From a2a7ad463448871a6e20bef7873ed797ccc1f269 Mon Sep 17 00:00:00 2001 From: sam217pa Date: Tue, 16 May 2017 15:26:16 +0200 Subject: [PATCH] switched to autoreconf --- .gitignore | 1 + AUTHORS | 1 + ChangeLog | 3 + NEWS | 0 configure | 247 ++++++++++++++++++++- configure.ac | 8 +- examples/Makefile.am | 2 + install-sh | 502 ++++++++++++++++++++++++++++++++++++++++++- 8 files changed, 760 insertions(+), 4 deletions(-) create mode 100644 AUTHORS create mode 100644 ChangeLog create mode 100644 NEWS create mode 100644 examples/Makefile.am mode change 120000 => 100755 install-sh diff --git a/.gitignore b/.gitignore index 7769fe1..a199401 100644 --- a/.gitignore +++ b/.gitignore @@ -10,3 +10,4 @@ autom4te.cache/ /depcomp src/.deps/ /src/prokgc +/examples/Makefile diff --git a/AUTHORS b/AUTHORS new file mode 100644 index 0000000..ae68fcb --- /dev/null +++ b/AUTHORS @@ -0,0 +1 @@ +Samuel Barreto first version of all files except kseq.h of course \ No newline at end of file diff --git a/ChangeLog b/ChangeLog new file mode 100644 index 0000000..f93b751 --- /dev/null +++ b/ChangeLog @@ -0,0 +1,3 @@ +2017-05-16 Samuel Barreto + + * first version of program diff --git a/NEWS b/NEWS new file mode 100644 index 0000000..e69de29 diff --git a/configure b/configure index e6dd4b5..7d42976 100755 --- a/configure +++ b/configure @@ -1692,6 +1692,60 @@ $as_echo "$ac_res" >&6; } eval $as_lineno_stack; ${as_lineno_stack:+:} unset as_lineno } # ac_fn_c_check_header_compile + +# ac_fn_c_check_type LINENO TYPE VAR INCLUDES +# ------------------------------------------- +# Tests whether TYPE exists after having included INCLUDES, setting cache +# variable VAR accordingly. +ac_fn_c_check_type () +{ + as_lineno=${as_lineno-"$1"} as_lineno_stack=as_lineno_stack=$as_lineno_stack + { $as_echo "$as_me:${as_lineno-$LINENO}: checking for $2" >&5 +$as_echo_n "checking for $2... " >&6; } +if eval \${$3+:} false; then : + $as_echo_n "(cached) " >&6 +else + eval "$3=no" + cat confdefs.h - <<_ACEOF >conftest.$ac_ext +/* end confdefs.h. */ +$4 +int +main () +{ +if (sizeof ($2)) + return 0; + ; + return 0; +} +_ACEOF +if ac_fn_c_try_compile "$LINENO"; then : + cat confdefs.h - <<_ACEOF >conftest.$ac_ext +/* end confdefs.h. */ +$4 +int +main () +{ +if (sizeof (($2))) + return 0; + ; + return 0; +} +_ACEOF +if ac_fn_c_try_compile "$LINENO"; then : + +else + eval "$3=yes" +fi +rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext +fi +rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext +fi +eval ac_res=\$$3 + { $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_res" >&5 +$as_echo "$ac_res" >&6; } + eval $as_lineno_stack; ${as_lineno_stack:+:} unset as_lineno + +} # ac_fn_c_check_type cat >config.log <<_ACEOF This file contains any messages produced by compilers while running configure, to aid debugging if configure makes a mistake. @@ -2045,7 +2099,7 @@ ac_compiler_gnu=$ac_cv_c_compiler_gnu -ac_config_files="$ac_config_files Makefile src/Makefile examples/Makefile" +ac_config_files="$ac_config_files Makefile examples/Makefile src/Makefile" am__api_version='1.15' @@ -4325,8 +4379,197 @@ done # Checks for typedefs, structures, and compiler characteristics. +{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for inline" >&5 +$as_echo_n "checking for inline... " >&6; } +if ${ac_cv_c_inline+:} false; then : + $as_echo_n "(cached) " >&6 +else + ac_cv_c_inline=no +for ac_kw in inline __inline__ __inline; do + cat confdefs.h - <<_ACEOF >conftest.