# Makefile.in generated by automake 1.11.3 from Makefile.am.
# distribution/Makefile.  Generated from Makefile.in by configure.

# Copyright (C) 1994, 1995, 1996, 1997, 1998, 1999, 2000, 2001, 2002,
# 2003, 2004, 2005, 2006, 2007, 2008, 2009, 2010, 2011 Free Software
# Foundation, Inc.
# This Makefile.in is free software; the Free Software Foundation
# gives unlimited permission to copy and/or distribute it,
# with or without modifications, as long as this notice is preserved.

# This program is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY, to the extent permitted by law; without
# even the implied warranty of MERCHANTABILITY or FITNESS FOR A
# PARTICULAR PURPOSE.



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BOOST_REGEX_LIB = -lboost_regex
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BOOST_THREAD_LIB = -lboost_thread
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CYGPATH_W = echo
DEFS = -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.6\" -DPACKAGE_STRING=\"mira\ 4.9.6\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.6\" -DHAVE_OPENMP=1 -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1
DEPDIR = .deps
DLLTOOL = false
DSYMUTIL = 
DUMPBIN = 
ECHO_C = 
ECHO_N = echo -n
ECHO_T = 
EGREP = /bin/grep -E
EXEEXT = 
EXPAT_CFLAGS = -I/opt/biosw/include
EXPAT_LDFLAGS = -L/opt/biosw/lib
EXPAT_LIBS = -lexpat
EXPAT_VERSION = 
FGREP = /bin/grep -F
FLEX = yes
FLEXPP = yes
GREP = /bin/grep
HAVE_XXD = yes
INSTALL = /usr/bin/install -c
INSTALL_DATA = ${INSTALL} -m 644
INSTALL_PROGRAM = ${INSTALL}
INSTALL_SCRIPT = ${INSTALL}
INSTALL_STRIP_PROGRAM = $(install_sh) -c -s
LD = /usr/bin/ld -m elf_x86_64
LDFLAGS =  -L/opt/biosw/lib -L/opt/biosw/lib
LEX = flex
LEXLIB = -lfl
LEX_OUTPUT_ROOT = lex.yy
LIBOBJS = 
LIBS =  -lboost_thread -lboost_regex -lboost_system -lboost_filesystem -lboost_iostreams -lrt -lexpat -lm -lz
LIBTOOL = $(SHELL) $(top_builddir)/libtool
LIPO = 
LN_S = ln -s
LTLIBOBJS = 
MAKEINFO = ${SHELL} /home/bach/work/assembly/mira.git/missing --run makeinfo
MANIFEST_TOOL = :
MIRASTATIC = static
MKDIR_P = /bin/mkdir -p
NM = /usr/bin/nm -B
NMEDIT = 
OBJDUMP = objdump
OBJEXT = o
OTOOL = 
OTOOL64 = 
PACKAGE = mira
PACKAGE_BUGREPORT = 
PACKAGE_NAME = mira
PACKAGE_STRING = mira 4.9.6
PACKAGE_TARNAME = mira
PACKAGE_URL = 
PACKAGE_VERSION = 4.9.6
PATH_SEPARATOR = :
RANLIB = ranlib
SED = /bin/sed
SET_MAKE = 
SHELL = /bin/bash
STRIP = strip
VERSION = 4.9.6
abs_builddir = /home/bach/work/assembly/mira.git/distribution
abs_srcdir = /home/bach/work/assembly/mira.git/distribution
abs_top_builddir = /home/bach/work/assembly/mira.git
abs_top_srcdir = /home/bach/work/assembly/mira.git
ac_ct_AR = ar
ac_ct_CC = 
ac_ct_CXX = g++
ac_ct_DUMPBIN = 
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am__leading_dot = .
am__quote = 
am__tar = tar --format=ustar -chf - "$$tardir"
am__untar = tar -xf -
bindir = ${exec_prefix}/bin
build = x86_64-unknown-linux-gnu
build_alias = 
build_cpu = x86_64
build_os = linux-gnu
build_vendor = unknown
builddir = .
datadir = ${datarootdir}
datarootdir = ${prefix}/share
docdir = ${datarootdir}/doc/${PACKAGE_TARNAME}
dvidir = ${docdir}
exec_prefix = ${prefix}
host = x86_64-unknown-linux-gnu
host_alias = 
host_cpu = x86_64
host_os = linux-gnu
host_vendor = unknown
htmldir = ${docdir}
includedir = ${prefix}/include
infodir = ${datarootdir}/info
install_sh = ${SHELL} /home/bach/work/assembly/mira.git/install-sh
libdir = ${exec_prefix}/lib
libexecdir = ${exec_prefix}/libexec
localedir = ${datarootdir}/locale
localstatedir = ${prefix}/var
mandir = ${datarootdir}/man
mkdir_p = /bin/mkdir -p
oldincludedir = /usr/include
pdfdir = ${docdir}
prefix = /usr/local
program_transform_name = s,x,x,
psdir = ${docdir}
sbindir = ${exec_prefix}/sbin
sharedstatedir = ${prefix}/com
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target_alias = 
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top_builddir = ..
top_srcdir = ..
GITSHORT = `$(top_srcdir)/build-aux/git-version-gen isshort $(top_srcdir)/.tarball-version`
MIRAVERSION = ${GITSHORT}_${build_os}_${BITPACKAGE}_${MIRASTATIC}
MIRADIR = ${PACKAGE_TARNAME}_${MIRAVERSION}
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clean-libtool:
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tags: TAGS
TAGS:

ctags: CTAGS
CTAGS:


distdir: $(DISTFILES)
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html-am:

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install-data-am:

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install-html: install-html-am

install-html-am:

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install-info-am:

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install-pdf: install-pdf-am

install-pdf-am:

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pdf: pdf-am

pdf-am:

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3rdparty:
	rm -rf 3rdparty
	cp -R -L ../src/3rdparty .
	tar cvjf mira_3rdparty_`date +%d-%m-%Y`.tar.bz2 3rdparty

libbundle-nobundle:
	@echo "Do not need to bundle on this platform"

libbundle-darwin:
	@echo "Using Macdylibbundler to create OSX compatible dylib references"
	(cd ${MIRADIR}; dylibbundler -b -od -d lib -p @executable_path/../lib/ -x bin/mira; cd ..)

dbdata:
	mkdir -p ${MIRADIR}/dbdata
	cp ../src/other/sls/README.txt ${MIRADIR}/dbdata
	cp ../src/other/sls/mira-install-sls-rrna.sh ${MIRADIR}/dbdata
	cp ../src/other/sls/rfam_rrna-21-12.sls.gz ${MIRADIR}/dbdata

copybin:
	@echo "Making distribution for ${BITPACKAGE}"
	-mkdir -p ${MIRADIR}/bin
	cp ../src/progs/mira ${MIRADIR}/bin
	cp ../src/other/sls/mira-install-sls-rrna.sh ${MIRADIR}/bin
	ln -s -f mira ${MIRADIR}/bin/mirabait
	ln -s -f mira ${MIRADIR}/bin/miraconvert
	ln -s -f mira ${MIRADIR}/bin/miramem

copydocs:
	-mkdir -p ${MIRADIR}/docs
	cp -R -L ../doc/docbook/Defi*.html ${MIRADIR}/docs
	( cd ${MIRADIR}/docs; ln -s DefinitiveGuideToMIRA.html index.html)
	cp -R -L ../doc/docbook/*.pdf ${MIRADIR}/docs
	cp -R -L ../doc/docbook/bookfigures ${MIRADIR}/docs
	cp -R -L ../doc/docbook/images ${MIRADIR}/docs
	cp -R -L ../doc/docbook/doccss ${MIRADIR}/docs
	-mkdir -p ${MIRADIR}/man/man1
	cp -R -L ../man/*.1 ${MIRADIR}/man/man1

distribin: clean copybin libbundle-${BUNDLETARGET}
	strip ${MIRADIR}/bin/mira[a-z]*
	tar cvjf ${PACKAGE_TARNAME}_binonly_${MIRAVERSION}.tar.bz2 ${MIRADIR}

distridbg: clean copybin libbundle-${BUNDLETARGET}
	tar cvjf ${PACKAGE_TARNAME}_dbgonly_${MIRAVERSION}.tar.bz2 ${MIRADIR}

distrib: clean dbdata copybin libbundle-${BUNDLETARGET} copydocs
	cp ../THANKS ${MIRADIR}
	cp README ${MIRADIR}
	cp LICENCE ${MIRADIR}
	cp -R -L ../src/support ${MIRADIR}
	rm -rf ${MIRADIR}/support/Makefile*
	cp ../src/mira/CHANGES.txt ${MIRADIR}
	cp ../src/mira/CHANGES_old.txt ${MIRADIR}

	tar cvjf ${PACKAGE_TARNAME}_${MIRAVERSION}_fullsymbols.tar.bz2 ${MIRADIR}
	strip ${MIRADIR}/bin/mira[a-z]*
	tar cvjf ${PACKAGE_TARNAME}_${MIRAVERSION}.tar.bz2 ${MIRADIR}

clean:
	-rm -rf ${MIRADIR} *.tar *.gz
	rm -rf mira_*
	rm -rf 3rdparty*

# 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: