrix
+
+CFLAGS=
+#CFLAGS= -DSMALLCHECKSUM # if you prefer to use a GCG-standard 13 bit checksum
+# instead of a full 32 bit checksum. This may enhance compatibility w/ GCG software
+
+SOURCES= readseq.c ureadseq.c ureadseq.h ureadasn.c
+DOCS= Readme Readseq.help Formats Stdfiles Makefile Make.com add.gdemenu *.std
+
+
+# NCBI toolkit support for ASN.1 reader
+
+# this is path to NCBI toolkit, you must set for your system:
+NCBI=
+#NCBI=/bio/mb/ncbi
+#
+OTHERLIBS=-lm
+LIB1=-lncbi
+LIB2=-lncbiobj
+LIB3=-lncbicdr
+LIB4=-lvibrant
+INCPATH=$(NCBI)/include
+LIBPATH=$(NCBI)/lib
+NCFLAGS=$(CFLAGS) -DNCBI -I$(INCPATH)
+NLDFLAGS=-I$(INCPATH) -L$(LIBPATH)
+NLIBS=$(LIB1) $(LIB2) $(OTHERLIBS)
+
+
+all: build test
+
+build: $(SOURCES)
+ @echo "Compiling readseq..."
+ $(CC) $(LDFLAGS) $(CFLAGS) -o readseq readseq.c ureadseq.c
+
+# if using NCBI, uncomment these lines in place of build: above
+#build: $(SOURCES)
+# @echo "Compiling readseq with NCBI toolkit support...";
+# $(CC) -o readseq $(NLDFLAGS) $(NCFLAGS) readseq.c ureadseq.c ureadasn.c $(NLIBS)
+
+test: $(SOURCES) readseq
+ @echo ""
+ @echo "Test for general read/write of all chars:"
+ ./readseq -p alphabet.std -otest.alpha
+ -diff test.alpha alphabet.std
+
+ @echo ""
+ @echo "Test for valid format conversions:"
+ ./readseq -v -p -f=ig nucleic.std -otest.ig
+ ./readseq -v -p -f=gb test.ig -otest.gb
+ ./readseq -v -p -f=nbrf test.gb -otest.nbrf
+ ./readseq -v -p -f=embl test.nbrf -otest.embl
+ ./readseq -v -p -f=gcg test.embl -otest.gcg
+ ./readseq -v -p -f=strider test.gcg -otest.strider
+ ./readseq -v -p -f=fitch test.strider -otest.fitch
+ ./readseq -v -p -f=fasta test.fitch -otest.fasta
+ ./readseq -v -p -f=pir test.fasta -otest.pir
+ ./readseq -v -p -f=ig test.pir -otest.ig-b
+ -diff test.ig test.ig-b
+
+ @echo ""
+ @echo "Test for multiple-sequence format conversions:"
+ ./readseq -p -f=ig multi.std -otest.m-ig
+ ./readseq -p -f=gb test.m-ig -otest.m-gb
+ ./readseq -p -f=nbrf test.m-gb -otest.m-nbrf
+ ./readseq -p -f=embl test.m-nbrf -otest.m-embl
+ ./readseq -p -f=fasta test.m-embl -otest.m-fasta
+ ./readseq -p -f=pir test.m-fasta -otest.m-pir
+ ./readseq -p -f=msf test.m-pir -otest.m-msf
+ ./readseq -p -f=paup test.m-msf -otest.m-paup
+ ./readseq -p -f=ig test.m-paup -otest.m-ig-b
+ -diff test.m-ig test.m-ig-b
+#
+# if using NCBI, uncomment these lines
+# @echo ""
+# @echo "Test of NCBI ASN.1 conversions:"
+# ./readseq -p -f=asn test.m-ig -otest.m-asn
+# ./readseq -p -f=ig test.m-asn -otest.m-ig-c
+# -diff test.m-ig test.m-ig-c
+#
+ @echo ""
+ @echo "Expect differences in the header lines due to"
+ @echo "different format headers. If any sequence lines"
+ @echo "differ, or if the checksums differ, there is a problem."
+ @echo "----------------------"
+ @echo ""
+ @echo "To clean up test files, command me:"
+ @echo " make clean"
+
+
+clean:
+ rm -f *.o core test.*
+
+shar:
+ @echo "shell archiving files..."
+ -rm -f readseq*.shar
+ mkdir readseqd
+ cp $(SOURCES) readseqd
+ cp $(DOCS) readseqd
+ shar -v readseqd > readseq.shar
+ rm -rf readseqd
+