$ac_ext +/* end confdefs.h. */ +#ifndef __cplusplus +typedef int foo_t; +static $ac_kw foo_t static_foo () {return 0; } +$ac_kw foo_t foo () {return 0; } +#endif + +_ACEOF +if ac_fn_c_try_compile "$LINENO"; then : + ac_cv_c_inline=$ac_kw +fi +rm -f core conftest.err conftest.$ac_objext conftest.$ac_ext + test "$ac_cv_c_inline" != no && break +done + +fi +{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_c_inline" >&5 +$as_echo "$ac_cv_c_inline" >&6; } + +case $ac_cv_c_inline in + inline | yes) ;; + *) + case $ac_cv_c_inline in + no) ac_val=;; + *) ac_val=$ac_cv_c_inline;; + esac + cat >>confdefs.h <<_ACEOF +#ifndef __cplusplus +#define inline $ac_val +#endif +_ACEOF + ;; +esac + +ac_fn_c_check_type "$LINENO" "size_t" "ac_cv_type_size_t" "$ac_includes_default" +if test "x$ac_cv_type_size_t" = xyes; then : + +else + +cat >>confdefs.h <<_ACEOF +#define size_t unsigned int +_ACEOF + +fi + # Checks for library functions. +for ac_header in stdlib.h +do : + ac_fn_c_check_header_mongrel "$LINENO" "stdlib.h" "ac_cv_header_stdlib_h" "$ac_includes_default" +if test "x$ac_cv_header_stdlib_h" = xyes; then : + cat >>confdefs.h <<_ACEOF +#define HAVE_STDLIB_H 1 +_ACEOF + +fi + +done + +{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for GNU libc compatible malloc" >&5 +$as_echo_n "checking for GNU libc compatible malloc... " >&6; } +if ${ac_cv_func_malloc_0_nonnull+:} false; then : + $as_echo_n "(cached) " >&6 +else + if test "$cross_compiling" = yes; then : + ac_cv_func_malloc_0_nonnull=no +else + cat confdefs.h - <<_ACEOF >conftest.$ac_ext +/* end confdefs.h. */ +#if defined STDC_HEADERS || defined HAVE_STDLIB_H +# include +#else +char *malloc (); +#endif + +int +main () +{ +return ! malloc (0); + ; + return 0; +} +_ACEOF +if ac_fn_c_try_run "$LINENO"; then : + ac_cv_func_malloc_0_nonnull=yes +else + ac_cv_func_malloc_0_nonnull=no +fi +rm -f core *.core core.conftest.* gmon.out bb.out conftest$ac_exeext \ + conftest.$ac_objext conftest.beam conftest.$ac_ext +fi + +fi +{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_func_malloc_0_nonnull" >&5 +$as_echo "$ac_cv_func_malloc_0_nonnull" >&6; } +if test $ac_cv_func_malloc_0_nonnull = yes; then : + +$as_echo "#define HAVE_MALLOC 1" >>confdefs.h + +else + $as_echo "#define HAVE_MALLOC 0" >>confdefs.h + + case " $LIBOBJS " in + *" malloc.$ac_objext "* ) ;; + *) LIBOBJS="$LIBOBJS malloc.$ac_objext" + ;; +esac + + +$as_echo "#define malloc rpl_malloc" >>confdefs.h + +fi + + +for ac_header in stdlib.h +do : + ac_fn_c_check_header_mongrel "$LINENO" "stdlib.h" "ac_cv_header_stdlib_h" "$ac_includes_default" +if test "x$ac_cv_header_stdlib_h" = xyes; then : + cat >>confdefs.h <<_ACEOF +#define HAVE_STDLIB_H 1 +_ACEOF + +fi + +done + +{ $as_echo "$as_me:${as_lineno-$LINENO}: checking for GNU libc compatible realloc" >&5 +$as_echo_n "checking for GNU libc compatible realloc... " >&6; } +if ${ac_cv_func_realloc_0_nonnull+:} false; then : + $as_echo_n "(cached) " >&6 +else + if test "$cross_compiling" = yes; then : + ac_cv_func_realloc_0_nonnull=no +else + cat confdefs.h - <<_ACEOF >conftest.$ac_ext +/* end confdefs.h. */ +#if defined STDC_HEADERS || defined HAVE_STDLIB_H +# include +#else +char *realloc (); +#endif + +int +main () +{ +return ! realloc (0, 0); + ; + return 0; +} +_ACEOF +if ac_fn_c_try_run "$LINENO"; then : + ac_cv_func_realloc_0_nonnull=yes +else + ac_cv_func_realloc_0_nonnull=no +fi +rm -f core *.core core.conftest.* gmon.out bb.out conftest$ac_exeext \ + conftest.$ac_objext conftest.beam conftest.$ac_ext +fi + +fi +{ $as_echo "$as_me:${as_lineno-$LINENO}: result: $ac_cv_func_realloc_0_nonnull" >&5 +$as_echo "$ac_cv_func_realloc_0_nonnull" >&6; } +if test $ac_cv_func_realloc_0_nonnull = yes; then : + +$as_echo "#define HAVE_REALLOC 1" >>confdefs.h + +else + $as_echo "#define HAVE_REALLOC 0" >>confdefs.h + + case " $LIBOBJS " in + *" realloc.$ac_objext "* ) ;; + *) LIBOBJS="$LIBOBJS realloc.$ac_objext" + ;; +esac + + +$as_echo "#define realloc rpl_realloc" >>confdefs.h + +fi + + + + cat >confcache <<\_ACEOF # This file is a shell script that caches the results of configure @@ -5070,8 +5313,8 @@ for ac_config_target in $ac_config_targets do case $ac_config_target in "Makefile") CONFIG_FILES="$CONFIG_FILES Makefile" ;; - "src/Makefile") CONFIG_FILES="$CONFIG_FILES src/Makefile" ;; "examples/Makefile") CONFIG_FILES="$CONFIG_FILES examples/Makefile" ;; + "src/Makefile") CONFIG_FILES="$CONFIG_FILES src/Makefile" ;; "depfiles") CONFIG_COMMANDS="$CONFIG_COMMANDS depfiles" ;; *) as_fn_error $? "invalid argument: \`$ac_config_target'" "$LINENO" 5;; diff --git a/configure.ac b/configure.ac index 2a887cc..3b05e4a 100644 --- a/configure.ac +++ b/configure.ac @@ -4,7 +4,7 @@ AC_PREREQ([2.69]) AC_INIT(prokgc, 0.0.1, samuel.barreto8@gmail.com) AC_CONFIG_SRCDIR([src/prokgc.c]) -AC_CONFIG_FILES([Makefile] [src/Makefile] [examples/Makefile]) +AC_CONFIG_FILES([Makefile examples/Makefile src/Makefile]) AM_INIT_AUTOMAKE : ${CFLAGS="-g -Wall -O3 -std=gnu99"} @@ -18,7 +18,13 @@ PKG_CHECK_MODULES([DEPS], [glib-2.0 >= 2.50.0]) AC_CHECK_HEADERS([stdlib.h string.h]) # Checks for typedefs, structures, and compiler characteristics. +AC_C_INLINE +AC_TYPE_SIZE_T # Checks for library functions. +AC_FUNC_MALLOC +AC_FUNC_REALLOC + + AC_OUTPUT diff --git a/examples/Makefile.am b/examples/Makefile.am new file mode 100644 index 0000000..95237b3 --- /dev/null +++ b/examples/Makefile.am @@ -0,0 +1,2 @@ +example.csv: + prokgc --cds example_cds.fasta --genome example_genome.fasta --taxid 1234 diff --git a/install-sh b/install-sh deleted file mode 120000 index 5d7716a..0000000 --- a/install-sh +++ /dev/null @@ -1 +0,0 @@ -/usr/local/Cellar/automake/1.15/share/automake-1.15/install-sh \ No newline at end of file diff --git a/install-sh b/install-sh new file mode 100755 index 0000000..0b0fdcb --- /dev/null +++ b/install-sh @@ -0,0 +1,501 @@ +#!