../../../include/openbabel/reaction.h:29:24: tr1/memory: No such file or directory In file included from cmlformat.cpp:22: ../../../include/openbabel/reaction.h:44: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:44: error: `shared_ptr' was not declared in this scope ../../../include/openbabel/reaction.h:44: error: template argument 1 is invalid ../../../include/openbabel/reaction.h:44: error: template argument 2 is invalid ../../../include/openbabel/reaction.h:44: error: expected unqualified-id before '>' token ../../../include/openbabel/reaction.h:45: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:45: error: `shared_ptr' was not declared in this scope ../../../include/openbabel/reaction.h:45: error: template argument 1 is invalid ../../../include/openbabel/reaction.h:45: error: template argument 2 is invalid ../../../include/openbabel/reaction.h:45: error: expected unqualified-id before '>' token ../../../include/openbabel/reaction.h:46: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:46: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:46: error: expected `;' before '<' token ../../../include/openbabel/reaction.h:47: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:47: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:47: error: expected `;' before '<' token ../../../include/openbabel/reaction.h:61: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:61: error: expected `,' or `...' before '<' token ../../../include/openbabel/reaction.h:62: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:64: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:64: error: expected `,' or `...' before '<' token ../../../include/openbabel/reaction.h:65: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:67: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:67: error: expected `,' or `...' before '<' token ../../../include/openbabel/reaction.h:68: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:70: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:70: error: expected `,' or `...' before '<' token ../../../include/openbabel/reaction.h:71: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:73: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:73: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:73: error: expected `;' before '<' token ../../../include/openbabel/reaction.h:80: error: expected `;' before "std" ../../../include/openbabel/reaction.h:80: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:80: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:80: error: expected `;' before '<' token ../../../include/openbabel/reaction.h:88: error: expected `;' before "std" ../../../include/openbabel/reaction.h:88: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:88: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:88: error: expected `;' before '<' token ../../../include/openbabel/reaction.h:91: error: expected `;' before "std" ../../../include/openbabel/reaction.h:91: error: `std::tr1' has not been declared ../../../include/openbabel/reaction.h:91: error: ISO C++ forbids declaration of `shared_ptr' with no type ../../../include/openbabel/reaction.h:91: error: expected `;' before '<' token ../../../include/openbabel/reaction.h:94: error: expected `;' before "std" ../../../include/openbabel/reaction.h: In member function `int OpenBabel::OBReaction::NumReactants() const': ../../../include/openbabel/reaction.h:56: error: `_reactants' was not declared in this scope ../../../include/openbabel/reaction.h: In member function `int OpenBabel::OBReaction::NumProducts() const': ../../../include/openbabel/reaction.h:59: error: `_products' was not declared in this scope ../../../include/openbabel/reaction.h: In member function `void OpenBabel::OBReaction::AddReactant(int)': ../../../include/openbabel/reaction.h:62: error: `_reactants' was not declared in this scope ../../../include/openbabel/reaction.h:62: error: `sp' was not declared in this scope ../../../include/openbabel/reaction.h: In member function `void OpenBabel::OBReaction::AddProduct(int)': ../../../include/openbabel/reaction.h:65: error: `_products' was not declared in this scope ../../../include/openbabel/reaction.h:65: error: `sp' was not declared in this scope ../../../include/openbabel/reaction.h: In member function `void OpenBabel::OBReaction::SetTransitionState(int)': ../../../include/openbabel/reaction.h:68: error: `_ts' was not declared in this scope ../../../include/openbabel/reaction.h:68: error: `sp' was not declared in this scope ../../../include/openbabel/reaction.h: In member function `void OpenBabel::OBReaction::AddAgent(int)': ../../../include/openbabel/reaction.h:71: error: `_agent' was not declared in this scope ../../../include/openbabel/reaction.h:71: error: `sp' was not declared in this scope make[5]: *** [cmlformat.lo] Fehler 1 make[5]: Leaving directory `/var/tmp/portage/sci-chemistry/openbabel-2.2.0_beta4/work/openbabel-2.2.0b4/src/formats/xml' make[4]: *** [all-recursive] Fehler 1 make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/openbabel-2.2.0_beta4/work/openbabel-2.2.0b4/src/formats' make[3]: *** [all] Fehler 2 