===========================================================
.___ __ __
_________________ __ __ __| _/|__|/ |_
/ ___\_` __ \__ \ | | \/ __ | | \\_ __\
/ /_/ > | \// __ \| | / /_/ | | || |
\___ /|__| (____ /____/\____ | |__||__|
/_____/ \/ \/
grep rough audit - static analysis tool
v2.8 written by @Wireghoul
=================================[justanotherhacker.com]===
mrbayes-3.2.7a/Makefile.in-50- { \
mrbayes-3.2.7a/Makefile.in:51: flg=`printf '%s\n' "$$flg" | sed "s/$$1.*$$//"`; \
mrbayes-3.2.7a/Makefile.in-52- }; \
##############################################
mrbayes-3.2.7a/Makefile.in-132- esac
mrbayes-3.2.7a/Makefile.in:133:am__vpath_adj_setup = srcdirstrip=`echo "$(srcdir)" | sed 's|.|.|g'`;
mrbayes-3.2.7a/Makefile.in-134-am__vpath_adj = case $$p in \
mrbayes-3.2.7a/Makefile.in:135: $(srcdir)/*) f=`echo "$$p" | sed "s|^$$srcdirstrip/||"`;; \
mrbayes-3.2.7a/Makefile.in-136- *) f=$$p;; \
mrbayes-3.2.7a/Makefile.in-137- esac;
mrbayes-3.2.7a/Makefile.in:138:am__strip_dir = f=`echo $$p | sed -e 's|^.*/||'`;
mrbayes-3.2.7a/Makefile.in-139-am__install_max = 40
mrbayes-3.2.7a/Makefile.in-140-am__nobase_strip_setup = \
mrbayes-3.2.7a/Makefile.in:141: srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*|]/\\\\&/g'`
mrbayes-3.2.7a/Makefile.in-142-am__nobase_strip = \
##############################################
mrbayes-3.2.7a/Makefile.in-214- while test -n "$$dir1"; do \
mrbayes-3.2.7a/Makefile.in:215: first=`echo "$$dir1" | sed -e "$$sed_first"`; \
mrbayes-3.2.7a/Makefile.in-216- if test "$$first" != "."; then \
mrbayes-3.2.7a/Makefile.in-217- if test "$$first" = ".."; then \
mrbayes-3.2.7a/Makefile.in:218: dir2=`echo "$$dir0" | sed -e "$$sed_last"`/"$$dir2"; \
mrbayes-3.2.7a/Makefile.in:219: dir0=`echo "$$dir0" | sed -e "$$sed_butlast"`; \
mrbayes-3.2.7a/Makefile.in-220- else \
mrbayes-3.2.7a/Makefile.in:221: first2=`echo "$$dir2" | sed -e "$$sed_first"`; \
mrbayes-3.2.7a/Makefile.in-222- if test "$$first2" = "$$first"; then \
mrbayes-3.2.7a/Makefile.in:223: dir2=`echo "$$dir2" | sed -e "$$sed_rest"`; \
mrbayes-3.2.7a/Makefile.in-224- else \
##############################################
mrbayes-3.2.7a/Makefile.in-229- fi; \
mrbayes-3.2.7a/Makefile.in:230: dir1=`echo "$$dir1" | sed -e "$$sed_rest"`; \
mrbayes-3.2.7a/Makefile.in-231- done; \
##############################################
mrbayes-3.2.7a/Makefile.in-404- @list='$(dist_doc_DATA)'; test -n "$(docdir)" || list=; \
mrbayes-3.2.7a/Makefile.in:405: files=`for p in $$list; do echo $$p; done | sed -e 's|^.*/||'`; \
mrbayes-3.2.7a/Makefile.in-406- dir='$(DESTDIR)$(docdir)'; $(am__uninstall_files_from_dir)
##############################################
mrbayes-3.2.7a/Makefile.in-421- dot_seen=no; \
mrbayes-3.2.7a/Makefile.in:422: target=`echo $@ | sed s/-recursive//`; \
mrbayes-3.2.7a/Makefile.in-423- case "$@" in \
##############################################
mrbayes-3.2.7a/Makefile.in-484-GTAGS:
mrbayes-3.2.7a/Makefile.in:485: here=`$(am__cd) $(top_builddir) && pwd` \
mrbayes-3.2.7a/Makefile.in-486- && $(am__cd) $(top_srcdir) \
##############################################
mrbayes-3.2.7a/Makefile.in-516- test -d "$(distdir)" || mkdir "$(distdir)"
mrbayes-3.2.7a/Makefile.in:517: @srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
mrbayes-3.2.7a/Makefile.in:518: topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
mrbayes-3.2.7a/Makefile.in-519- list='$(DISTFILES)'; \
##############################################
mrbayes-3.2.7a/Makefile.in-530- if test -d $$d/$$file; then \
mrbayes-3.2.7a/Makefile.in:531: dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
mrbayes-3.2.7a/Makefile.in-532- if test -d "$(distdir)/$$file"; then \
##############################################
mrbayes-3.2.7a/Makefile.in-641- test -d $(distdir)/_build || exit 0; \
mrbayes-3.2.7a/Makefile.in:642: dc_install_base=`$(am__cd) $(distdir)/_inst && pwd | sed -e 's,^[^:\\/]:[\\/],/,'` \
mrbayes-3.2.7a/Makefile.in-643- && dc_destdir="$${TMPDIR-/tmp}/am-dc-$$$$/" \
##############################################
mrbayes-3.2.7a/Makefile.in-685- }; \
mrbayes-3.2.7a/Makefile.in:686: test `$(am__distuninstallcheck_listfiles) | wc -l` -eq 0 \
mrbayes-3.2.7a/Makefile.in-687- || { echo "ERROR: files left after uninstall:" ; \
##############################################
mrbayes-3.2.7a/Makefile.in-697- fi
mrbayes-3.2.7a/Makefile.in:698: @test `$(distcleancheck_listfiles) | wc -l` -eq 0 \
mrbayes-3.2.7a/Makefile.in-699- || { echo "ERROR: files left in build directory after distclean:" ; \
##############################################
mrbayes-3.2.7a/aclocal.m4-152- #
mrbayes-3.2.7a/aclocal.m4:153:do FLAGS="$ac_save_[]FLAGS "`echo $ac_arg | sed -e 's,%%.*,,' -e 's,%,,'`
mrbayes-3.2.7a/aclocal.m4-154- AC_COMPILE_IFELSE([AC_LANG_PROGRAM],
mrbayes-3.2.7a/aclocal.m4:155: [VAR=`echo $ac_arg | sed -e 's,.*% *,,'` ; break])
mrbayes-3.2.7a/aclocal.m4-156-done
##############################################
mrbayes-3.2.7a/aclocal.m4-327- *:) vendor=$ventest; continue ;;
mrbayes-3.2.7a/aclocal.m4:328: *) vencpp="defined("`echo $ventest | sed 's/,/) || defined(/g'`")" ;;
mrbayes-3.2.7a/aclocal.m4-329- esac
##############################################
mrbayes-3.2.7a/aclocal.m4-335- done
mrbayes-3.2.7a/aclocal.m4:336: ax_cv_[]_AC_LANG_ABBREV[]_compiler_vendor=`echo $vendor | cut -d: -f1`
mrbayes-3.2.7a/aclocal.m4-337- ])
##############################################
mrbayes-3.2.7a/aclocal.m4-799-AC_DEFUN([_AX_COMPILER_VERSION_TCC],[
mrbayes-3.2.7a/aclocal.m4:800: ax_cv_[]_AC_LANG_ABBREV[]_compiler_version=[`tcc -v | $SED 's/^[ ]*tcc[ ]\+version[ ]\+\([0-9.]\+\).*/\1/g'`]
mrbayes-3.2.7a/aclocal.m4-801- ])
##############################################
mrbayes-3.2.7a/aclocal.m4-976- then
mrbayes-3.2.7a/aclocal.m4:977: eax_cpuid0=`echo $ax_cv_gcc_x86_cpuid_0x00000000 | cut -d ":" -f 1`
mrbayes-3.2.7a/aclocal.m4-978- fi
##############################################
mrbayes-3.2.7a/aclocal.m4-983- then
mrbayes-3.2.7a/aclocal.m4:984: eax_cpuid80000000=`echo $ax_cv_gcc_x86_cpuid_0x80000000 | cut -d ":" -f 1`
mrbayes-3.2.7a/aclocal.m4-985- fi
##############################################
mrbayes-3.2.7a/aclocal.m4-992- then
mrbayes-3.2.7a/aclocal.m4:993: ecx_cpuid1=`echo $ax_cv_gcc_x86_cpuid_0x00000001 | cut -d ":" -f 3`
mrbayes-3.2.7a/aclocal.m4:994: edx_cpuid1=`echo $ax_cv_gcc_x86_cpuid_0x00000001 | cut -d ":" -f 4`
mrbayes-3.2.7a/aclocal.m4-995- fi
##############################################
mrbayes-3.2.7a/aclocal.m4-1003- then
mrbayes-3.2.7a/aclocal.m4:1004: ebx_cpuid7=`echo $ax_cv_gcc_x86_cpuid_0x00000007 | cut -d ":" -f 2`
mrbayes-3.2.7a/aclocal.m4:1005: ecx_cpuid7=`echo $ax_cv_gcc_x86_cpuid_0x00000007 | cut -d ":" -f 3`
mrbayes-3.2.7a/aclocal.m4-1006- fi
##############################################
mrbayes-3.2.7a/aclocal.m4-1014- then
mrbayes-3.2.7a/aclocal.m4:1015: ecx_cpuid80000001=`echo $ax_cv_gcc_x86_cpuid_0x80000001 | cut -d ":" -f 3`
mrbayes-3.2.7a/aclocal.m4:1016: edx_cpuid80000001=`echo $ax_cv_gcc_x86_cpuid_0x80000001 | cut -d ":" -f 4`
mrbayes-3.2.7a/aclocal.m4-1017- fi
##############################################
mrbayes-3.2.7a/aclocal.m4-1056- if test x"$ax_cv_gcc_x86_avx_xgetbv_0x00000000" != x"unknown"; then
mrbayes-3.2.7a/aclocal.m4:1057: xgetbv_eax=`echo $ax_cv_gcc_x86_avx_xgetbv_0x00000000 | cut -d ":" -f 1`
mrbayes-3.2.7a/aclocal.m4-1058- fi
##############################################
mrbayes-3.2.7a/aclocal.m4-1558-# order.
mrbayes-3.2.7a/aclocal.m4:1559:AC_REQUIRE([_AX_PROG_CC_MPI],[_AX_PROG_CC_MPI([$1])])
mrbayes-3.2.7a/aclocal.m4-1560-
##############################################
mrbayes-3.2.7a/aclocal.m4-1795- PKG_CHECK_EXISTS([$3],
mrbayes-3.2.7a/aclocal.m4:1796: [pkg_cv_[]$1=`$PKG_CONFIG --[]$2 "$3" 2>/dev/null`
mrbayes-3.2.7a/aclocal.m4-1797- test "x$?" != "x0" && pkg_failed=yes ],
##############################################
mrbayes-3.2.7a/aclocal.m4-1843- if test $_pkg_short_errors_supported = yes; then
mrbayes-3.2.7a/aclocal.m4:1844: $1[]_PKG_ERRORS=`$PKG_CONFIG --short-errors --print-errors --cflags --libs "$2" 2>&1`
mrbayes-3.2.7a/aclocal.m4-1845- else
mrbayes-3.2.7a/aclocal.m4:1846: $1[]_PKG_ERRORS=`$PKG_CONFIG --print-errors --cflags --libs "$2" 2>&1`
mrbayes-3.2.7a/aclocal.m4-1847- fi
##############################################
mrbayes-3.2.7a/aclocal.m4-2032-# iff we strip the leading $srcdir from $ac_aux_dir. That would be:
mrbayes-3.2.7a/aclocal.m4:2033:# am_aux_dir='\$(top_srcdir)/'`expr "$ac_aux_dir" : "$srcdir//*\(.*\)"`
mrbayes-3.2.7a/aclocal.m4-2034-# and then we would define $MISSING as
##############################################
mrbayes-3.2.7a/aclocal.m4-2047-# Expand $ac_aux_dir to an absolute path.
