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# Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
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#   FreeContact - program to predict protein residue contacts from a sufficiently large multiple alignment
#   Copyright (C) 2012-2013  Laszlo Kajan <lkajan@rostlab.org> Rost Lab, Technical University of Munich, Germany
#   
#   This program is free software: you can redistribute it and/or modify
#   it under the terms of the GNU General Public License as published by
#   the Free Software Foundation, either version 3 of the License, or
#   (at your option) any later version.
#   
#   This program is distributed in the hope that it will be useful,
#   but WITHOUT ANY WARRANTY; without even the implied warranty of
#   MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
#   GNU General Public License for more details.
#   
#   You should have received a copy of the GNU General Public License
#   along with this program.  If not, see <http://www.gnu.org/licenses/>.

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# lkajan: I am not sure where to install these, perhaps [1]? That is not policy, though.
# [1] http://debian-xml-sgml.alioth.debian.org/xml-policy/xml-infrastructure-dirs.html
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	  if test "$$all" -eq 1; then \
	    tests="test"; \
	    All=""; \
	  else \
	    tests="tests"; \
	    All="All "; \
	  fi; \
	  if test "$$failed" -eq 0; then \
	    if test "$$xfail" -eq 0; then \
	      banner="$$All$$all $$tests passed"; \
	    else \
	      if test "$$xfail" -eq 1; then failures=failure; else failures=failures; fi; \
	      banner="$$All$$all $$tests behaved as expected ($$xfail expected $$failures)"; \
	    fi; \
	  else \
	    if test "$$xpass" -eq 0; then \
	      banner="$$failed of $$all $$tests failed"; \
	    else \
	      if test "$$xpass" -eq 1; then passes=pass; else passes=passes; fi; \
	      banner="$$failed of $$all $$tests did not behave as expected ($$xpass unexpected $$passes)"; \
	    fi; \
	  fi; \
	  dashes="$$banner"; \
	  skipped=""; \
	  if test "$$skip" -ne 0; then \
	    if test "$$skip" -eq 1; then \
	      skipped="($$skip test was not run)"; \
	    else \
	      skipped="($$skip tests were not run)"; \
	    fi; \
	    test `echo "$$skipped" | wc -c` -le `echo "$$banner" | wc -c` || \
	      dashes="$$skipped"; \
	  fi; \
	  report=""; \
	  if test "$$failed" -ne 0 && test -n "$(PACKAGE_BUGREPORT)"; then \
	    report="Please report to $(PACKAGE_BUGREPORT)"; \
	    test `echo "$$report" | wc -c` -le `echo "$$banner" | wc -c` || \
	      dashes="$$report"; \
	  fi; \
	  dashes=`echo "$$dashes" | sed s/./=/g`; \
	  if test "$$failed" -eq 0; then \
	    echo "$$grn$$dashes"; \
	  else \
	    echo "$$red$$dashes"; \
	  fi; \
	  echo "$$banner"; \
	  test -z "$$skipped" || echo "$$skipped"; \
	  test -z "$$report" || echo "$$report"; \
	  echo "$$dashes$$std"; \
	  test "$$failed" -eq 0; \
	else :; fi

distdir: $(DISTFILES)
	@list='$(MANS)'; if test -n "$$list"; then \
	  list=`for p in $$list; do \
	    if test -f $$p; then d=; else d="$(srcdir)/"; fi; \
	    if test -f "$$d$$p"; then echo "$$d$$p"; else :; fi; done`; \
	  if test -n "$$list" && \
	    grep 'ab help2man is required to generate this page' $$list >/dev/null; then \
	    echo "error: found man pages containing the \`missing help2man' replacement text:" >&2; \
	    grep -l 'ab help2man is required to generate this page' $$list | sed 's/^/         /' >&2; \
	    echo "       to fix them, install help2man, remove and regenerate the man pages;" >&2; \
	    echo "       typically \`make maintainer-clean' will remove them" >&2; \
	    exit 1; \
	  else :; fi; \
	else :; fi
	@srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
	topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
	list='$(DISTFILES)'; \
	  dist_files=`for file in $$list; do echo $$file; done | \
	  sed -e "s|^$$srcdirstrip/||;t" \
	      -e "s|^$$topsrcdirstrip/|$(top_builddir)/|;t"`; \
	case $$dist_files in \
	  */*) $(MKDIR_P) `echo "$$dist_files" | \
			   sed '/\//!d;s|^|$(distdir)/|;s,/[^/]*$$,,' | \
			   sort -u` ;; \
	esac; \
	for file in $$dist_files; do \
	  if test -f $$file || test -d $$file; then d=.; else d=$(srcdir); fi; \
	  if test -d $$d/$$file; then \
	    dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
	    if test -d "$(distdir)/$$file"; then \
	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
	    fi; \
	    if test -d $(srcdir)/$$file && test $$d != $(srcdir); then \
	      cp -fpR $(srcdir)/$$file "$(distdir)$$dir" || exit 1; \
	      find "$(distdir)/$$file" -type d ! -perm -700 -exec chmod u+rwx {} \;; \
	    fi; \
	    cp -fpR $$d/$$file "$(distdir)$$dir" || exit 1; \
	  else \
	    test -f "$(distdir)/$$file" \
	    || cp -p $$d/$$file "$(distdir)/$$file" \
	    || exit 1; \
	  fi; \
	done
check-am: all-am
	$(MAKE) $(AM_MAKEFLAGS) $(dist_check_SCRIPTS)
	$(MAKE) $(AM_MAKEFLAGS) check-TESTS
check: check-am
all-am: Makefile $(PROGRAMS) $(SCRIPTS) $(MANS) $(DATA)
installdirs:
	for dir in "$(DESTDIR)$(bindir)" "$(DESTDIR)$(pkgdatadir)" "$(DESTDIR)$(man1dir)" "$(DESTDIR)$(examplesdir)" "$(DESTDIR)$(pkgdatadir)"; do \
	  test -z "$$dir" || $(MKDIR_P) "$$dir"; \
	done
install: install-am
install-exec: install-exec-am
install-data: install-data-am
uninstall: uninstall-am

install-am: all-am
	@$(MAKE) $(AM_MAKEFLAGS) install-exec-am install-data-am

installcheck: installcheck-am
install-strip:
	$(MAKE) $(AM_MAKEFLAGS) INSTALL_PROGRAM="$(INSTALL_STRIP_PROGRAM)" \
	  install_sh_PROGRAM="$(INSTALL_STRIP_PROGRAM)" INSTALL_STRIP_FLAG=-s \
	  `test -z '$(STRIP)' || \
	    echo "INSTALL_PROGRAM_ENV=STRIPPROG='$(STRIP)'"` install
mostlyclean-generic:

clean-generic:

distclean-generic:
	-test -z "$(CONFIG_CLEAN_FILES)" || rm -f $(CONFIG_CLEAN_FILES)
	-test . = "$(srcdir)" || test -z "$(CONFIG_CLEAN_VPATH_FILES)" || rm -f $(CONFIG_CLEAN_VPATH_FILES)

maintainer-clean-generic:
	@echo "This command is intended for maintainers to use"
	@echo "it deletes files that may require special tools to rebuild."
clean: clean-am

clean-am: clean-binPROGRAMS clean-generic clean-libtool clean-local \
	mostlyclean-am

distclean: distclean-am
	-rm -rf ./$(DEPDIR)
	-rm -f Makefile
distclean-am: clean-am distclean-compile distclean-generic \
	distclean-tags

dvi: dvi-am

dvi-am:

html: html-am

html-am:

info: info-am

info-am:

install-data-am: install-dist_examplesDATA install-dist_pkgdataDATA \
	install-dist_pkgdataSCRIPTS install-man

install-dvi: install-dvi-am

install-dvi-am:

install-exec-am: install-binPROGRAMS

install-html: install-html-am

install-html-am:

install-info: install-info-am

install-info-am:

install-man: install-man1

install-pdf: install-pdf-am

install-pdf-am:

install-ps: install-ps-am

install-ps-am:

installcheck-am:

maintainer-clean: maintainer-clean-am
	-rm -rf ./$(DEPDIR)
	-rm -f Makefile
maintainer-clean-am: distclean-am maintainer-clean-generic

mostlyclean: mostlyclean-am

mostlyclean-am: mostlyclean-compile mostlyclean-generic \
	mostlyclean-libtool

pdf: pdf-am

pdf-am:

ps: ps-am

ps-am:

uninstall-am: uninstall-binPROGRAMS uninstall-dist_examplesDATA \
	uninstall-dist_pkgdataDATA uninstall-dist_pkgdataSCRIPTS \
	uninstall-man

