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Makefile.in
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Makefile.in
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# Makefile.in generated by automake 1.15.1 from Makefile.am.
# @configure_input@
# Copyright (C) 1994-2017 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.
@SET_MAKE@
#
# Makefile: cosi makefile
#
# Describes how to build the cosi library, libcosi, and the main cosi program, 'coalescent'.
#
# Run "make doc" to build HTML documentation.
#
# Most of cosi code is compiled into a library, libcosi, with which the main
# executable is then linked.
#
#SUBDIRS=libsigc++-2.3.1
VPATH = @srcdir@
am__is_gnu_make = { \
if test -z '$(MAKELEVEL)'; then \
false; \
elif test -n '$(MAKE_HOST)'; then \
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am__make_running_with_option = \
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am__make_dryrun = (target_option=n; $(am__make_running_with_option))
am__make_keepgoing = (target_option=k; $(am__make_running_with_option))
pkgdatadir = $(datadir)/@PACKAGE@
pkgincludedir = $(includedir)/@PACKAGE@
pkglibdir = $(libdir)/@PACKAGE@
pkglibexecdir = $(libexecdir)/@PACKAGE@
am__cd = CDPATH="$${ZSH_VERSION+.}$(PATH_SEPARATOR)" && cd
install_sh_DATA = $(install_sh) -c -m 644
install_sh_PROGRAM = $(install_sh) -c
install_sh_SCRIPT = $(install_sh) -c
INSTALL_HEADER = $(INSTALL_DATA)
transform = $(program_transform_name)
NORMAL_INSTALL = :
PRE_INSTALL = :
POST_INSTALL = :
NORMAL_UNINSTALL = :
PRE_UNINSTALL = :
POST_UNINSTALL = :
build_triplet = @build@
host_triplet = @host@
bin_PROGRAMS = coalescent$(EXEEXT) recosimulate$(EXEEXT) \
get_recomap$(EXEEXT) recomap_hapmap2$(EXEEXT) $(am__EXEEXT_1) \
sample_stats_extra$(EXEEXT)
TESTS = tests/testScripts/tests/model001/t/run.sh \
tests/testScripts/tests/model001/t_u_001/run.sh \
tests/testScripts/tests/model001/t_u_0001/run.sh \
tests/testScripts/tests/model002/t/run.sh \
tests/testScripts/tests/model002/t_u_001/run.sh \
tests/testScripts/tests/model002/t_u_0001/run.sh \
tests/testScripts/tests/model003/t/run.sh \
tests/testScripts/tests/model004/t/run.sh \
tests/testScripts/tests/model005/t/run.sh \
tests/testScripts/tests/model006/t/run.sh \
tests/testScripts/tests/model007/t/run.sh \
tests/testScripts/tests/model007/t_u_001/run.sh \
tests/testScripts/tests/model007/t_u_0001/run.sh \
tests/testScripts/tests/model008/t/run.sh \
tests/testScripts/tests/model008/t_u_001/run.sh \
tests/testScripts/tests/model008/t_u_0001/run.sh \
tests/testScripts/tests/model009/t/run.sh \
tests/testScripts/tests/model009/t_u_001/run.sh \
tests/testScripts/tests/model009/t_u_0001/run.sh \
tests/testScripts/tests/model010/t/run.sh \
tests/testScripts/tests/model010/t_u_001/run.sh \
tests/testScripts/tests/model010/t_u_0001/run.sh \
tests/testScripts/tests/model011/t/run.sh \
tests/testScripts/tests/model011/t_u_001/run.sh \
tests/testScripts/tests/model011/t_u_0001/run.sh \
tests/testScripts/tests/model012/t/run.sh \
tests/testScripts/tests/model013/t/run.sh \
tests/testScripts/tests/model014/t/run.sh \
tests/testScripts/tests/model015/t/run.sh \
tests/testScripts/tests/model016/t/run.sh \
tests/testScripts/tests/model016/t_u_001/run.sh \
tests/testScripts/tests/model017/t/run.sh \
tests/testScripts/tests/model017/t_u_001/run.sh \
tests/testScripts/tests/model017/t_u_0001/run.sh \
seglist_test$(EXEEXT) test_funcs$(EXEEXT)
check_PROGRAMS = seglist_test$(EXEEXT) funcs_test$(EXEEXT) \
test_funcs$(EXEEXT) test_arrproc$(EXEEXT) ost_test$(EXEEXT) \
$(am__EXEEXT_2)
XFAIL_TESTS =
@HAVE_GTEST_TRUE@am__append_1 = ost_test_main
#
# Section: Development/experimental options
#
@HAVEROOT_TRUE@am__append_2 = cosiroot ldhist
subdir = .