make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/openbabel-2.2.0_beta4/work/openbabel-2.2.0b4/src/formats' make[2]: *** [all-recursive] Fehler 1 make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/openbabel-2.2.0_beta4/work/openbabel-2.2.0b4/src' make[1]: *** [all] Fehler 2 make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/openbabel-2.2.0_beta4/work/openbabel-2.2.0b4/src' make: *** [all-recursive] Fehler 1 * * ERROR: sci-chemistry/openbabel-2.2.0_beta4 failed. * Call stack: * ebuild.sh, line 49: Called src_compile * environment, line 107: Called die * The specific snippet of code: * emake || die "emake failed"; * The die message: * emake failed * * If you need support, post the topmost build error, and the call stack if relevant. * A complete build log is located at '/var/log/portage/sci-chemistry:openbabel-2.2.0_beta4:20080314-073215.log'. * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/openbabel-2.2.0_beta4/temp/environment'. * Reproducible: Always Steps to Reproduce: 1. emerge -v ci-chemistry/openbabel-2.2.0_beta4 2. 3. Portage 2.1.4.4 (default-linux/x86/2007.0/desktop, gcc-3.4.6, glibc-2.6.1-r0, 2.6.23-gentoo-r3 i686) ================================================================= System uname: 2.6.23-gentoo-r3 i686 AMD Athlon(tm) XP 1500+ Timestamp of tree: Thu, 13 Mar 2008 17:47:01 +0000 distcc 2.18.3 i686-pc-linux-gnu (protocols 1 and 2) (default port 3632) [disabled] ccache version 2.4 [disabled] app-shells/bash: 3.2_p17-r1 dev-java/java-config: 1.3.7, 2.1.4 dev-lang/python: 2.4.4-r9, 2.5.1-r5 dev-python/pycrypto: 2.0.1-r6 dev-util/ccache: 2.4-r7 sys-apps/baselayout: 1.12.11.1 sys-apps/sandbox: 1.2.18.1-r2 sys-devel/autoconf: 2.13, 2.61-r1 sys-devel/automake: 1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10 sys-devel/binutils: 2.18-r1 sys-devel/gcc-config: 1.4.0-r4 sys-devel/libtool: 1.5.26 virtual/os-headers: 2.6.23-r3 ACCEPT_KEYWORDS="x86" CBUILD="i686-pc-linux-gnu" CFLAGS="-march=athlon-xp -O3 -pipe -fomit-frame-pointer" CHOST="i686-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/kde/3.5/env /usr/kde/3.5/share/config /usr/kde/3.5/shutdown /usr/share/config" CONFIG_PROTECT_MASK="/etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/revdep-rebuild /etc/splash /etc/terminfo /etc/texmf/web2c /etc/udev/rules.d" CXXFLAGS="-march=athlon-xp -O3 -pipe -fomit-frame-pointer" DISTDIR="/usr/portage/distfiles" FEATURES="distlocks metadata-transfer parallel-fetch sandbox sfperms strict unmerge-orphans userfetch userpriv usersandbox" GENTOO_MIRRORS="ftp://ftp.belnet.be/mirror/rsync.gentoo.org/gentoo/ ftp://ftp.easynet.nl/mirror/gentoo/ http://distfiles.gentoo.org http://www.ibiblio.org/pub/Linux/distributions/gentoo" LANG="de_DE.utf8" LC_ALL="en_US.utf8" LINGUAS="de en sv" MAKEOPTS="-j1" PKGDIR="/usr/portage/packages" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --compress --force --whole-file --delete --stats --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages" PORTAGE_TMPDIR="/var/tmp" PORTDIR="/usr/portage" PORTDIR_OVERLAY="/usr/local/portage" SYNC="rsync://rsync.europe.gentoo.org/gentoo-portage" USE="X aalib accessibility acl acpi additions alsa apbs asf autodock bash-completion berkdb bluetooth bzip2 cairo catalogs cdparanoia cdr cealign cli colorama cpudetection cracklib crypt css cups curl dbus dga divx4linux dlloader dri dvd dvdr dvdread dynmap edl eds emboss emovie encode esd evo exif fam fbcon ffmpeg firefox flac foomaticdb fortran gdbm gif gimp glitz gpm gstreamer gtk hal helicheck iconv imagemagick ipv6 isdnlog java jpeg jpeg2k kde kerberos ldap live lm_sensors logitech-mouse logrotate lzo mad madwifi matroska midi mikmod mmx mp3 mpeg mpi mudflap musepack musicbrainz ncurses network nis nls nptl nptlonly nsplugin nvidia ogg opengl openmp oss pam pcre pda pdf perl png ppds pppd promol python qt3 qt3support qt4 quicktime readline real reflection rendering resicolor rtc rtools samba scanner sdl session sms sndfile spell spl sse sse2 ssl svg svga tcpd theora tiff tk transcode truetype udev unicode usb utempter v4l v4l2 vcd vorbis win32codecs x86 xine xinerama xml xorg xv xvid zlib" ALSA_CARDS="via82xx" ALSA_PCM_PLUGINS="adpcm alaw asym copy dmix dshare dsnoop empty extplug file hooks iec958 ioplug ladspa lfloat linear meter mulaw multi null plug rate route share shm softvol" APACHE2_MODULES="actions alias auth_basic authn_alias authn_anon authn_dbm authn_default authn_file authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache dav dav_fs dav_lock deflate dir disk_cache env expires ext_filter file_cache filter headers include info log_config logio mem_cache mime mime_magic negotiation rewrite setenvif speling status unique_id userdir usertrack vhost_alias" ELIBC="glibc" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="de en sv" USERLAND="GNU" VIDEO_CARDS="r128 vesa fbdev nvidia nv" Unset: CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LDFLAGS, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
See http://www.gentoo.org/doc/en/gcc-upgrading.xml and upgrade to a supported gcc version; thanks.
Thanks, rebuilding the system right now ;-) I'll report and close the bug if that was the cause. regards Bjoern
jupp, works with up to date gcc... SOLVED