mrbayes-3.2.7a/aclocal.m4:2048:am_aux_dir=`cd "$ac_aux_dir" && pwd`
mrbayes-3.2.7a/aclocal.m4-2049-])
##############################################
mrbayes-3.2.7a/aclocal.m4-2182- if test "$am_compiler_list" = ""; then
mrbayes-3.2.7a/aclocal.m4:2183: am_compiler_list=`sed -n ['s/^#*\([a-zA-Z0-9]*\))$/\1/p'] < ./depcomp`
mrbayes-3.2.7a/aclocal.m4-2184- fi
##############################################
mrbayes-3.2.7a/aclocal.m4-2333- # Strip MF so we end up with the name of the file.
mrbayes-3.2.7a/aclocal.m4:2334: mf=`echo "$mf" | sed -e 's/:.*$//'`
mrbayes-3.2.7a/aclocal.m4-2335- # Check whether this is an Automake generated Makefile or not.
##############################################
mrbayes-3.2.7a/aclocal.m4-2342- if sed -n 's,^#.*generated by automake.*,X,p' "$mf" | grep X >/dev/null 2>&1; then
mrbayes-3.2.7a/aclocal.m4:2343: dirpart=`AS_DIRNAME("$mf")`
mrbayes-3.2.7a/aclocal.m4-2344- else
##############################################
mrbayes-3.2.7a/aclocal.m4-2348- # from the Makefile without running 'make'.
mrbayes-3.2.7a/aclocal.m4:2349: DEPDIR=`sed -n 's/^DEPDIR = //p' < "$mf"`
mrbayes-3.2.7a/aclocal.m4-2350- test -z "$DEPDIR" && continue
mrbayes-3.2.7a/aclocal.m4:2351: am__include=`sed -n 's/^am__include = //p' < "$mf"`
mrbayes-3.2.7a/aclocal.m4-2352- test -z "$am__include" && continue
mrbayes-3.2.7a/aclocal.m4:2353: am__quote=`sed -n 's/^am__quote = //p' < "$mf"`
mrbayes-3.2.7a/aclocal.m4-2354- # Find all dependency output files, they are included files with
##############################################
mrbayes-3.2.7a/aclocal.m4-2362- test -f "$dirpart/$file" && continue
mrbayes-3.2.7a/aclocal.m4:2363: fdir=`AS_DIRNAME(["$file"])`
mrbayes-3.2.7a/aclocal.m4-2364- AS_MKDIR_P([$dirpart/$fdir])
##############################################
mrbayes-3.2.7a/aclocal.m4-2420-AC_REQUIRE([AC_PROG_INSTALL])dnl
mrbayes-3.2.7a/aclocal.m4:2421:if test "`cd $srcdir && pwd`" != "`pwd`"; then
mrbayes-3.2.7a/aclocal.m4-2422- # Use -I$(srcdir) only when $(srcdir) != ., so that make's output
##############################################
mrbayes-3.2.7a/aclocal.m4-2579- * )
mrbayes-3.2.7a/aclocal.m4:2580: _am_stamp_count=`expr $_am_stamp_count + 1` ;;
mrbayes-3.2.7a/aclocal.m4-2581- esac
mrbayes-3.2.7a/aclocal.m4-2582-done
mrbayes-3.2.7a/aclocal.m4:2583:echo "timestamp for $_am_arg" >`AS_DIRNAME(["$_am_arg"])`/stamp-h[]$_am_stamp_count])
mrbayes-3.2.7a/aclocal.m4-2584-
##############################################
mrbayes-3.2.7a/aclocal.m4-2686-# Ignore all kinds of additional output from 'make'.
mrbayes-3.2.7a/aclocal.m4:2687:case `$am_make -s -f confmf 2> /dev/null` in #(
mrbayes-3.2.7a/aclocal.m4-2688-*the\ am__doit\ target*)
##############################################
mrbayes-3.2.7a/aclocal.m4-2696- echo '.include "confinc"' > confmf
mrbayes-3.2.7a/aclocal.m4:2697: case `$am_make -s -f confmf 2> /dev/null` in #(
mrbayes-3.2.7a/aclocal.m4-2698- *the\ am__doit\ target*)
##############################################
mrbayes-3.2.7a/aclocal.m4-2878- echo "timestamp, slept: $am_has_slept" > conftest.file
mrbayes-3.2.7a/aclocal.m4:2879: set X `ls -Lt "$srcdir/configure" conftest.file 2> /dev/null`
mrbayes-3.2.7a/aclocal.m4-2880- if test "$[*]" = "X"; then
mrbayes-3.2.7a/aclocal.m4-2881- # -L didn't work.
mrbayes-3.2.7a/aclocal.m4:2882: set X `ls -t "$srcdir/configure" conftest.file`
mrbayes-3.2.7a/aclocal.m4-2883- fi
##############################################
mrbayes-3.2.7a/am-aux/compile-67- mingw/*)
mrbayes-3.2.7a/am-aux/compile:68: file=`cmd //C echo "$file " | sed -e 's/"\(.*\) " *$/\1/'`
mrbayes-3.2.7a/am-aux/compile-69- ;;
mrbayes-3.2.7a/am-aux/compile-70- cygwin/*)
mrbayes-3.2.7a/am-aux/compile:71: file=`cygpath -m "$file" || echo "$file"`
mrbayes-3.2.7a/am-aux/compile-72- ;;
mrbayes-3.2.7a/am-aux/compile-73- wine/*)
mrbayes-3.2.7a/am-aux/compile:74: file=`winepath -w "$file" || echo "$file"`
mrbayes-3.2.7a/am-aux/compile-75- ;;
##############################################
mrbayes-3.2.7a/am-aux/compile-309-# Name of file we expect compiler to create.
mrbayes-3.2.7a/am-aux/compile:310:cofile=`echo "$cfile" | sed 's|^.*[\\/]||; s|^[a-zA-Z]:||; s/\.c$/.o/'`
mrbayes-3.2.7a/am-aux/compile-311-
##############################################
mrbayes-3.2.7a/am-aux/compile-315-# object file name, since that is what matters with a parallel build.
mrbayes-3.2.7a/am-aux/compile:316:lockdir=`echo "$cofile" | sed -e 's|[/\\:.-]|_|g'`.d
mrbayes-3.2.7a/am-aux/compile-317-while true; do
##############################################
mrbayes-3.2.7a/am-aux/config.guess-34-
mrbayes-3.2.7a/am-aux/config.guess:35:me=`echo "$0" | sed -e 's,.*/,,'`
mrbayes-3.2.7a/am-aux/config.guess-36-
##############################################
mrbayes-3.2.7a/am-aux/config.guess-102-: ${TMPDIR=/tmp} ;
mrbayes-3.2.7a/am-aux/config.guess:103: { tmp=`(umask 077 && mktemp -d "$TMPDIR/cgXXXXXX") 2>/dev/null` && test -n "$tmp" && test -d "$tmp" ; } ||
mrbayes-3.2.7a/am-aux/config.guess-104- { test -n "$RANDOM" && tmp=$TMPDIR/cg$$-$RANDOM && (umask 077 && mkdir $tmp) ; } ||
##############################################
mrbayes-3.2.7a/am-aux/config.guess-151- EOF
mrbayes-3.2.7a/am-aux/config.guess:152: eval `$CC_FOR_BUILD -E $dummy.c 2>/dev/null | grep '^LIBC' | sed 's, ,,g'`
mrbayes-3.2.7a/am-aux/config.guess-153- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-181- earmv*)
mrbayes-3.2.7a/am-aux/config.guess:182: arch=`echo ${UNAME_MACHINE_ARCH} | sed -e 's,^e\(armv[0-9]\).*$,\1,'`
mrbayes-3.2.7a/am-aux/config.guess:183: endian=`echo ${UNAME_MACHINE_ARCH} | sed -ne 's,^.*\(eb\)$,\1,p'`
mrbayes-3.2.7a/am-aux/config.guess-184- machine=${arch}${endian}-unknown
##############################################
mrbayes-3.2.7a/am-aux/config.guess-210- expr='s/^earmv[0-9]/-eabi/;s/eb$//'
mrbayes-3.2.7a/am-aux/config.guess:211: abi=`echo ${UNAME_MACHINE_ARCH} | sed -e "$expr"`
mrbayes-3.2.7a/am-aux/config.guess-212- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-223- *)
mrbayes-3.2.7a/am-aux/config.guess:224: release=`echo ${UNAME_RELEASE}|sed -e 's/[-_].*/\./'`
mrbayes-3.2.7a/am-aux/config.guess-225- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-254- *4.0)
mrbayes-3.2.7a/am-aux/config.guess:255: UNAME_RELEASE=`/usr/sbin/sizer -v | awk '{print $3}'`
mrbayes-3.2.7a/am-aux/config.guess-256- ;;
mrbayes-3.2.7a/am-aux/config.guess-257- *5.*)
mrbayes-3.2.7a/am-aux/config.guess:258: UNAME_RELEASE=`/usr/sbin/sizer -v | awk '{print $4}'`
mrbayes-3.2.7a/am-aux/config.guess-259- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-264- # types through head -n 1, so we only detect the type of CPU 0.
mrbayes-3.2.7a/am-aux/config.guess:265: ALPHA_CPU_TYPE=`/usr/sbin/psrinfo -v | sed -n -e 's/^ The alpha \(.*\) processor.*$/\1/p' | head -n 1`
mrbayes-3.2.7a/am-aux/config.guess-266- case "$ALPHA_CPU_TYPE" in
##############################################
mrbayes-3.2.7a/am-aux/config.guess-302- # 1.2 uses "1.2" for uname -r.
mrbayes-3.2.7a/am-aux/config.guess:303: echo ${UNAME_MACHINE}-dec-osf`echo ${UNAME_RELEASE} | sed -e 's/^[PVTX]//' | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz'`
mrbayes-3.2.7a/am-aux/config.guess-304- # Reset EXIT trap before exiting to avoid spurious non-zero exit code.
##############################################
mrbayes-3.2.7a/am-aux/config.guess-362- s390x:SunOS:*:*)
mrbayes-3.2.7a/am-aux/config.guess:363: echo ${UNAME_MACHINE}-ibm-solaris2`echo ${UNAME_RELEASE}|sed -e 's/[^.]*//'`
mrbayes-3.2.7a/am-aux/config.guess-364- exit ;;
mrbayes-3.2.7a/am-aux/config.guess-365- sun4H:SunOS:5.*:*)
mrbayes-3.2.7a/am-aux/config.guess:366: echo sparc-hal-solaris2`echo ${UNAME_RELEASE}|sed -e 's/[^.]*//'`
mrbayes-3.2.7a/am-aux/config.guess-367- exit ;;
mrbayes-3.2.7a/am-aux/config.guess-368- sun4*:SunOS:5.*:* | tadpole*:SunOS:5.*:*)
mrbayes-3.2.7a/am-aux/config.guess:369: echo sparc-sun-solaris2`echo ${UNAME_RELEASE}|sed -e 's/[^.]*//'`
mrbayes-3.2.7a/am-aux/config.guess-370- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-387- fi
mrbayes-3.2.7a/am-aux/config.guess:388: echo ${SUN_ARCH}-pc-solaris2`echo ${UNAME_RELEASE}|sed -e 's/[^.]*//'`
mrbayes-3.2.7a/am-aux/config.guess-389- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-393- # it's likely to be more like Solaris than SunOS4.
mrbayes-3.2.7a/am-aux/config.guess:394: echo sparc-sun-solaris3`echo ${UNAME_RELEASE}|sed -e 's/[^.]*//'`
mrbayes-3.2.7a/am-aux/config.guess-395- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-402- # Japanese Language versions have a version number like `4.1.3-JL'.
mrbayes-3.2.7a/am-aux/config.guess:403: echo sparc-sun-sunos`echo ${UNAME_RELEASE}|sed -e 's/-/_/'`
mrbayes-3.2.7a/am-aux/config.guess-404- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-408- sun*:*:4.2BSD:*)
mrbayes-3.2.7a/am-aux/config.guess:409: UNAME_RELEASE=`(sed 1q /etc/motd | awk '{print substr($5,1,3)}') 2>/dev/null`
mrbayes-3.2.7a/am-aux/config.guess-410- test "x${UNAME_RELEASE}" = "x" && UNAME_RELEASE=3
##############################################
mrbayes-3.2.7a/am-aux/config.guess-490- $CC_FOR_BUILD -o $dummy $dummy.c &&
mrbayes-3.2.7a/am-aux/config.guess:491: dummyarg=`echo "${UNAME_RELEASE}" | sed -n 's/\([0-9]*\).*/\1/p'` &&
mrbayes-3.2.7a/am-aux/config.guess:492: SYSTEM_NAME=`$dummy $dummyarg` &&
mrbayes-3.2.7a/am-aux/config.guess-493- { echo "$SYSTEM_NAME"; exit; }
##############################################
mrbayes-3.2.7a/am-aux/config.guess-546- *:IRIX*:*:*)
mrbayes-3.2.7a/am-aux/config.guess:547: echo mips-sgi-irix`echo ${UNAME_RELEASE}|sed -e 's/-/_/g'`
mrbayes-3.2.7a/am-aux/config.guess-548- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-576-EOF
mrbayes-3.2.7a/am-aux/config.guess:577: if $CC_FOR_BUILD -o $dummy $dummy.c && SYSTEM_NAME=`$dummy`
mrbayes-3.2.7a/am-aux/config.guess-578- then
##############################################
mrbayes-3.2.7a/am-aux/config.guess-589- *:AIX:*:[4567])
mrbayes-3.2.7a/am-aux/config.guess:590: IBM_CPU_ID=`/usr/sbin/lsdev -C -c processor -S available | sed 1q | awk '{ print $1 }'`
mrbayes-3.2.7a/am-aux/config.guess-591- if /usr/sbin/lsattr -El ${IBM_CPU_ID} | grep ' POWER' >/dev/null 2>&1; then
##############################################
mrbayes-3.2.7a/am-aux/config.guess-625- 9000/[34678]??:HP-UX:*:*)
mrbayes-3.2.7a/am-aux/config.guess:626: HPUX_REV=`echo ${UNAME_RELEASE}|sed -e 's/[^.]*.[0B]*//'`
mrbayes-3.2.7a/am-aux/config.guess-627- case "${UNAME_MACHINE}" in
##############################################
mrbayes-3.2.7a/am-aux/config.guess-679-EOF
mrbayes-3.2.7a/am-aux/config.guess:680: (CCOPTS= $CC_FOR_BUILD -o $dummy $dummy.c 2>/dev/null) && HP_ARCH=`$dummy`
mrbayes-3.2.7a/am-aux/config.guess-681- test -z "$HP_ARCH" && HP_ARCH=hppa
##############################################
mrbayes-3.2.7a/am-aux/config.guess-707- ia64:HP-UX:*:*)
mrbayes-3.2.7a/am-aux/config.guess:708: HPUX_REV=`echo ${UNAME_RELEASE}|sed -e 's/[^.]*.[0B]*//'`
mrbayes-3.2.7a/am-aux/config.guess-709- echo ia64-hp-hpux${HPUX_REV}
##############################################
mrbayes-3.2.7a/am-aux/config.guess-737-EOF
mrbayes-3.2.7a/am-aux/config.guess:738: $CC_FOR_BUILD -o $dummy $dummy.c && SYSTEM_NAME=`$dummy` &&
mrbayes-3.2.7a/am-aux/config.guess-739- { echo "$SYSTEM_NAME"; exit; }
##############################################
mrbayes-3.2.7a/am-aux/config.guess-808- FUJITSU_SYS=`uname -p | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz' | sed -e 's/\///'`
mrbayes-3.2.7a/am-aux/config.guess:809: FUJITSU_REL=`echo ${UNAME_RELEASE} | sed -e 's/ /_/'`
mrbayes-3.2.7a/am-aux/config.guess-810- echo "${FUJITSU_PROC}-fujitsu-${FUJITSU_SYS}${FUJITSU_REL}"
##############################################
mrbayes-3.2.7a/am-aux/config.guess-813- FUJITSU_SYS=`uname -p | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz' | sed -e 's/\///'`
mrbayes-3.2.7a/am-aux/config.guess:814: FUJITSU_REL=`echo ${UNAME_RELEASE} | tr 'ABCDEFGHIJKLMNOPQRSTUVWXYZ' 'abcdefghijklmnopqrstuvwxyz' | sed -e 's/ /_/'`
mrbayes-3.2.7a/am-aux/config.guess-815- echo "sparc-fujitsu-${FUJITSU_SYS}${FUJITSU_REL}"
##############################################
mrbayes-3.2.7a/am-aux/config.guess-829- amd64)
mrbayes-3.2.7a/am-aux/config.guess:830: echo x86_64-unknown-freebsd`echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'` ;;
mrbayes-3.2.7a/am-aux/config.guess-831- *)
mrbayes-3.2.7a/am-aux/config.guess:832: echo ${UNAME_PROCESSOR}-unknown-freebsd`echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'` ;;
mrbayes-3.2.7a/am-aux/config.guess-833- esac
##############################################
mrbayes-3.2.7a/am-aux/config.guess-887- prep*:SunOS:5.*:*)
mrbayes-3.2.7a/am-aux/config.guess:888: echo powerpcle-unknown-solaris2`echo ${UNAME_RELEASE}|sed -e 's/[^.]*//'`
mrbayes-3.2.7a/am-aux/config.guess-889- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-891- # the GNU system
mrbayes-3.2.7a/am-aux/config.guess:892: echo `echo ${UNAME_MACHINE}|sed -e 's,[-/].*$,,'`-unknown-${LIBC}`echo ${UNAME_RELEASE}|sed -e 's,/.*$,,'`
mrbayes-3.2.7a/am-aux/config.guess-893- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-895- # other systems with GNU libc and userland
mrbayes-3.2.7a/am-aux/config.guess:896: echo ${UNAME_MACHINE}-unknown-`echo ${UNAME_SYSTEM} | sed 's,^[^/]*/,,' | tr '[A-Z]' '[a-z]'``echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'`-${LIBC}
mrbayes-3.2.7a/am-aux/config.guess-897- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-986-EOF
mrbayes-3.2.7a/am-aux/config.guess:987: eval `$CC_FOR_BUILD -E $dummy.c 2>/dev/null | grep '^CPU'`
mrbayes-3.2.7a/am-aux/config.guess-988- test x"${CPU}" != x && { echo "${CPU}-unknown-linux-${LIBC}"; exit; }
##############################################
mrbayes-3.2.7a/am-aux/config.guess-1080- i*86:*:4.*:* | i*86:SYSTEM_V:4.*:*)
mrbayes-3.2.7a/am-aux/config.guess:1081: UNAME_REL=`echo ${UNAME_RELEASE} | sed 's/\/MP$//'`
mrbayes-3.2.7a/am-aux/config.guess-1082- if grep Novell /usr/include/link.h >/dev/null 2>/dev/null; then
##############################################
mrbayes-3.2.7a/am-aux/config.guess-1280- fi
mrbayes-3.2.7a/am-aux/config.guess:1281: if test `echo "$UNAME_RELEASE" | sed -e 's/\..*//'` -le 10 ; then
mrbayes-3.2.7a/am-aux/config.guess-1282- if [ "$CC_FOR_BUILD" != 'no_compiler_found' ]; then
##############################################
mrbayes-3.2.7a/am-aux/config.guess-1365- *:DragonFly:*:*)
mrbayes-3.2.7a/am-aux/config.guess:1366: echo ${UNAME_MACHINE}-unknown-dragonfly`echo ${UNAME_RELEASE}|sed -e 's/[-(].*//'`
mrbayes-3.2.7a/am-aux/config.guess-1367- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.guess-1378- i*86:skyos:*:*)
mrbayes-3.2.7a/am-aux/config.guess:1379: echo ${UNAME_MACHINE}-pc-skyos`echo ${UNAME_RELEASE}` | sed -e 's/ .*$//'
mrbayes-3.2.7a/am-aux/config.guess-1380- exit ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-52-
mrbayes-3.2.7a/am-aux/config.sub:53:me=`echo "$0" | sed -e 's,.*/,,'`
mrbayes-3.2.7a/am-aux/config.sub-54-
##############################################
mrbayes-3.2.7a/am-aux/config.sub-115-# Here we must recognize all the valid KERNEL-OS combinations.
mrbayes-3.2.7a/am-aux/config.sub:116:maybe_os=`echo $1 | sed 's/^\(.*\)-\([^-]*-[^-]*\)$/\2/'`
mrbayes-3.2.7a/am-aux/config.sub-117-case $maybe_os in
##############################################
mrbayes-3.2.7a/am-aux/config.sub-123- os=-$maybe_os
mrbayes-3.2.7a/am-aux/config.sub:124: basic_machine=`echo $1 | sed 's/^\(.*\)-\([^-]*-[^-]*\)$/\1/'`
mrbayes-3.2.7a/am-aux/config.sub-125- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-127- os=-linux-android
mrbayes-3.2.7a/am-aux/config.sub:128: basic_machine=`echo $1 | sed 's/^\(.*\)-\([^-]*-[^-]*\)$/\1/'`-unknown
mrbayes-3.2.7a/am-aux/config.sub-129- ;;
mrbayes-3.2.7a/am-aux/config.sub-130- *)
mrbayes-3.2.7a/am-aux/config.sub:131: basic_machine=`echo $1 | sed 's/-[^-]*$//'`
mrbayes-3.2.7a/am-aux/config.sub-132- if [ $basic_machine != $1 ]
mrbayes-3.2.7a/am-aux/config.sub:133: then os=`echo $1 | sed 's/.*-/-/'`
mrbayes-3.2.7a/am-aux/config.sub-134- else os=; fi
##############################################
mrbayes-3.2.7a/am-aux/config.sub-181- os=-sco5v6
mrbayes-3.2.7a/am-aux/config.sub:182: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-183- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-185- os=-sco3.2v5
mrbayes-3.2.7a/am-aux/config.sub:186: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-187- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-189- os=-sco3.2v4
mrbayes-3.2.7a/am-aux/config.sub:190: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-191- ;;
mrbayes-3.2.7a/am-aux/config.sub-192- -sco3.2.[4-9]*)
mrbayes-3.2.7a/am-aux/config.sub:193: os=`echo $os | sed -e 's/sco3.2./sco3.2v/'`
mrbayes-3.2.7a/am-aux/config.sub:194: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-195- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-197- # Don't forget version if it is 3.2v4 or newer.
mrbayes-3.2.7a/am-aux/config.sub:198: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-199- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-201- # Don't forget version if it is 3.2v4 or newer.
mrbayes-3.2.7a/am-aux/config.sub:202: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-203- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-205- os=-sco3.2v2
mrbayes-3.2.7a/am-aux/config.sub:206: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-207- ;;
mrbayes-3.2.7a/am-aux/config.sub-208- -udk*)
mrbayes-3.2.7a/am-aux/config.sub:209: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-210- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-212- os=-isc2.2
mrbayes-3.2.7a/am-aux/config.sub:213: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-214- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-218- -isc*)
mrbayes-3.2.7a/am-aux/config.sub:219: basic_machine=`echo $1 | sed -e 's/86-.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-220- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-230- -ptx*)
mrbayes-3.2.7a/am-aux/config.sub:231: basic_machine=`echo $1 | sed -e 's/86-.*/86-sequent/'`
mrbayes-3.2.7a/am-aux/config.sub-232- ;;
mrbayes-3.2.7a/am-aux/config.sub-233- -windowsnt*)
mrbayes-3.2.7a/am-aux/config.sub:234: os=`echo $os | sed -e 's/windowsnt/winnt/'`
mrbayes-3.2.7a/am-aux/config.sub-235- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-366- *-*-*)
mrbayes-3.2.7a/am-aux/config.sub:367: echo Invalid configuration \`$1\': machine \`$basic_machine\' not recognized 1>&2
mrbayes-3.2.7a/am-aux/config.sub-368- exit 1
##############################################
mrbayes-3.2.7a/am-aux/config.sub-491- amd64-*)
mrbayes-3.2.7a/am-aux/config.sub:492: basic_machine=x86_64-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-493- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-536- blackfin-*)
mrbayes-3.2.7a/am-aux/config.sub:537: basic_machine=bfin-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-538- os=-linux
##############################################
mrbayes-3.2.7a/am-aux/config.sub-544- c54x-*)
mrbayes-3.2.7a/am-aux/config.sub:545: basic_machine=tic54x-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-546- ;;
mrbayes-3.2.7a/am-aux/config.sub-547- c55x-*)
mrbayes-3.2.7a/am-aux/config.sub:548: basic_machine=tic55x-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-549- ;;
mrbayes-3.2.7a/am-aux/config.sub-550- c6x-*)
mrbayes-3.2.7a/am-aux/config.sub:551: basic_machine=tic6x-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-552- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-747- i*86v32)
mrbayes-3.2.7a/am-aux/config.sub:748: basic_machine=`echo $1 | sed -e 's/86.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-749- os=-sysv32
##############################################
mrbayes-3.2.7a/am-aux/config.sub-751- i*86v4*)
mrbayes-3.2.7a/am-aux/config.sub:752: basic_machine=`echo $1 | sed -e 's/86.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-753- os=-sysv4
##############################################
mrbayes-3.2.7a/am-aux/config.sub-755- i*86v)
mrbayes-3.2.7a/am-aux/config.sub:756: basic_machine=`echo $1 | sed -e 's/86.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-757- os=-sysv
##############################################
mrbayes-3.2.7a/am-aux/config.sub-759- i*86sol2)
mrbayes-3.2.7a/am-aux/config.sub:760: basic_machine=`echo $1 | sed -e 's/86.*/86-pc/'`
mrbayes-3.2.7a/am-aux/config.sub-761- os=-solaris2
##############################################
mrbayes-3.2.7a/am-aux/config.sub-785- leon-*|leon[3-9]-*)
mrbayes-3.2.7a/am-aux/config.sub:786: basic_machine=sparc-`echo $basic_machine | sed 's/-.*//'`
mrbayes-3.2.7a/am-aux/config.sub-787- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-792- m68knommu-*)
mrbayes-3.2.7a/am-aux/config.sub:793: basic_machine=m68k-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-794- os=-linux
##############################################
mrbayes-3.2.7a/am-aux/config.sub-829- mips3*-*)
mrbayes-3.2.7a/am-aux/config.sub:830: basic_machine=`echo $basic_machine | sed -e 's/mips3/mips64/'`
mrbayes-3.2.7a/am-aux/config.sub-831- ;;
mrbayes-3.2.7a/am-aux/config.sub-832- mips3*)
mrbayes-3.2.7a/am-aux/config.sub:833: basic_machine=`echo $basic_machine | sed -e 's/mips3/mips64/'`-unknown
mrbayes-3.2.7a/am-aux/config.sub-834- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-851- ms1-*)
mrbayes-3.2.7a/am-aux/config.sub:852: basic_machine=`echo $basic_machine | sed -e 's/ms1-/mt-/'`
mrbayes-3.2.7a/am-aux/config.sub-853- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-970- parisc-*)
mrbayes-3.2.7a/am-aux/config.sub:971: basic_machine=hppa-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-972- os=-linux
##############################################
mrbayes-3.2.7a/am-aux/config.sub-986- pc98-*)
mrbayes-3.2.7a/am-aux/config.sub:987: basic_machine=i386-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-988- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1001- pentium-* | p5-* | k5-* | k6-* | nexgen-* | viac3-*)
mrbayes-3.2.7a/am-aux/config.sub:1002: basic_machine=i586-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-1003- ;;
mrbayes-3.2.7a/am-aux/config.sub-1004- pentiumpro-* | p6-* | 6x86-* | athlon-*)
mrbayes-3.2.7a/am-aux/config.sub:1005: basic_machine=i686-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-1006- ;;
mrbayes-3.2.7a/am-aux/config.sub-1007- pentiumii-* | pentium2-* | pentiumiii-* | pentium3-*)
mrbayes-3.2.7a/am-aux/config.sub:1008: basic_machine=i686-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-1009- ;;
mrbayes-3.2.7a/am-aux/config.sub-1010- pentium4-*)
mrbayes-3.2.7a/am-aux/config.sub:1011: basic_machine=i786-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-1012- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1020- ppc-* | ppcbe-*)
mrbayes-3.2.7a/am-aux/config.sub:1021: basic_machine=powerpc-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-1022- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1026- ppcle-* | powerpclittle-*)
mrbayes-3.2.7a/am-aux/config.sub:1027: basic_machine=powerpcle-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-1028- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1030- ;;
mrbayes-3.2.7a/am-aux/config.sub:1031: ppc64-*) basic_machine=powerpc64-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-1032- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1036- ppc64le-* | powerpc64little-*)
mrbayes-3.2.7a/am-aux/config.sub:1037: basic_machine=powerpc64le-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-1038- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1119- strongarm-* | thumb-*)
mrbayes-3.2.7a/am-aux/config.sub:1120: basic_machine=arm-`echo $basic_machine | sed 's/^[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub-1121- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1249- xscale-* | xscalee[bl]-*)
mrbayes-3.2.7a/am-aux/config.sub:1250: basic_machine=`echo $basic_machine | sed 's/^xscale/arm/'`
mrbayes-3.2.7a/am-aux/config.sub-1251- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1326- *)
mrbayes-3.2.7a/am-aux/config.sub:1327: echo Invalid configuration \`$1\': machine \`$basic_machine\' not recognized 1>&2
mrbayes-3.2.7a/am-aux/config.sub-1328- exit 1
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1334- *-digital*)
mrbayes-3.2.7a/am-aux/config.sub:1335: basic_machine=`echo $basic_machine | sed 's/digital.*/dec/'`
mrbayes-3.2.7a/am-aux/config.sub-1336- ;;
mrbayes-3.2.7a/am-aux/config.sub-1337- *-commodore*)
mrbayes-3.2.7a/am-aux/config.sub:1338: basic_machine=`echo $basic_machine | sed 's/commodore.*/cbm/'`
mrbayes-3.2.7a/am-aux/config.sub-1339- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1355- -solaris1 | -solaris1.*)
mrbayes-3.2.7a/am-aux/config.sub:1356: os=`echo $os | sed -e 's|solaris1|sunos4|'`
mrbayes-3.2.7a/am-aux/config.sub-1357- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1367- -gnu/linux*)
mrbayes-3.2.7a/am-aux/config.sub:1368: os=`echo $os | sed -e 's|gnu/linux|linux-gnu|'`
mrbayes-3.2.7a/am-aux/config.sub-1369- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1413- -nto*)
mrbayes-3.2.7a/am-aux/config.sub:1414: os=`echo $os | sed -e 's|nto|nto-qnx|'`
mrbayes-3.2.7a/am-aux/config.sub-1415- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1420- -mac*)
mrbayes-3.2.7a/am-aux/config.sub:1421: os=`echo $os | sed -e 's|mac|macos|'`
mrbayes-3.2.7a/am-aux/config.sub-1422- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1426- -linux*)
mrbayes-3.2.7a/am-aux/config.sub:1427: os=`echo $os | sed -e 's|linux|linux-gnu|'`
mrbayes-3.2.7a/am-aux/config.sub-1428- ;;
mrbayes-3.2.7a/am-aux/config.sub-1429- -sunos5*)
mrbayes-3.2.7a/am-aux/config.sub:1430: os=`echo $os | sed -e 's|sunos5|solaris2|'`
mrbayes-3.2.7a/am-aux/config.sub-1431- ;;
mrbayes-3.2.7a/am-aux/config.sub-1432- -sunos6*)
mrbayes-3.2.7a/am-aux/config.sub:1433: os=`echo $os | sed -e 's|sunos6|solaris3|'`
mrbayes-3.2.7a/am-aux/config.sub-1434- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1481- -sinix5.*)
mrbayes-3.2.7a/am-aux/config.sub:1482: os=`echo $os | sed -e 's|sinix|sysv|'`
mrbayes-3.2.7a/am-aux/config.sub-1483- ;;
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1534- # Get rid of the `-' at the beginning of $os.
mrbayes-3.2.7a/am-aux/config.sub:1535: os=`echo $os | sed 's/[^-]*-//'`
mrbayes-3.2.7a/am-aux/config.sub:1536: echo Invalid configuration \`$1\': system \`$os\' not recognized 1>&2
mrbayes-3.2.7a/am-aux/config.sub-1537- exit 1
##############################################
mrbayes-3.2.7a/am-aux/config.sub-1797- esac
mrbayes-3.2.7a/am-aux/config.sub:1798: basic_machine=`echo $basic_machine | sed "s/unknown/$vendor/"`
mrbayes-3.2.7a/am-aux/config.sub-1799- ;;
##############################################
mrbayes-3.2.7a/am-aux/depcomp-64- case $1 in
mrbayes-3.2.7a/am-aux/depcomp:65: */*) dir=`echo "$1" | sed -e 's|/[^/]*$|/|'`;;
mrbayes-3.2.7a/am-aux/depcomp-66- *) dir=;;
##############################################
mrbayes-3.2.7a/am-aux/depcomp-73-{
mrbayes-3.2.7a/am-aux/depcomp:74: base=`echo "$1" | sed -e 's|^.*/||' -e 's/\.[^.]*$//'`
mrbayes-3.2.7a/am-aux/depcomp-75-}
##############################################
mrbayes-3.2.7a/am-aux/depcomp-126- sed 's|[^\\/]*$|'${DEPDIR-.deps}'/&|;s|\.\([^.]*\)$|.P\1|;s|Pobj$|Po|'`}
mrbayes-3.2.7a/am-aux/depcomp:127:tmpdepfile=${tmpdepfile-`echo "$depfile" | sed 's/\.\([^.]*\)$/.T\1/'`}
mrbayes-3.2.7a/am-aux/depcomp-128-
##############################################
mrbayes-3.2.7a/am-aux/depcomp-405- sleep 1
mrbayes-3.2.7a/am-aux/depcomp:406: i=`expr $i - 1`
mrbayes-3.2.7a/am-aux/depcomp-407- done
mrbayes-3.2.7a/am-aux/depcomp-408- fi
mrbayes-3.2.7a/am-aux/depcomp:409: i=`expr $i - 1`
mrbayes-3.2.7a/am-aux/depcomp-410- done
##############################################
mrbayes-3.2.7a/am-aux/depcomp-425- # Do two passes, one to just change these to
mrbayes-3.2.7a/am-aux/depcomp:426: # `$object: dependent.h' and one to simply `dependent.h:'.
mrbayes-3.2.7a/am-aux/depcomp-427- sed "s,^[^:]*:,$object :," < "$tmpdepfile" > "$depfile"
##############################################
mrbayes-3.2.7a/am-aux/depcomp-659- done
mrbayes-3.2.7a/am-aux/depcomp:660: obj_suffix=`echo "$object" | sed 's/^.*\././'`
mrbayes-3.2.7a/am-aux/depcomp-661- touch "$tmpdepfile"
##############################################
mrbayes-3.2.7a/am-aux/install-sh-184- then
mrbayes-3.2.7a/am-aux/install-sh:185: dstarg="$dstarg"/`basename "$srcarg"`
mrbayes-3.2.7a/am-aux/install-sh-186- fi
##############################################
mrbayes-3.2.7a/am-aux/install-sh-189-## this sed command emulates the dirname command
mrbayes-3.2.7a/am-aux/install-sh:190:dstdir=`echo "$dstarg" | sed -e 's,[^/]*$,,;s,/$,,;s,^$,.,'`
mrbayes-3.2.7a/am-aux/install-sh-191-
##############################################
mrbayes-3.2.7a/am-aux/install-sh-203-IFS='%'
mrbayes-3.2.7a/am-aux/install-sh:204:set - `echo ${dstdir} | sed -e 's@/@%@g' -e 's@^%@/@'`
mrbayes-3.2.7a/am-aux/install-sh-205-IFS="${oIFS}"
##############################################
mrbayes-3.2.7a/am-aux/install-sh-247-
mrbayes-3.2.7a/am-aux/install-sh:248: dstfile=`basename "$file"`
mrbayes-3.2.7a/am-aux/install-sh-249- dstfinal="$dstdir/$dstfile"
##############################################
mrbayes-3.2.7a/configure-43-if test -z "$BASH_VERSION$ZSH_VERSION" \
mrbayes-3.2.7a/configure:44: && (test "X`print -r -- $as_echo`" = "X$as_echo") 2>/dev/null; then
mrbayes-3.2.7a/configure-45- as_echo='print -r --'
mrbayes-3.2.7a/configure-46- as_echo_n='print -rn --'
mrbayes-3.2.7a/configure:47:elif (test "X`printf %s $as_echo`" = "X$as_echo") 2>/dev/null; then
mrbayes-3.2.7a/configure-48- as_echo='printf %s\n'
##############################################
mrbayes-3.2.7a/configure-50-else
mrbayes-3.2.7a/configure:51: if test "X`(/usr/ucb/echo -n -n $as_echo) 2>/dev/null`" = "X-n $as_echo"; then
mrbayes-3.2.7a/configure-52- as_echo_body='eval /usr/ucb/echo -n "$1$as_nl"'
##############################################
mrbayes-3.2.7a/configure-60- expr "X$arg" : "X\\(.*\\)$as_nl";
mrbayes-3.2.7a/configure:61: arg=`expr "X$arg" : ".*$as_nl\\(.*\\)"`;;
mrbayes-3.2.7a/configure-62- esac;
##############################################
mrbayes-3.2.7a/configure-197- eval 'test \"x\$as_lineno_1'\$as_run'\" != \"x\$as_lineno_2'\$as_run'\" &&
mrbayes-3.2.7a/configure:198: test \"x\`expr \$as_lineno_1'\$as_run' + 1\`\" = \"x\$as_lineno_2'\$as_run'\"' || exit 1
mrbayes-3.2.7a/configure-199-test \$(( 1 + 1 )) = 2 || exit 1"
##############################################
mrbayes-3.2.7a/configure-324- case $as_dir in #(
mrbayes-3.2.7a/configure:325: *\'*) as_qdir=`$as_echo "$as_dir" | sed "s/'/'\\\\\\\\''/g"`;; #'(
mrbayes-3.2.7a/configure-326- *) as_qdir=$as_dir;;
##############################################
mrbayes-3.2.7a/configure-397- {
mrbayes-3.2.7a/configure:398: as_val=`expr "$@" || test $? -eq 1`
mrbayes-3.2.7a/configure-399- }
##############################################
mrbayes-3.2.7a/configure-404-# ----------------------------------------
mrbayes-3.2.7a/configure:405:# Output "`basename $0`: error: ERROR" to stderr. If LINENO and LOG_FD are
mrbayes-3.2.7a/configure-406-# provided, also output the error to LOG_FD, referencing LINENO. Then exit the
##############################################
mrbayes-3.2.7a/configure-467- eval 'test "x$as_lineno_1'$as_run'" != "x$as_lineno_2'$as_run'" &&
mrbayes-3.2.7a/configure:468: test "x`expr $as_lineno_1'$as_run' + 1`" = "x$as_lineno_2'$as_run'"' || {
mrbayes-3.2.7a/configure-469- # Blame Lee E. McMahon (1931-1989) for sed's syntax. :-)
##############################################
mrbayes-3.2.7a/configure-825- case $ac_option in
mrbayes-3.2.7a/configure:826: *=?*) ac_optarg=`expr "X$ac_option" : '[^=]*=\(.*\)'` ;;
mrbayes-3.2.7a/configure-827- *=) ac_optarg= ;;
##############################################
mrbayes-3.2.7a/configure-869- -disable-* | --disable-*)
mrbayes-3.2.7a/configure:870: ac_useropt=`expr "x$ac_option" : 'x-*disable-\(.*\)'`
mrbayes-3.2.7a/configure-871- # Reject names that are not valid shell variable names.
##############################################
mrbayes-3.2.7a/configure-874- ac_useropt_orig=$ac_useropt
mrbayes-3.2.7a/configure:875: ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
mrbayes-3.2.7a/configure-876- case $ac_user_opts in
##############################################
mrbayes-3.2.7a/configure-895- -enable-* | --enable-*)
mrbayes-3.2.7a/configure:896: ac_useropt=`expr "x$ac_option" : 'x-*enable-\([^=]*\)'`
mrbayes-3.2.7a/configure-897- # Reject names that are not valid shell variable names.
##############################################
mrbayes-3.2.7a/configure-900- ac_useropt_orig=$ac_useropt
mrbayes-3.2.7a/configure:901: ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
mrbayes-3.2.7a/configure-902- case $ac_user_opts in
##############################################
mrbayes-3.2.7a/configure-1099- -with-* | --with-*)
mrbayes-3.2.7a/configure:1100: ac_useropt=`expr "x$ac_option" : 'x-*with-\([^=]*\)'`
mrbayes-3.2.7a/configure-1101- # Reject names that are not valid shell variable names.
##############################################
mrbayes-3.2.7a/configure-1104- ac_useropt_orig=$ac_useropt
mrbayes-3.2.7a/configure:1105: ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
mrbayes-3.2.7a/configure-1106- case $ac_user_opts in
##############################################
mrbayes-3.2.7a/configure-1115- -without-* | --without-*)
mrbayes-3.2.7a/configure:1116: ac_useropt=`expr "x$ac_option" : 'x-*without-\(.*\)'`
mrbayes-3.2.7a/configure-1117- # Reject names that are not valid shell variable names.
##############################################
mrbayes-3.2.7a/configure-1120- ac_useropt_orig=$ac_useropt
mrbayes-3.2.7a/configure:1121: ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
mrbayes-3.2.7a/configure-1122- case $ac_user_opts in
##############################################
mrbayes-3.2.7a/configure-1153- *=*)
mrbayes-3.2.7a/configure:1154: ac_envvar=`expr "x$ac_option" : 'x\([^=]*\)='`
mrbayes-3.2.7a/configure-1155- # Reject names that are not valid shell variable names.
##############################################
mrbayes-3.2.7a/configure-1174-if test -n "$ac_prev"; then
mrbayes-3.2.7a/configure:1175: ac_option=--`echo $ac_prev | sed 's/_/-/g'`
mrbayes-3.2.7a/configure-1176- as_fn_error $? "missing argument to $ac_option"
##############################################
mrbayes-3.2.7a/configure-1196- */ )
mrbayes-3.2.7a/configure:1197: ac_val=`expr "X$ac_val" : 'X\(.*[^/]\)' \| "X$ac_val" : 'X\(.*\)'`
mrbayes-3.2.7a/configure-1198- eval $ac_var=\$ac_val;;
##############################################
mrbayes-3.2.7a/configure-1231-ac_ls_di=`ls -di .` &&
mrbayes-3.2.7a/configure:1232:ac_pwd_ls_di=`cd "$ac_pwd" && ls -di .` ||
mrbayes-3.2.7a/configure-1233- as_fn_error $? "working directory cannot be determined"
##############################################
mrbayes-3.2.7a/configure-1287-case $srcdir in
mrbayes-3.2.7a/configure:1288:*/) srcdir=`expr "X$srcdir" : 'X\(.*[^/]\)' \| "X$srcdir" : 'X\(.*\)'`;;
mrbayes-3.2.7a/configure-1289-esac
##############################################
mrbayes-3.2.7a/configure-1330-By default, \`make install' will install all the files in
mrbayes-3.2.7a/configure:1331:\`$ac_default_prefix/bin', \`$ac_default_prefix/lib' etc. You can specify
mrbayes-3.2.7a/configure:1332:an installation prefix other than \`$ac_default_prefix' using \`--prefix',
mrbayes-3.2.7a/configure-1333-for instance \`--prefix=\$HOME'.
##############################################
mrbayes-3.2.7a/configure-1449-*)
mrbayes-3.2.7a/configure:1450: ac_dir_suffix=/`$as_echo "$ac_dir" | sed 's|^\.[\\/]||'`
mrbayes-3.2.7a/configure-1451- # A ".." for each directory in $ac_dir_suffix.
mrbayes-3.2.7a/configure:1452: ac_top_builddir_sub=`$as_echo "$ac_dir_suffix" | sed 's|/[^\\/]*|/..|g;s|/||'`
mrbayes-3.2.7a/configure-1453- case $ac_top_builddir_sub in
##############################################
mrbayes-3.2.7a/configure-2170- *\'*)
mrbayes-3.2.7a/configure:2171: ac_arg=`$as_echo "$ac_arg" | sed "s/'/'\\\\\\\\''/g"` ;;
mrbayes-3.2.7a/configure-2172- esac
##############################################
mrbayes-3.2.7a/configure-2253- case $ac_val in
mrbayes-3.2.7a/configure:2254: *\'\''*) ac_val=`$as_echo "$ac_val" | sed "s/'\''/'\''\\\\\\\\'\'''\''/g"`;;
mrbayes-3.2.7a/configure-2255- esac
##############################################
mrbayes-3.2.7a/configure-2268- case $ac_val in
mrbayes-3.2.7a/configure:2269: *\'\''*) ac_val=`$as_echo "$ac_val" | sed "s/'\''/'\''\\\\\\\\'\'''\''/g"`;;
mrbayes-3.2.7a/configure-2270- esac
##############################################
mrbayes-3.2.7a/configure-2388- set,)
mrbayes-3.2.7a/configure:2389: { $as_echo "$as_me:${as_lineno-$LINENO}: error: \`$ac_var' was set to \`$ac_old_val' in the previous run" >&5
mrbayes-3.2.7a/configure:2390:$as_echo "$as_me: error: \`$ac_var' was set to \`$ac_old_val' in the previous run" >&2;}
mrbayes-3.2.7a/configure-2391- ac_cache_corrupted=: ;;
##############################################
mrbayes-3.2.7a/configure-2399- # differences in whitespace do not lead to failure.
mrbayes-3.2.7a/configure:2400: ac_old_val_w=`echo x $ac_old_val`
mrbayes-3.2.7a/configure:2401: ac_new_val_w=`echo x $ac_new_val`
mrbayes-3.2.7a/configure-2402- if test "$ac_old_val_w" != "$ac_new_val_w"; then
##############################################
mrbayes-3.2.7a/configure-2419- case $ac_new_val in
mrbayes-3.2.7a/configure:2420: *\'*) ac_arg=$ac_var=`$as_echo "$ac_new_val" | sed "s/'/'\\\\\\\\''/g"` ;;
mrbayes-3.2.7a/configure-2421- *) ac_arg=$ac_var=$ac_new_val ;;
##############################################
mrbayes-3.2.7a/configure-2597- echo "timestamp, slept: $am_has_slept" > conftest.file
mrbayes-3.2.7a/configure:2598: set X `ls -Lt "$srcdir/configure" conftest.file 2> /dev/null`
mrbayes-3.2.7a/configure-2599- if test "$*" = "X"; then
mrbayes-3.2.7a/configure-2600- # -L didn't work.
mrbayes-3.2.7a/configure:2601: set X `ls -t "$srcdir/configure" conftest.file`
mrbayes-3.2.7a/configure-2602- fi
##############################################
mrbayes-3.2.7a/configure-2648-ac_script='s/[\\$]/&&/g;s/;s,x,x,$//'
mrbayes-3.2.7a/configure:2649:program_transform_name=`$as_echo "$program_transform_name" | sed "$ac_script"`
mrbayes-3.2.7a/configure-2650-
mrbayes-3.2.7a/configure-2651-# Expand $ac_aux_dir to an absolute path.
mrbayes-3.2.7a/configure:2652:am_aux_dir=`cd "$ac_aux_dir" && pwd`
mrbayes-3.2.7a/configure-2653-
##############################################
mrbayes-3.2.7a/configure-2793- as_fn_executable_p "$as_dir/$ac_prog$ac_exec_ext" || continue
mrbayes-3.2.7a/configure:2794: case `"$as_dir/$ac_prog$ac_exec_ext" --version 2>&1` in #(
mrbayes-3.2.7a/configure-2795- 'mkdir (GNU coreutils) '* | \
##############################################
mrbayes-3.2.7a/configure-2866-set x ${MAKE-make}
mrbayes-3.2.7a/configure:2867:ac_make=`$as_echo "$2" | sed 's/+/p/g; s/[^a-zA-Z0-9_]/_/g'`
mrbayes-3.2.7a/configure-2868-if eval \${ac_cv_prog_make_${ac_make}_set+:} false; then :
##############################################
mrbayes-3.2.7a/configure-2876-# GNU make sometimes prints "make[1]: Entering ...", which would confuse us.
mrbayes-3.2.7a/configure:2877:case `${MAKE-make} -f conftest.make 2>/dev/null` in
mrbayes-3.2.7a/configure-2878- *@@@%%%=?*=@@@%%%*)
##############################################
mrbayes-3.2.7a/configure-2942-
mrbayes-3.2.7a/configure:2943:if test "`cd $srcdir && pwd`" != "`pwd`"; then
mrbayes-3.2.7a/configure-2944- # Use -I$(srcdir) only when $(srcdir) != ., so that make's output
##############################################
mrbayes-3.2.7a/configure-3096-test "x$ac_build_alias" = x &&
mrbayes-3.2.7a/configure:3097: ac_build_alias=`$SHELL "$ac_aux_dir/config.guess"`
mrbayes-3.2.7a/configure-3098-test "x$ac_build_alias" = x &&
mrbayes-3.2.7a/configure-3099- as_fn_error $? "cannot guess build type; you must specify one" "$LINENO" 5
mrbayes-3.2.7a/configure:3100:ac_cv_build=`$SHELL "$ac_aux_dir/config.sub" $ac_build_alias` ||
mrbayes-3.2.7a/configure-3101- as_fn_error $? "$SHELL $ac_aux_dir/config.sub $ac_build_alias failed" "$LINENO" 5
##############################################
mrbayes-3.2.7a/configure-3120-IFS=$ac_save_IFS
mrbayes-3.2.7a/configure:3121:case $build_os in *\ *) build_os=`echo "$build_os" | sed 's/ /-/g'`;; esac
mrbayes-3.2.7a/configure-3122-
##############################################
mrbayes-3.2.7a/configure-3131-else
mrbayes-3.2.7a/configure:3132: ac_cv_host=`$SHELL "$ac_aux_dir/config.sub" $host_alias` ||
mrbayes-3.2.7a/configure-3133- as_fn_error $? "$SHELL $ac_aux_dir/config.sub $host_alias failed" "$LINENO" 5
##############################################
mrbayes-3.2.7a/configure-3153-IFS=$ac_save_IFS
mrbayes-3.2.7a/configure:3154:case $host_os in *\ *) host_os=`echo "$host_os" | sed 's/ /-/g'`;; esac
mrbayes-3.2.7a/configure-3155-
##############################################
mrbayes-3.2.7a/configure-3497-# Ignore all kinds of additional output from 'make'.
mrbayes-3.2.7a/configure:3498:case `$am_make -s -f confmf 2> /dev/null` in #(
mrbayes-3.2.7a/configure-3499-*the\ am__doit\ target*)
##############################################
mrbayes-3.2.7a/configure-3507- echo '.include "confinc"' > confmf
mrbayes-3.2.7a/configure:3508: case `$am_make -s -f confmf 2> /dev/null` in #(
mrbayes-3.2.7a/configure-3509- *the\ am__doit\ target*)
##############################################
mrbayes-3.2.7a/configure-4005-$as_echo_n "checking whether the C compiler works... " >&6; }
mrbayes-3.2.7a/configure:4006:ac_link_default=`$as_echo "$ac_link" | sed 's/ -o *conftest[^ ]*//'`
mrbayes-3.2.7a/configure-4007-
##############################################
mrbayes-3.2.7a/configure-4049- then :; else
mrbayes-3.2.7a/configure:4050: ac_cv_exeext=`expr "$ac_file" : '[^.]*\(\..*\)'`
mrbayes-3.2.7a/configure-4051- fi
##############################################
mrbayes-3.2.7a/configure-4109- *.$ac_ext | *.xcoff | *.tds | *.d | *.pdb | *.xSYM | *.bb | *.bbg | *.map | *.inf | *.dSYM | *.o | *.obj ) ;;
mrbayes-3.2.7a/configure:4110: *.* ) ac_cv_exeext=`expr "$ac_file" : '[^.]*\(\..*\)'`
mrbayes-3.2.7a/configure-4111- break;;
##############################################
mrbayes-3.2.7a/configure-4218- *.$ac_ext | *.xcoff | *.tds | *.d | *.pdb | *.xSYM | *.bb | *.bbg | *.map | *.inf | *.dSYM ) ;;
mrbayes-3.2.7a/configure:4219: *) ac_cv_objext=`expr "$ac_file" : '.*\.\(.*\)'`
mrbayes-3.2.7a/configure-4220- break;;
##############################################
mrbayes-3.2.7a/configure-4536- if test "$am_compiler_list" = ""; then
mrbayes-3.2.7a/configure:4537: am_compiler_list=`sed -n 's/^#*\([a-zA-Z0-9]*\))$/\1/p' < ./depcomp`
mrbayes-3.2.7a/configure-4538- fi
##############################################
mrbayes-3.2.7a/configure-4974- # Check for GNU $ac_path_GREP
mrbayes-3.2.7a/configure:4975:case `"$ac_path_GREP" --version 2>&1` in
mrbayes-3.2.7a/configure-4976-*GNU*)
##############################################
mrbayes-3.2.7a/configure-5040- # Check for GNU $ac_path_EGREP
mrbayes-3.2.7a/configure:5041:case `"$ac_path_EGREP" --version 2>&1` in
mrbayes-3.2.7a/configure-5042-*GNU*)
##############################################
mrbayes-3.2.7a/configure-5201-do :
mrbayes-3.2.7a/configure:5202: as_ac_Header=`$as_echo "ac_cv_header_$ac_header" | $as_tr_sh`
mrbayes-3.2.7a/configure-5203-ac_fn_c_check_header_compile "$LINENO" "$ac_header" "$as_ac_Header" "$ac_includes_default
##############################################
mrbayes-3.2.7a/configure-5206- cat >>confdefs.h <<_ACEOF
mrbayes-3.2.7a/configure:5207:#define `$as_echo "HAVE_$ac_header" | $as_tr_cpp` 1
mrbayes-3.2.7a/configure-5208-_ACEOF
##############################################
mrbayes-3.2.7a/configure-5313-
mrbayes-3.2.7a/configure:5314: as_ax_Var=`$as_echo "ac_cv_header_${ax_var}" | $as_tr_sh`
mrbayes-3.2.7a/configure-5315-
##############################################
mrbayes-3.2.7a/configure-5342- test $ac_status = 0; }; then
mrbayes-3.2.7a/configure:5343: pkg_cv_BEAGLE_CFLAGS=`$PKG_CONFIG --cflags "$beagle_pkg_name" 2>/dev/null`
mrbayes-3.2.7a/configure-5344- test "x$?" != "x0" && pkg_failed=yes
##############################################
mrbayes-3.2.7a/configure-5359- test $ac_status = 0; }; then
mrbayes-3.2.7a/configure:5360: pkg_cv_BEAGLE_LIBS=`$PKG_CONFIG --libs "$beagle_pkg_name" 2>/dev/null`
mrbayes-3.2.7a/configure-5361- test "x$?" != "x0" && pkg_failed=yes
##############################################
mrbayes-3.2.7a/configure-5380- if test $_pkg_short_errors_supported = yes; then
mrbayes-3.2.7a/configure:5381: BEAGLE_PKG_ERRORS=`$PKG_CONFIG --short-errors --print-errors --cflags --libs "$beagle_pkg_name" 2>&1`
mrbayes-3.2.7a/configure-5382- else
mrbayes-3.2.7a/configure:5383: BEAGLE_PKG_ERRORS=`$PKG_CONFIG --print-errors --cflags --libs "$beagle_pkg_name" 2>&1`
mrbayes-3.2.7a/configure-5384- fi
##############################################
mrbayes-3.2.7a/configure-5539-do :
mrbayes-3.2.7a/configure:5540: as_ac_Header=`$as_echo "ac_cv_header_$ac_header" | $as_tr_sh`
mrbayes-3.2.7a/configure-5541-ac_fn_c_check_header_mongrel "$LINENO" "$ac_header" "$as_ac_Header" "$ac_includes_default"
##############################################
mrbayes-3.2.7a/configure-5543- cat >>confdefs.h <<_ACEOF
mrbayes-3.2.7a/configure:5544:#define `$as_echo "HAVE_$ac_header" | $as_tr_cpp` 1
mrbayes-3.2.7a/configure-5545-_ACEOF
##############################################
mrbayes-3.2.7a/configure-5590-do :
