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#-- Imported variables from top level makefile
# BIN_DIR AUX_BIN_DIR CXX CC CPPFLAGS LDFLAGS
ifndef BIN_DIR
BIN_DIR := $(CURDIR)
endif
ifndef AUX_BIN_DIR
AUX_BIN_DIR := $(CURDIR)
endif
ifndef SCRIPT_DIR
SCRIPT_DIR := $(CURDIR)
endif
SCRIPT_DIR := $(CURDIR)
SED := $(filter /%,$(shell /bin/sh -c 'type sed'))
CSH := $(filter /%,$(shell /bin/sh -c 'type csh'))
PERL := $(filter /%,$(shell /bin/sh -c 'type perl'))
VPATH := $(BIN_DIR)
ALL := exact-tandems mapview mummerplot nucmer promer \
run-mummer1 run-mummer3 nucmer2xfig dnadiff
#-- PHONY rules --#
.PHONY: all clean
all: $(ALL)
clean:
rm -f *~
cd $(BIN_DIR); rm -f $(ALL)
#-- not so PHONY rules --#
exact-tandems: exact-tandems.csh
$(SED) -e 's?__CSH_PATH?$(CSH)?g' \
-e 's?__BIN_DIR?$(BIN_DIR)?g' \
-e 's?__SCRIPT_DIR?$(SCRIPT_DIR)?g' \
exact-tandems.csh > $(BIN_DIR)/exact-tandems
chmod 755 $(BIN_DIR)/exact-tandems
mapview: mapview.pl
$(SED) -e 's?__PERL_PATH?$(PERL)?g' \
-e 's?__SCRIPT_DIR?$(SCRIPT_DIR)?g' \
mapview.pl > $(BIN_DIR)/mapview
chmod 755 $(BIN_DIR)/mapview
mummerplot: mummerplot.pl Foundation.pm
$(SED) -e 's?__PERL_PATH?$(PERL)?g' \
-e 's?__SCRIPT_DIR?$(SCRIPT_DIR)?g' \
-e 's?__BIN_DIR?$(BIN_DIR)?g' \
mummerplot.pl > $(BIN_DIR)/mummerplot
chmod 755 $(BIN_DIR)/mummerplot
dnadiff: dnadiff.pl Foundation.pm
$(SED) -e 's?__PERL_PATH?$(PERL)?g' \
-e 's?__SCRIPT_DIR?$(SCRIPT_DIR)?g' \
-e 's?__BIN_DIR?$(BIN_DIR)?g' \
dnadiff.pl > $(BIN_DIR)/dnadiff
chmod 755 $(BIN_DIR)/dnadiff
nucmer: nucmer.pl Foundation.pm
$(SED) -e 's?__PERL_PATH?$(PERL)?g' \
-e 's?__SCRIPT_DIR?$(SCRIPT_DIR)?g' \
-e 's?__AUX_BIN_DIR?$(AUX_BIN_DIR)?g' \
-e 's?__BIN_DIR?$(BIN_DIR)?g' \
nucmer.pl > $(BIN_DIR)/nucmer
chmod 755 $(BIN_DIR)/nucmer
promer: promer.pl Foundation.pm
$(SED) -e 's?__PERL_PATH?$(PERL)?g' \
-e 's?__SCRIPT_DIR?$(SCRIPT_DIR)?g' \
-e 's?__AUX_BIN_DIR?$(AUX_BIN_DIR)?g' \
-e 's?__BIN_DIR?$(BIN_DIR)?g' \
promer.pl > $(BIN_DIR)/promer
chmod 755 $(BIN_DIR)/promer
run-mummer1: run-mummer1.csh
$(SED) -e 's?__CSH_PATH?$(CSH)?g' \
-e 's?__BIN_DIR?$(BIN_DIR)?g' \
run-mummer1.csh > $(BIN_DIR)/run-mummer1
chmod 755 $(BIN_DIR)/run-mummer1
run-mummer3: run-mummer3.csh
$(SED) -e 's?__CSH_PATH?$(CSH)?g' \
-e 's?__BIN_DIR?$(BIN_DIR)?g' \
run-mummer3.csh > $(BIN_DIR)/run-mummer3
chmod 755 $(BIN_DIR)/run-mummer3
nucmer2xfig: nucmer2xfig.pl
$(SED) -e 's?__PERL_PATH?$(PERL)?g' \
nucmer2xfig.pl > $(BIN_DIR)/nucmer2xfig
chmod 755 $(BIN_DIR)/nucmer2xfig
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