ACLOCAL_M4 = $(top_srcdir)/aclocal.m4
am__aclocal_m4_deps = $(top_srcdir)/m4/ax_check_compile_flag.m4 \
$(top_srcdir)/m4/ax_cxx_compile_stdcxx_11.m4 \
$(top_srcdir)/m4/ax_python.m4 $(top_srcdir)/m4/libtool.m4 \
$(top_srcdir)/m4/ltoptions.m4 $(top_srcdir)/m4/ltsugar.m4 \
$(top_srcdir)/m4/ltversion.m4 $(top_srcdir)/m4/lt~obsolete.m4 \
$(top_srcdir)/m4/root.m4 $(top_srcdir)/configure.ac
am__configure_deps = $(am__aclocal_m4_deps) $(CONFIGURE_DEPENDENCIES) \
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DIST_COMMON = $(srcdir)/Makefile.am $(top_srcdir)/configure \
$(am__configure_deps) $(am__DIST_COMMON)
am__CONFIG_DISTCLEAN_FILES = config.status config.cache config.log \
configure.lineno config.status.lineno
mkinstalldirs = $(install_sh) -d
CONFIG_CLEAN_FILES =
CONFIG_CLEAN_VPATH_FILES =
am__vpath_adj_setup = srcdirstrip=`echo "$(srcdir)" | sed 's|.|.|g'`;
am__vpath_adj = case $$p in \
$(srcdir)/*) f=`echo "$$p" | sed "s|^$$srcdirstrip/||"`;; \
*) f=$$p;; \
esac;
am__strip_dir = f=`echo $$p | sed -e 's|^.*/||'`;
am__install_max = 40
am__nobase_strip_setup = \
srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*|]/\\\\&/g'`
am__nobase_strip = \
for p in $$list; do echo "$$p"; done | sed -e "s|$$srcdirstrip/||"
am__nobase_list = $(am__nobase_strip_setup); \
for p in $$list; do echo "$$p $$p"; done | \
sed "s| $$srcdirstrip/| |;"' / .*\//!s/ .*/ ./; s,\( .*\)/[^/]*$$,\1,' | \
$(AWK) 'BEGIN { files["."] = "" } { files[$$2] = files[$$2] " " $$1; \
if (++n[$$2] == $(am__install_max)) \
{ print $$2, files[$$2]; n[$$2] = 0; files[$$2] = "" } } \
END { for (dir in files) print dir, files[dir] }'
am__base_list = \
sed '$$!N;$$!N;$$!N;$$!N;$$!N;$$!N;$$!N;s/\n/ /g' | \
sed '$$!N;$$!N;$$!N;$$!N;s/\n/ /g'
am__uninstall_files_from_dir = { \
test -z "$$files" \
|| { test ! -d "$$dir" && test ! -f "$$dir" && test ! -r "$$dir"; } \
|| { echo " ( cd '$$dir' && rm -f" $$files ")"; \
$(am__cd) "$$dir" && rm -f $$files; }; \
}
am__installdirs = "$(DESTDIR)$(libdir)" "$(DESTDIR)$(bindir)"
LTLIBRARIES = $(lib_LTLIBRARIES) $(noinst_LTLIBRARIES)
libcosi_la_DEPENDENCIES = $(builddir)/libcosiutil.la \
$(BOOST_PROGRAM_OPTIONS_LIBS) $(BOOST_FILESYSTEM_LIBS) \
$(BOOST_TIMER_LIBS) $(BOOST_RANDOM_LIBS)
am__objects_1 =
am_libcosi_la_OBJECTS = libcosi_la-coalesce.lo \
libcosi_la-coalescent.lo libcosi_la-demography.lo \
libcosi_la-file.lo libcosi_la-geneconversion.lo \
libcosi_la-historical.lo libcosi_la-migrate.lo \
libcosi_la-mutate.lo libcosi_la-mutlist.lo libcosi_la-node.lo \
libcosi_la-output.lo libcosi_la-pop.lo libcosi_la-recomb.lo \
libcosi_la-seglist.lo libcosi_la-segsumm.lo \
libcosi_la-simulator.lo libcosi_la-sweep.lo \
libcosi_la-msweep.lo libcosi_la-sweep1.lo libcosi_la-sweep2.lo \
libcosi_la-sweep3.lo libcosi_la-genmap.lo libcosi_la-stats.lo \
libcosi_la-hooks.lo libcosi_la-traj.lo libcosi_la-cositop.lo \
libcosi_la-ehh.lo libcosi_la-leafset-sizeonly.lo \
libcosi_la-mutcontext.lo libcosi_la-condsnp.lo \
libcosi_la-hullmgr.lo libcosi_la-output_coal_data_cosi.lo \
libcosi_la-calc_pop_stats_cosi.lo libcosi_la-calc_Fst_cosi.lo \
libcosi_la-nthevt.lo libcosi_la-leavesinfo.lo $(am__objects_1) \
libcosi_la-leafset-tree.lo libcosi_la-leafset-counts.lo
libcosi_la_OBJECTS = $(am_libcosi_la_OBJECTS)
AM_V_lt = $(am__v_lt_@AM_V@)
am__v_lt_ = $(am__v_lt_@AM_DEFAULT_V@)
am__v_lt_0 = --silent
am__v_lt_1 =
libcosi_la_LINK = $(LIBTOOL) $(AM_V_lt) --tag=CXX $(AM_LIBTOOLFLAGS) \
$(LIBTOOLFLAGS) --mode=link $(CXXLD) $(libcosi_la_CXXFLAGS) \
$(CXXFLAGS) $(libcosi_la_LDFLAGS) $(LDFLAGS) -o $@
libcosiatomic_la_LIBADD =
am_libcosiatomic_la_OBJECTS = libcosiatomic_la-lockpool.lo
libcosiatomic_la_OBJECTS = $(am_libcosiatomic_la_OBJECTS)
libcosiatomic_la_LINK = $(LIBTOOL) $(AM_V_lt) --tag=CXX \
$(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=link $(CXXLD) \
$(libcosiatomic_la_CXXFLAGS) $(CXXFLAGS) $(AM_LDFLAGS) \
$(LDFLAGS) -o $@
libcosichrono_la_LIBADD =
am_libcosichrono_la_OBJECTS = libcosichrono_la-chrono.lo \
libcosichrono_la-process_cpu_clocks.lo \
libcosichrono_la-thread_clock.lo
libcosichrono_la_OBJECTS = $(am_libcosichrono_la_OBJECTS)
libcosifilesystem_la_LIBADD =
am_libcosifilesystem_la_OBJECTS = \
libcosifilesystem_la-codecvt_error_category.lo \
libcosifilesystem_la-operations.lo \
libcosifilesystem_la-path.lo \
libcosifilesystem_la-path_traits.lo \
libcosifilesystem_la-portability.lo \
libcosifilesystem_la-unique_path.lo \
libcosifilesystem_la-utf8_codecvt_facet.lo \
libcosifilesystem_la-windows_file_codecvt.lo \
libcosifilesystem_la-error_code.lo
libcosifilesystem_la_OBJECTS = $(am_libcosifilesystem_la_OBJECTS)
libcosifilesystem_la_LINK = $(LIBTOOL) $(AM_V_lt) --tag=CXX \
$(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=link $(CXXLD) \
$(libcosifilesystem_la_CXXFLAGS) $(CXXFLAGS) $(AM_LDFLAGS) \
$(LDFLAGS) -o $@
libcosiprogopt_la_LIBADD =
am_libcosiprogopt_la_OBJECTS = libcosiprogopt_la-cmdline.lo \
libcosiprogopt_la-config_file.lo libcosiprogopt_la-convert.lo \
libcosiprogopt_la-options_description.lo \
libcosiprogopt_la-parsers.lo \
libcosiprogopt_la-positional_options.lo \
libcosiprogopt_la-split.lo \
libcosiprogopt_la-utf8_codecvt_facet.lo \
libcosiprogopt_la-value_semantic.lo \
libcosiprogopt_la-variables_map.lo \
libcosiprogopt_la-winmain.lo
libcosiprogopt_la_OBJECTS = $(am_libcosiprogopt_la_OBJECTS)
libcosiprogopt_la_LINK = $(LIBTOOL) $(AM_V_lt) --tag=CXX \
$(AM_LIBTOOLFLAGS) $(LIBTOOLFLAGS) --mode=link $(CXXLD) \
$(libcosiprogopt_la_CXXFLAGS) $(CXXFLAGS) $(AM_LDFLAGS) \
$(LDFLAGS) -o $@
libcosirandom_la_LIBADD =
am_libcosirandom_la_OBJECTS = libcosirandom_la-random_device.lo
libcosirandom_la_OBJECTS = $(am_libcosirandom_la_OBJECTS)
libcosiregex_la_LIBADD =
am_libcosiregex_la_OBJECTS = libcosiregex_la-cpp_regex_traits.lo \
libcosiregex_la-cregex.lo libcosiregex_la-c_regex_traits.lo \
libcosiregex_la-fileiter.lo libcosiregex_la-icu.lo \
libcosiregex_la-instances.lo libcosiregex_la-posix_api.lo \
libcosiregex_la-regex.lo libcosiregex_la-regex_debug.lo \
libcosiregex_la-regex_raw_buffer.lo \
libcosiregex_la-regex_traits_defaults.lo \
libcosiregex_la-static_mutex.lo libcosiregex_la-usinstances.lo \
libcosiregex_la-w32_regex_traits.lo \
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################################################
#
# Section: Building cosi
#
################################################
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