mrbayes-3.2.7a/configure:5591: as_ac_Header=`$as_echo "ac_cv_header_$ac_header" | $as_tr_sh`
mrbayes-3.2.7a/configure-5592-ac_fn_c_check_header_mongrel "$LINENO" "$ac_header" "$as_ac_Header" "$ac_includes_default"
##############################################
mrbayes-3.2.7a/configure-5594- cat >>confdefs.h <<_ACEOF
mrbayes-3.2.7a/configure:5595:#define `$as_echo "HAVE_$ac_header" | $as_tr_cpp` 1
mrbayes-3.2.7a/configure-5596-_ACEOF
##############################################
mrbayes-3.2.7a/configure-5619-do :
mrbayes-3.2.7a/configure:5620: as_ac_Header=`$as_echo "ac_cv_header_$ac_header" | $as_tr_sh`
mrbayes-3.2.7a/configure-5621-ac_fn_c_check_header_mongrel "$LINENO" "$ac_header" "$as_ac_Header" "$ac_includes_default"
##############################################
mrbayes-3.2.7a/configure-5623- cat >>confdefs.h <<_ACEOF
mrbayes-3.2.7a/configure:5624:#define `$as_echo "HAVE_$ac_header" | $as_tr_cpp` 1
mrbayes-3.2.7a/configure-5625-_ACEOF
##############################################
mrbayes-3.2.7a/configure-5763- *:) vendor=$ventest; continue ;;
mrbayes-3.2.7a/configure:5764: *) vencpp="defined("`echo $ventest | sed 's/,/) || defined(/g'`")" ;;
mrbayes-3.2.7a/configure-5765- esac
##############################################
mrbayes-3.2.7a/configure-5785- done
mrbayes-3.2.7a/configure:5786: ax_cv_c_compiler_vendor=`echo $vendor | cut -d: -f1`
mrbayes-3.2.7a/configure-5787-
##############################################
mrbayes-3.2.7a/configure-5816- # Check for GNU $ac_path_SED
mrbayes-3.2.7a/configure:5817:case `"$ac_path_SED" --version 2>&1` in
mrbayes-3.2.7a/configure-5818-*GNU*)
##############################################
mrbayes-3.2.7a/configure-6760-
mrbayes-3.2.7a/configure:6761: ax_cv_c_compiler_version=`tcc -v | $SED 's/^[ ]*tcc[ ]\+version[ ]\+\([0-9.]\+\).*/\1/g'`
mrbayes-3.2.7a/configure-6762- ;; #(
##############################################
mrbayes-3.2.7a/configure-6849-for ac_arg in "-warn all % -warn all" "-pedantic % -Wall" "-xstrconst % -v" "-std1 % -verbose -w0 -warnprotos" "-qlanglvl=ansi % -qsrcmsg -qinfo=all:noppt:noppc:noobs:nocnd" "-ansi -ansiE % -fullwarn" "+ESlit % +w1" "-Xc % -pvctl,fullmsg" "-h conform % -h msglevel 2" #
mrbayes-3.2.7a/configure:6850:do CFLAGS="$ac_save_CFLAGS "`echo $ac_arg | sed -e 's,%%.*,,' -e 's,%,,'`
mrbayes-3.2.7a/configure-6851- cat confdefs.h - <<_ACEOF >conftest.$ac_ext
##############################################
mrbayes-3.2.7a/configure-6862-if ac_fn_c_try_compile "$LINENO"; then :
mrbayes-3.2.7a/configure:6863: ac_cv_cflags_warn_all=`echo $ac_arg | sed -e 's,.*% *,,'` ; break
mrbayes-3.2.7a/configure-6864-fi
##############################################
mrbayes-3.2.7a/configure-7280- then
mrbayes-3.2.7a/configure:7281: eax_cpuid0=`echo $ax_cv_gcc_x86_cpuid_0x00000000 | cut -d ":" -f 1`
mrbayes-3.2.7a/configure-7282- fi
##############################################
mrbayes-3.2.7a/configure-7345- then
mrbayes-3.2.7a/configure:7346: eax_cpuid80000000=`echo $ax_cv_gcc_x86_cpuid_0x80000000 | cut -d ":" -f 1`
mrbayes-3.2.7a/configure-7347- fi
##############################################
mrbayes-3.2.7a/configure-7412- then
mrbayes-3.2.7a/configure:7413: ecx_cpuid1=`echo $ax_cv_gcc_x86_cpuid_0x00000001 | cut -d ":" -f 3`
mrbayes-3.2.7a/configure:7414: edx_cpuid1=`echo $ax_cv_gcc_x86_cpuid_0x00000001 | cut -d ":" -f 4`
mrbayes-3.2.7a/configure-7415- fi
##############################################
mrbayes-3.2.7a/configure-7480- then
mrbayes-3.2.7a/configure:7481: ebx_cpuid7=`echo $ax_cv_gcc_x86_cpuid_0x00000007 | cut -d ":" -f 2`
mrbayes-3.2.7a/configure:7482: ecx_cpuid7=`echo $ax_cv_gcc_x86_cpuid_0x00000007 | cut -d ":" -f 3`
mrbayes-3.2.7a/configure-7483- fi
##############################################
mrbayes-3.2.7a/configure-7549- then
mrbayes-3.2.7a/configure:7550: ecx_cpuid80000001=`echo $ax_cv_gcc_x86_cpuid_0x80000001 | cut -d ":" -f 3`
mrbayes-3.2.7a/configure:7551: edx_cpuid80000001=`echo $ax_cv_gcc_x86_cpuid_0x80000001 | cut -d ":" -f 4`
mrbayes-3.2.7a/configure-7552- fi
##############################################
mrbayes-3.2.7a/configure-7676- if test x"$ax_cv_gcc_x86_avx_xgetbv_0x00000000" != x"unknown"; then
mrbayes-3.2.7a/configure:7677: xgetbv_eax=`echo $ax_cv_gcc_x86_avx_xgetbv_0x00000000 | cut -d ":" -f 1`
mrbayes-3.2.7a/configure-7678- fi
##############################################
mrbayes-3.2.7a/configure-7753- if test "$(eval echo \$ax_cv_have_${ac_instr_acvar}_ext)" = yes; then
mrbayes-3.2.7a/configure:7754: as_CACHEVAR=`$as_echo "ax_cv_check_cflags__${ac_instr_compiler_flags}" | $as_tr_sh`
mrbayes-3.2.7a/configure-7755-{ $as_echo "$as_me:${as_lineno-$LINENO}: checking whether C compiler accepts ${ac_instr_compiler_flags}" >&5
##############################################
mrbayes-3.2.7a/configure-7884-do :
mrbayes-3.2.7a/configure:7885: as_ac_var=`$as_echo "ac_cv_func_$ac_func" | $as_tr_sh`
mrbayes-3.2.7a/configure-7886-ac_fn_c_check_func "$LINENO" "$ac_func" "$as_ac_var"
##############################################
mrbayes-3.2.7a/configure-7888- cat >>confdefs.h <<_ACEOF
mrbayes-3.2.7a/configure:7889:#define `$as_echo "HAVE_$ac_func" | $as_tr_cpp` 1
mrbayes-3.2.7a/configure-7890-_ACEOF
##############################################
mrbayes-3.2.7a/configure-7995- ac_script='s/\$U\././;s/\.o$//;s/\.obj$//'
mrbayes-3.2.7a/configure:7996: ac_i=`$as_echo "$ac_i" | sed "$ac_script"`
mrbayes-3.2.7a/configure-7997- # 2. Prepend LIBOBJDIR. When used with automake>=1.10 LIBOBJDIR
##############################################
mrbayes-3.2.7a/configure-8094-if test -z "$BASH_VERSION$ZSH_VERSION" \
mrbayes-3.2.7a/configure:8095: && (test "X`print -r -- $as_echo`" = "X$as_echo") 2>/dev/null; then
mrbayes-3.2.7a/configure-8096- as_echo='print -r --'
mrbayes-3.2.7a/configure-8097- as_echo_n='print -rn --'
mrbayes-3.2.7a/configure:8098:elif (test "X`printf %s $as_echo`" = "X$as_echo") 2>/dev/null; then
mrbayes-3.2.7a/configure-8099- as_echo='printf %s\n'
##############################################
mrbayes-3.2.7a/configure-8101-else
mrbayes-3.2.7a/configure:8102: if test "X`(/usr/ucb/echo -n -n $as_echo) 2>/dev/null`" = "X-n $as_echo"; then
mrbayes-3.2.7a/configure-8103- as_echo_body='eval /usr/ucb/echo -n "$1$as_nl"'
##############################################
mrbayes-3.2.7a/configure-8111- expr "X$arg" : "X\\(.*\\)$as_nl";
mrbayes-3.2.7a/configure:8112: arg=`expr "X$arg" : ".*$as_nl\\(.*\\)"`;;
mrbayes-3.2.7a/configure-8113- esac;
##############################################
mrbayes-3.2.7a/configure-8188-# ----------------------------------------
mrbayes-3.2.7a/configure:8189:# Output "`basename $0`: error: ERROR" to stderr. If LINENO and LOG_FD are
mrbayes-3.2.7a/configure-8190-# provided, also output the error to LOG_FD, referencing LINENO. Then exit the
##############################################
mrbayes-3.2.7a/configure-8260- {
mrbayes-3.2.7a/configure:8261: as_val=`expr "$@" || test $? -eq 1`
mrbayes-3.2.7a/configure-8262- }
##############################################
mrbayes-3.2.7a/configure-8364- case $as_dir in #(
mrbayes-3.2.7a/configure:8365: *\'*) as_qdir=`$as_echo "$as_dir" | sed "s/'/'\\\\\\\\''/g"`;; #'(
mrbayes-3.2.7a/configure-8366- *) as_qdir=$as_dir;;
##############################################
mrbayes-3.2.7a/configure-8499-cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
mrbayes-3.2.7a/configure:8500:ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
mrbayes-3.2.7a/configure-8501-ac_cs_version="\\
##############################################
mrbayes-3.2.7a/configure-8524- --*=?*)
mrbayes-3.2.7a/configure:8525: ac_option=`expr "X$1" : 'X\([^=]*\)='`
mrbayes-3.2.7a/configure:8526: ac_optarg=`expr "X$1" : 'X[^=]*=\(.*\)'`
mrbayes-3.2.7a/configure-8527- ac_shift=:
##############################################
mrbayes-3.2.7a/configure-8529- --*=)
mrbayes-3.2.7a/configure:8530: ac_option=`expr "X$1" : 'X\([^=]*\)='`
mrbayes-3.2.7a/configure-8531- ac_optarg=
##############################################
mrbayes-3.2.7a/configure-8553- case $ac_optarg in
mrbayes-3.2.7a/configure:8554: *\'*) ac_optarg=`$as_echo "$ac_optarg" | sed "s/'/'\\\\\\\\''/g"` ;;
mrbayes-3.2.7a/configure-8555- '') as_fn_error $? "missing file argument" ;;
##############################################
mrbayes-3.2.7a/configure-8561- case $ac_optarg in
mrbayes-3.2.7a/configure:8562: *\'*) ac_optarg=`$as_echo "$ac_optarg" | sed "s/'/'\\\\\\\\''/g"` ;;
mrbayes-3.2.7a/configure-8563- esac
##############################################
mrbayes-3.2.7a/configure-8694-fi
mrbayes-3.2.7a/configure:8695:ac_cs_awk_cr=`$AWK 'BEGIN { print "a\rb" }' </dev/null 2>/dev/null`
mrbayes-3.2.7a/configure-8696-if test "$ac_cs_awk_cr" = "a${ac_cr}b"; then
##############################################
mrbayes-3.2.7a/configure-8711- as_fn_error $? "could not make $CONFIG_STATUS" "$LINENO" 5
mrbayes-3.2.7a/configure:8712:ac_delim_num=`echo "$ac_subst_vars" | grep -c '^'`
mrbayes-3.2.7a/configure-8713-ac_delim='%!_!# '
##############################################
mrbayes-3.2.7a/configure-8717-
mrbayes-3.2.7a/configure:8718: ac_delim_n=`sed -n "s/.*$ac_delim\$/X/p" conf$$subs.awk | grep -c X`
mrbayes-3.2.7a/configure-8719- if test $ac_delim_n = $ac_delim_num; then
##############################################
mrbayes-3.2.7a/configure-8855-for ac_last_try in false false :; do
mrbayes-3.2.7a/configure:8856: ac_tt=`sed -n "/$ac_delim/p" confdefs.h`
mrbayes-3.2.7a/configure-8857- if test -z "$ac_tt"; then
##############################################
mrbayes-3.2.7a/configure-8987- esac
mrbayes-3.2.7a/configure:8988: case $ac_f in *\'*) ac_f=`$as_echo "$ac_f" | sed "s/'/'\\\\\\\\''/g"`;; esac
mrbayes-3.2.7a/configure-8989- as_fn_append ac_file_inputs " '$ac_f'"
##############################################
mrbayes-3.2.7a/configure-9046-*)
mrbayes-3.2.7a/configure:9047: ac_dir_suffix=/`$as_echo "$ac_dir" | sed 's|^\.[\\/]||'`
mrbayes-3.2.7a/configure-9048- # A ".." for each directory in $ac_dir_suffix.
mrbayes-3.2.7a/configure:9049: ac_top_builddir_sub=`$as_echo "$ac_dir_suffix" | sed 's|/[^\\/]*|/..|g;s|/||'`
mrbayes-3.2.7a/configure-9050- case $ac_top_builddir_sub in
##############################################
mrbayes-3.2.7a/configure-9107-/@mandir@/p'
mrbayes-3.2.7a/configure:9108:case `eval "sed -n \"\$ac_sed_dataroot\" $ac_file_inputs"` in
mrbayes-3.2.7a/configure-9109-*datarootdir*) ac_datarootdir_seen=yes;;
##############################################
mrbayes-3.2.7a/configure-9124-
mrbayes-3.2.7a/configure:9125:# Neutralize VPATH when `$srcdir' = `.'.
mrbayes-3.2.7a/configure-9126-# Shell code in configure.ac might set extrasub.
##############################################
mrbayes-3.2.7a/configure-9152-test -z "$ac_datarootdir_hack$ac_datarootdir_seen" &&
mrbayes-3.2.7a/configure:9153: { ac_out=`sed -n '/\${datarootdir}/p' "$ac_tmp/out"`; test -n "$ac_out"; } &&
mrbayes-3.2.7a/configure-9154- { ac_out=`sed -n '/^[ ]*datarootdir[ ]*:*=/p' \
##############################################
mrbayes-3.2.7a/configure-9198- * )
mrbayes-3.2.7a/configure:9199: _am_stamp_count=`expr $_am_stamp_count + 1` ;;
mrbayes-3.2.7a/configure-9200- esac
##############################################
mrbayes-3.2.7a/configure-9245- # Strip MF so we end up with the name of the file.
mrbayes-3.2.7a/configure:9246: mf=`echo "$mf" | sed -e 's/:.*$//'`
mrbayes-3.2.7a/configure-9247- # Check whether this is an Automake generated Makefile or not.
##############################################
mrbayes-3.2.7a/configure-9282- # from the Makefile without running 'make'.
mrbayes-3.2.7a/configure:9283: DEPDIR=`sed -n 's/^DEPDIR = //p' < "$mf"`
mrbayes-3.2.7a/configure-9284- test -z "$DEPDIR" && continue
mrbayes-3.2.7a/configure:9285: am__include=`sed -n 's/^am__include = //p' < "$mf"`
mrbayes-3.2.7a/configure-9286- test -z "$am__include" && continue
mrbayes-3.2.7a/configure:9287: am__quote=`sed -n 's/^am__quote = //p' < "$mf"`
mrbayes-3.2.7a/configure-9288- # Find all dependency output files, they are included files with
##############################################
mrbayes-3.2.7a/doc/Makefile.in-49- { \
mrbayes-3.2.7a/doc/Makefile.in:50: flg=`printf '%s\n' "$$flg" | sed "s/$$1.*$$//"`; \
mrbayes-3.2.7a/doc/Makefile.in-51- }; \
##############################################
mrbayes-3.2.7a/doc/Makefile.in-165- while test -n "$$dir1"; do \
mrbayes-3.2.7a/doc/Makefile.in:166: first=`echo "$$dir1" | sed -e "$$sed_first"`; \
mrbayes-3.2.7a/doc/Makefile.in-167- if test "$$first" != "."; then \
mrbayes-3.2.7a/doc/Makefile.in-168- if test "$$first" = ".."; then \
mrbayes-3.2.7a/doc/Makefile.in:169: dir2=`echo "$$dir0" | sed -e "$$sed_last"`/"$$dir2"; \
mrbayes-3.2.7a/doc/Makefile.in:170: dir0=`echo "$$dir0" | sed -e "$$sed_butlast"`; \
mrbayes-3.2.7a/doc/Makefile.in-171- else \
mrbayes-3.2.7a/doc/Makefile.in:172: first2=`echo "$$dir2" | sed -e "$$sed_first"`; \
mrbayes-3.2.7a/doc/Makefile.in-173- if test "$$first2" = "$$first"; then \
mrbayes-3.2.7a/doc/Makefile.in:174: dir2=`echo "$$dir2" | sed -e "$$sed_rest"`; \
mrbayes-3.2.7a/doc/Makefile.in-175- else \
##############################################
mrbayes-3.2.7a/doc/Makefile.in-180- fi; \
mrbayes-3.2.7a/doc/Makefile.in:181: dir1=`echo "$$dir1" | sed -e "$$sed_rest"`; \
mrbayes-3.2.7a/doc/Makefile.in-182- done; \
##############################################
mrbayes-3.2.7a/doc/Makefile.in-338- dot_seen=no; \
mrbayes-3.2.7a/doc/Makefile.in:339: target=`echo $@ | sed s/-recursive//`; \
mrbayes-3.2.7a/doc/Makefile.in-340- case "$@" in \
##############################################
mrbayes-3.2.7a/doc/Makefile.in-401-GTAGS:
mrbayes-3.2.7a/doc/Makefile.in:402: here=`$(am__cd) $(top_builddir) && pwd` \
mrbayes-3.2.7a/doc/Makefile.in-403- && $(am__cd) $(top_srcdir) \
##############################################
mrbayes-3.2.7a/doc/Makefile.in-424-distdir: $(DISTFILES)
mrbayes-3.2.7a/doc/Makefile.in:425: @srcdirstrip=`echo "$(srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
mrbayes-3.2.7a/doc/Makefile.in:426: topsrcdirstrip=`echo "$(top_srcdir)" | sed 's/[].[^$$\\*]/\\\\&/g'`; \
mrbayes-3.2.7a/doc/Makefile.in-427- list='$(DISTFILES)'; \
##############################################
mrbayes-3.2.7a/doc/Makefile.in-438- if test -d $$d/$$file; then \
mrbayes-3.2.7a/doc/Makefile.in:439: dir=`echo "/$$file" | sed -e 's,/[^/]*$$,,'`; \
mrbayes-3.2.7a/doc/Makefile.in-440- if test -d "$(distdir)/$$file"; then \
##############################################
mrbayes-3.2.7a/doc/manual/Makefile.in-50- { \
mrbayes-3.2.7a/doc/manual/Makefile.in:51: flg=`printf '%s\n' "$$flg" | sed "s/$$1.*$$//"`; \
mrbayes-3.2.7a/doc/manual/Makefile.in-52- }; \
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mrbayes-3.2.7a/doc/manual/src/Manual_MrBayes_v3.2.tex-93-workshops around the world, they have had to cope with absent-minded fathers, aloof visitors, and
mrbayes-3.2.7a/doc/manual/src/Manual_MrBayes_v3.2.tex:94:absent husbands. We realize that the childish enthusiasm we have shown when a new model resulted in
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mrbayes-3.2.7a/doc/manual/src/StatisticalMethods_Chapter.tex-40-
mrbayes-3.2.7a/doc/manual/src/StatisticalMethods_Chapter.tex:41:\section{Maximum likelihood and Bayesian estimation}\label{sec:2}Unlike the parsimony and distance methods,maximum likelihood and Bayesian inference take full advantage of the information contained in analignment of DNA sequences when estimating parameters of an evolutionary model. Both maximumlikelihood and Bayesian estimation rely on the likelihood function. The likelihood is proportional tothe probability of observing the data, conditioned on the parameters of the model:$$\ell(\mbox{Parameter}) = \mbox{Constant} \times \mbox{Prob}[\mbox{Data} | \mbox{Parameter}]$$where the constant is arbitrary. The probability of observing the data conditioned on specificparameter values is calculated using stochastic models. Details about how the likelihoodcan be calculated for an alignment of DNA or protein sequences can be found elsewhere (Felsenstein, 1981).Here, we have written the likelihoodfunction with only one parameter. However, for the models typically used in molecular evolution,there are many parameters.We make the notational change in what follows by denoting parameters with thegreek symbol $\theta$ and the data as $\mathbf{X}$ so that the likelihood function for multipleparameter models is$$\ell(\theta_1, \theta_2, \ldots, \theta_n) = K \times f(\mathbf{X} | \theta_1, \theta_2, \ldots,\theta_n)$$
mrbayes-3.2.7a/doc/manual/src/StatisticalMethods_Chapter.tex-42-where $K$ is the constant.
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mrbayes-3.2.7a/doc/manual/src/StatisticalMethods_Chapter.tex-793-a random variable drawn from a gamma distribution. This is commonly assumed in the literature, and gamma rate variation models are often denoted with
mrbayes-3.2.7a/doc/manual/src/StatisticalMethods_Chapter.tex:794:a `$\Gamma$'. We are assuming a mixture of rate variation models, so our models could be denoted something like `GTR+SS+$\Gamma$'. The modeling assumptions
mrbayes-3.2.7a/doc/manual/src/StatisticalMethods_Chapter.tex-795-we are making can be summarized in a table:
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