uninstall-man: uninstall-man1

.MAKE: check-am install-am install-strip

.PHONY: CTAGS GTAGS all all-am check check-TESTS check-am clean \
	clean-binPROGRAMS clean-generic clean-libtool clean-local \
	ctags distclean distclean-compile distclean-generic \
	distclean-libtool distclean-tags distdir dvi dvi-am html \
	html-am info info-am install install-am install-binPROGRAMS \
	install-data install-data-am install-dist_examplesDATA \
	install-dist_pkgdataDATA install-dist_pkgdataSCRIPTS \
	install-dvi install-dvi-am install-exec install-exec-am \
	install-html install-html-am install-info install-info-am \
	install-man install-man1 install-pdf install-pdf-am install-ps \
	install-ps-am install-strip installcheck installcheck-am \
	installdirs maintainer-clean maintainer-clean-generic \
	mostlyclean mostlyclean-compile mostlyclean-generic \
	mostlyclean-libtool pdf pdf-am ps ps-am tags uninstall \
	uninstall-am uninstall-binPROGRAMS uninstall-dist_examplesDATA \
	uninstall-dist_pkgdataDATA uninstall-dist_pkgdataSCRIPTS \
	uninstall-man uninstall-man1


$(man_MANS) : %.1 : %.cpp
	sed -e 's|__pkgdatadir__|$(pkgdatadir)|g;s|__examplesdir__|$(examplesdir)|g;s|__sysconfdir__|$(sysconfdir)|g;s|__bindir__|$(bindir)|g;s|__PACKAGE_VERSION__|$(PACKAGE_VERSION)|g' "$<" | \
	pod2man --utf8 -c 'User Commands' -r "$(VERSION)" -name $(shell echo "$(basename $@)" | tr '[:lower:]' '[:upper:]') > "$@"

@HAVE_XSDCXX_TRUE@.SECONDARY: freecontact_input_xsd.cxx freecontact_input_xsd.hxx freecontact_output_xsd.cxx freecontact_output_xsd.hxx
@HAVE_XSDCXX_TRUE@%_xsd.cxx %_xsd.hxx : %.xsd
@HAVE_XSDCXX_TRUE@	$(XSDCXX) cxx-tree --location-map http://bioxsd.org/$(BIOXSD).xsd=$(BIOXSD).xsd \
@HAVE_XSDCXX_TRUE@		--namespace-map http://rostlab.org/freecontact/input=freecontact_input_xsd \
@HAVE_XSDCXX_TRUE@		--namespace-map http://rostlab.org/freecontact/output=freecontact_output_xsd \
@HAVE_XSDCXX_TRUE@		--namespace-map http://bioxsd.org/BioXSD-1.1=BioXSD \
@HAVE_XSDCXX_TRUE@		--generate-serialization --generate-doxygen \
@HAVE_XSDCXX_TRUE@		--generate-polymorphic --polymorphic-type-all \
@HAVE_XSDCXX_TRUE@		--omit-default-attributes \
@HAVE_XSDCXX_TRUE@		--root-element-all \
@HAVE_XSDCXX_TRUE@		--hxx-suffix _xsd.hxx --cxx-suffix _xsd.cxx \
@HAVE_XSDCXX_TRUE@		$<

@HAVE_XSDCXX_TRUE@freecontact_input_xsd.hxx : $(BIOXSD)_xsd.hxx
@HAVE_XSDCXX_TRUE@freecontact_input_xsd.cxx : $(BIOXSD)_xsd.hxx
@HAVE_XSDCXX_TRUE@freecontact_output_xsd.hxx : $(BIOXSD)_xsd.hxx
@HAVE_XSDCXX_TRUE@freecontact_output_xsd.cxx : $(BIOXSD)_xsd.hxx
@HAVE_XSDCXX_TRUE@_write_bioxsd.cpp : freecontact_input_xsd.hxx freecontact_output_xsd.hxx $(BIOXSD)_xsd.hxx

clean-local:
	rm -f $(man_MANS) $(XSDSOURCES)
	rm -f freecontact.static
freecontact.static: freecontact
	$(freecontact_LINK) -all-static -L$(STATIC_LAPACK_LIBDIR) $(freecontact_OBJECTS) $(freecontact_LDADD) $(LIBS)

#include $(srcdir)/glassotest.mk

# Tell versions [3.59,3.63) of GNU make to not export all variables.
# Otherwise a system limit (for SysV at least) may be exceeded.
.NOEXPORT: