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#
# Makefile for Augustus
#
include common.mk
.PHONY: all augustus auxprogs clean install release test unit_test
all: augustus auxprogs
augustus:
mkdir -p bin
cd src && ${MAKE}
auxprogs:
mkdir -p bin
cd auxprogs && ${MAKE}
clean:
cd src && ${MAKE} clean
cd auxprogs && ${MAKE} clean
@if [ -n $(shell which python3) ] ; then \
cd tests/short && \
./execute_test.py --clean examples && \
./execute_test.py --clean bam2hints && \
./execute_test.py --clean bam2wig; \
cd .. && ./pyclean.sh; \
fi
PREFIX = /usr
INSTALLDIR = debian/augustus-$(AUGVERSION)
install:
if [ ! $(PWD) -ef $(INSTALLDIR) ] ; then \
install -d $(INSTALLDIR) && \
cp -a config bin scripts $(INSTALLDIR) ; \
fi
ln -sf $(INSTALLDIR)/bin/augustus $(PREFIX)/bin/augustus
ln -sf $(INSTALLDIR)/bin/etraining $(PREFIX)/bin/etraining
ln -sf $(INSTALLDIR)/bin/prepareAlign $(PREFIX)/bin/prepareAlign
ln -sf $(INSTALLDIR)/bin/fastBlockSearch $(PREFIX)/bin/fastBlockSearch
if [ -f $(INSTALLDIR)/bin/load2db ] ; then ln -sf $(INSTALLDIR)/bin/load2db $(PREFIX)/bin/load2db ; fi
if [ -f $(INSTALLDIR)/bin/getSeq ] ; then ln -sf $(INSTALLDIR)/bin/getSeq $(PREFIX)/bin/getSeq ; fi
# for internal purposes:
release:
find . -name "*~" | xargs rm -f
rm .travis.yml
rm -rf .git
rm -rf .github
rm -f src/makedepend.pl
cd docs/tutorial2015/results; ls | grep -v do.sh | grep -v README | xargs rm; cd -
rm -r auxprogs/utrrnaseq/input/human-chr19
rm -r docs/tutorial-cgp/results/cactusout
make clean all
rm config/species/generic/*.pbl
cd src/parser; rm Makefile; cd -
cd ..; tar -czf augustus-$(AUGVERSION).tar.gz augustus-$(AUGVERSION)
check-python3:
@if [ -z $(shell which python3) ] ; then \
echo "warning: Python3 is required for the execution of the test cases!"; \
exit 1; \
fi
test: check-python3 all
ifeq ("$(shell uname -s -m)","Linux x86_64")
cd tests/short && ./execute_test.py --html examples
cd tests/short && ./execute_test.py --html bam2hints
cd tests/short && ./execute_test.py --html bam2wig
cd tests/short && ./execute_test.py --html filterbam
else ifeq ("$(shell uname -s -m)", "Linux s390x")
cd tests/short && ./execute_test.py examples
cd tests/short && ./execute_test.py --html bam2hints
cd tests/short && ./execute_test.py --html bam2wig
else
$(info If you run make test on a non-AMD64 architecture or a non-Linux system (like macOS), most tests will run without the --compare option!)
cd tests/short && ./execute_test.py examples
cd tests/short && ./execute_test.py --html bam2hints
cd tests/short && ./execute_test.py --html bam2wig
cd tests/short && ./execute_test.py --html filterbam
endif
unit_test:
cd src && ${MAKE} unittest
cd src/unittests && ./unittests
|