/bin/sh +# install - install a program, script, or datafile + +scriptversion=2013-12-25.23; # UTC + +# This originates from X11R5 (mit/util/scripts/install.sh), which was +# later released in X11R6 (xc/config/util/install.sh) with the +# following copyright and license. +# +# Copyright (C) 1994 X Consortium +# +# Permission is hereby granted, free of charge, to any person obtaining a copy +# of this software and associated documentation files (the "Software"), to +# deal in the Software without restriction, including without limitation the +# rights to use, copy, modify, merge, publish, distribute, sublicense, and/or +# sell copies of the Software, and to permit persons to whom the Software is +# furnished to do so, subject to the following conditions: +# +# The above copyright notice and this permission notice shall be included in +# all copies or substantial portions of the Software. +# +# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +# X CONSORTIUM BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN +# AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNEC- +# TION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. +# +# Except as contained in this notice, the name of the X Consortium shall not +# be used in advertising or otherwise to promote the sale, use or other deal- +# ings in this Software without prior written authorization from the X Consor- +# tium. +# +# +# FSF changes to this file are in the public domain. +# +# Calling this script install-sh is preferred over install.sh, to prevent +# 'make' implicit rules from creating a file called install from it +# when there is no Makefile. +# +# This script is compatible with the BSD install script, but was written +# from scratch. + +tab=' ' +nl=' +' +IFS=" $tab$nl" + +# Set DOITPROG to "echo" to test this script. + +doit=${DOITPROG-} +doit_exec=${doit:-exec} + +# Put in absolute file names if you don't have them in your path; +# or use environment vars. + +chgrpprog=${CHGRPPROG-chgrp} +chmodprog=${CHMODPROG-chmod} +chownprog=${CHOWNPROG-chown} +cmpprog=${CMPPROG-cmp} +cpprog=${CPPROG-cp} +mkdirprog=${MKDIRPROG-mkdir} +mvprog=${MVPROG-mv} +rmprog=${RMPROG-rm} +stripprog=${STRIPPROG-strip} + +posix_mkdir= + +# Desired mode of installed file. +mode=0755 + +chgrpcmd= +chmodcmd=$chmodprog +chowncmd= +mvcmd=$mvprog +rmcmd="$rmprog -f" +stripcmd= + +src= +dst= +dir_arg= +dst_arg= + +copy_on_change=false +is_target_a_directory=possibly + +usage="\ +Usage: $0 [OPTION]... [-T] SRCFILE DSTFILE + or: $0 [OPTION]... SRCFILES... DIRECTORY + or: $0 [OPTION]... -t DIRECTORY SRCFILES... + or: $0 [OPTION]... -d DIRECTORIES... + +In the 1st form, copy SRCFILE to DSTFILE. +In the 2nd and 3rd, copy all SRCFILES to DIRECTORY. +In the 4th, create DIRECTORIES. + +Options: + --help display this help and exit. + --version display version info and exit. + + -c (ignored) + -C install only if different (preserve the last data modification time) + -d create directories instead of installing files. + -g GROUP $chgrpprog installed files to GROUP. + -m MODE $chmodprog installed files to MODE. + -o USER $chownprog installed files to USER. + -s $stripprog installed files. + -t DIRECTORY install into DIRECTORY. + -T report an error if DSTFILE is a directory. + +Environment variables override the default commands: + CHGRPPROG CHMODPROG CHOWNPROG CMPPROG CPPROG MKDIRPROG MVPROG + RMPROG STRIPPROG +" + +while test $# -ne 0; do + case $1 in + -c) ;; + + -C) copy_on_change=true;; + + -d) dir_arg=true;; + + -g) chgrpcmd="$chgrpprog $2" + shift;; + + --help) echo "$usage"; exit $?;; + + -m) mode=$2 + case $mode in + *' '* | *"$tab"* | *"$nl"* | *'*'* | *'?'* | *'['*) + echo "$0: invalid mode: $mode" >&2 + exit 1;; + esac + shift;; + + -o) chowncmd="$chownprog $2" + shift;; + + -s) stripcmd=$stripprog;; + + -t) + is_target_a_directory=always + dst_arg=$2 + # Protect names problematic for 'test' and other utilities. + case $dst_arg in + -* | [=\(\)!]) dst_arg=./$dst_arg;; + esac + shift;; + + -T) is_target_a_directory=never;; + + --version) echo "$0 $scriptversion"; exit $?;; + + --) shift + break;; + + -*) echo "$0: invalid option: $1" >&2 + exit 1;; + + *) break;; + esac + shift +done + +# We allow the use of options -d and -T together, by making -d +# take the precedence; this is for compatibility with GNU install. + +if test -n "$dir_arg"; then + if test -n "$dst_arg"; then + echo "$0: target directory not allowed when installing a directory." >&2 + exit 1 + fi +fi + +if test $# -ne 0 && test -z "$dir_arg$dst_arg"; then + # When -d is used, all remaining arguments are directories to create. + # When -t is used, the destination is already specified. + # Otherwise, the last argument is the destination. Remove it from $@. + for arg + do + if test -n "$dst_arg"; then + # $@ is not empty: it contains at least $arg. + set fnord "$@" "$dst_arg" + shift # fnord + fi + shift # arg + dst_arg=$arg + # Protect names problematic for 'test' and other utilities. + case $dst_arg in + -* | [=\(\)!]) dst_arg=./$dst_arg;; + esac + done +fi + +if test $# -eq 0; then + if test -z "$dir_arg"; then + echo "$0: no input file specified." >&2 + exit 1 + fi + # It's OK to call 'install-sh -d' without argument. + # This can happen when creating conditional directories. + exit 0 +fi + +if test -z "$dir_arg"; then + if test $# -gt 1 || test "$is_target_a_directory" = always; then + if test ! -d "$dst_arg"; then + echo "$0: $dst_arg: Is not a directory." >&2 + exit 1 + fi + fi +fi + +if test -z "$dir_arg"; then + do_exit='(exit $ret); exit $ret' + trap "ret=129; $do_exit" 1 + trap "ret=130; $do_exit" 2 + trap "ret=141; $do_exit" 13 + trap "ret=143; $do_exit" 15 + + # Set umask so as not to create temps with too-generous modes. + # However, 'strip' requires both read and write access to temps. + case $mode in + # Optimize common cases. + *644) cp_umask=133;; + *755) cp_umask=22;; + + *[0-7]) + if test -z "$stripcmd"; then + u_plus_rw= + else + u_plus_rw='% 200' + fi + cp_umask=`expr '(' 777 - $mode % 1000 ')' $u_plus_rw`;; + *) + if test -z "$stripcmd"; then + u_plus_rw= + else + u_plus_rw=,u+rw + fi + cp_umask=$mode$u_plus_rw;; + esac +fi + +for src +do + # Protect names problematic for 'test' and other utilities. + case $src in + -* | [=\(\)!]) src=./$src;; + esac + + if test -n "$dir_arg"; then + dst=$src + dstdir=$dst + test -d "$dstdir" + dstdir_status=$? + else + + # Waiting for this to be detected by the "$cpprog $src $dsttmp" command + # might cause directories to be created, which would be especially bad + # if $src (and thus $dsttmp) contains '*'. + if test ! -f "$src" && test ! -d "$src"; then + echo "$0: $src does not exist." >&2 + exit 1 + fi + + if test -z "$dst_arg"; then + echo "$0: no destination specified." >&2 + exit 1 + fi + dst=$dst_arg + + # If destination is a directory, append the input filename; won't work + # if double slashes aren't ignored. + if test -d "$dst"; then + if test "$is_target_a_directory" = never; then + echo "$0: $dst_arg: Is a directory" >&2 + exit 1 + fi + dstdir=$dst + dst=$dstdir/`basename "$src"` + dstdir_status=0 + else + dstdir=`dirname "$dst"` + test -d "$dstdir" + dstdir_status=$? + fi + fi + + obsolete_mkdir_used=false + + if test $dstdir_status != 0; then + case $posix_mkdir in + '') + # Create intermediate dirs using mode 755 as modified by the umask. + # This is like FreeBSD 'install' as of 1997-10-28. + umask=`umask` + case $stripcmd.$umask in + # Optimize common cases. + *[2367][2367]) mkdir_umask=$umask;; + .*0[02][02] | .[02][02] | .[02]) mkdir_umask=22;; + + *[0-7]) + mkdir_umask=`expr $umask + 22 \ + - $umask % 100 % 40 + $umask % 20 \ + - $umask % 10 % 4 + $umask % 2 + `;; + *) mkdir_umask=$umask,go-w;; + esac + + # With -d, create the new directory with the user-specified mode. + # Otherwise, rely on $mkdir_umask. + if test -n "$dir_arg"; then + mkdir_mode=-m$mode + else + mkdir_mode= + fi + + posix_mkdir=false + case $umask in + *[123567][0-7][0-7]) + # POSIX mkdir -p sets u+wx bits regardless of umask, which + # is incompatible with FreeBSD 'install' when (umask & 300) != 0. + ;; + *) + tmpdir=${TMPDIR-/tmp}/ins$RANDOM-$$ + trap 'ret=$?; rmdir "$tmpdir/d" "$tmpdir" 2>/dev/null; exit $ret' 0 + + if (umask $mkdir_umask && + exec $mkdirprog $mkdir_mode -p -- "$tmpdir/d") >/dev/null 2>&1 + then + if test -z "$dir_arg" || { + # Check for POSIX incompatibilities with -m. + # HP-UX 11.23 and IRIX 6.5 mkdir -m -p sets group- or + # other-writable bit of parent directory when it shouldn't. + # FreeBSD 6.1 mkdir -m -p sets mode of existing directory. + ls_ld_tmpdir=`ls -ld "$tmpdir"` + case $ls_ld_tmpdir in + d????-?r-*) different_mode=700;; + d????-?--*) different_mode=755;; + *) false;; + esac && + $mkdirprog -m$different_mode -p -- "$tmpdir" && { + ls_ld_tmpdir_1=`ls -ld "$tmpdir"` + test "$ls_ld_tmpdir" = "$ls_ld_tmpdir_1" + } + } + then posix_mkdir=: + fi + rmdir "$tmpdir/d" "$tmpdir" + else + # Remove any dirs left behind by ancient mkdir implementations. + rmdir ./$mkdir_mode ./-p ./-- 2>/dev/null + fi + trap '' 0;; + esac;; + esac + + if + $posix_mkdir && ( + umask $mkdir_umask && + $doit_exec $mkdirprog $mkdir_mode -p -- "$dstdir" + ) + then : + else + + # The umask is ridiculous, or mkdir does not conform to POSIX, + # or it failed possibly due to a race condition. Create the + # directory the slow way, step by step, checking for races as we go. + + case $dstdir in + /*) prefix='/';; + [-=\(\)!]*) prefix='./';; + *) prefix='';; + esac + + oIFS=$IFS + IFS=/ + set -f + set fnord $dstdir + shift + set +f + IFS=$oIFS + + prefixes= + + for d + do + test X"$d" = X && continue + + prefix=$prefix$d + if test -d "$prefix"; then + prefixes= + else + if $posix_mkdir; then + (umask=$mkdir_umask && + $doit_exec $mkdirprog $mkdir_mode -p -- "$dstdir") && break + # Don't fail if two instances are running concurrently. + test -d "$prefix" || exit 1 + else + case $prefix in + *\'*) qprefix=`echo "$prefix" | sed "s/'/'\\\\\\\\''/g"`;; + *) qprefix=$prefix;; + esac + prefixes="$prefixes '$qprefix'" + fi + fi + prefix=$prefix/ + done + + if test -n "$prefixes"; then + # Don't fail if two instances are running concurrently. + (umask $mkdir_umask && + eval "\$doit_exec \$mkdirprog $prefixes") || + test -d "$dstdir" || exit 1 + obsolete_mkdir_used=true + fi + fi + fi + + if test -n "$dir_arg"; then + { test -z "$chowncmd" || $doit $chowncmd "$dst"; } && + { test -z "$chgrpcmd" || $doit $chgrpcmd "$dst"; } && + { test "$obsolete_mkdir_used$chowncmd$chgrpcmd" = false || + test -z "$chmodcmd" || $doit $chmodcmd $mode "$dst"; } || exit 1 + else + + # Make a couple of temp file names in the proper directory. + dsttmp=$dstdir/_inst.$$_ + rmtmp=$dstdir/_rm.$$_ + + # Trap to clean up those temp files at exit. + trap 'ret=$?; rm -f "$dsttmp" "$rmtmp" && exit $ret' 0 + + # Copy the file name to the temp name. + (umask $cp_umask && $doit_exec $cpprog "$src" "$dsttmp") && + + # and set any options; do chmod last to preserve setuid bits. + # + # If any of these fail, we abort the whole thing. If we want to + # ignore errors from any of these, just make sure not to ignore + # errors from the above "$doit $cpprog $src $dsttmp" command. + # + { test -z "$chowncmd" || $doit $chowncmd "$dsttmp"; } && + { test -z "$chgrpcmd" || $doit $chgrpcmd "$dsttmp"; } && + { test -z "$stripcmd" || $doit $stripcmd "$dsttmp"; } && + { test -z "$chmodcmd" || $doit $chmodcmd $mode "$dsttmp"; } && + + # If -C, don't bother to copy if it wouldn't change the file. + if $copy_on_change && + old=`LC_ALL=C ls -dlL "$dst" 2>/dev/null` && + new=`LC_ALL=C ls -dlL "$dsttmp" 2>/dev/null` && + set -f && + set X $old && old=:$2:$4:$5:$6 && + set X $new && new=:$2:$4:$5:$6 && + set +f && + test "$old" = "$new" && + $cmpprog "$dst" "$dsttmp" >/dev/null 2>&1 + then + rm -f "$dsttmp" + else + # Rename the file to the real destination. + $doit $mvcmd -f "$dsttmp" "$dst" 2>/dev/null || + + # The rename failed, perhaps because mv can't rename something else + # to itself, or perhaps because mv is so ancient that it does not + # support -f. + { + # Now remove or move aside any old file at destination location. + # We try this two ways since rm can't unlink itself on some + # systems and the destination file might be busy for other + # reasons. In this case, the final cleanup might fail but the new + # file should still install successfully. + { + test ! -f "$dst" || + $doit $rmcmd -f "$dst" 2>/dev/null || + { $doit $mvcmd -f "$dst" "$rmtmp" 2>/dev/null && + { $doit $rmcmd -f "$rmtmp" 2>/dev/null; :; } + } || + { echo "$0: cannot unlink or rename $dst" >&2 + (exit 1); exit 1 + } + } && + + # Now rename the file to the real destination. + $doit $mvcmd "$dsttmp" "$dst" + } + fi || exit 1 + + trap '' 0 + fi +done + +# Local variables: +# eval: (add-hook 'write-file-hooks 'time-stamp) +# time-stamp-start: "scriptversion=" +# time-stamp-format: "%:y-%02m-%02d.%02H" +# time-stamp-time-zone: "UTC" +# time-stamp-end: "; # UTC" +# End: