Bug 536406 – sci-libs/openmm-5.0.1-r2 - openmm-5.0.1-r2/work/openmm-5.0.1_build: /usr/lib/gcc/x86_64-pc-linux-gnu/4.8.3/../../../../x86_64-pc-linux-gnu/bin/ld: cannot find -lOpenMMOpenCL

• Status: RESOLVED WONTFIX
• Product: Gentoo Linux

[Description Toralf Förster 2015-01-12 14:23:34 UTC]

Created attachment 393794 [details]
emerge log

stable chroot:


CMakeFiles/OpenMMRPMDOpenCL.dir/src/OpenCLRpmdKernelFactory.cpp.o CMakeFiles/OpenMMRPMDOpenCL.dir/src/OpenCLRpmdKernels.cpp.o CMakeFiles/OpenMMRPMDOpenCL.dir/src/OpenCLRpmdKernelSources.cpp.o ../../../../libOpenMM.so -lOpenCL -lpthread -lOpenMMOpenCL ../../../../libOpenMMRPMD.so ../../../../libOpenMM.so -ldl -Wl,-rpath,/var/tmp/portage/sci-libs/openmm-5.0.1-r2/work/openmm-5.0.1_build: 
/usr/lib/gcc/x86_64-pc-linux-gnu/4.8.3/../../../../x86_64-pc-linux-gnu/bin/ld: cannot find -lOpenMMOpenCL
collect2: error: ld returned 1 exit status
plugins/rpmd/platforms/opencl/CMakeFiles/OpenMMRPMDOpenCL.dir/build.make:150: recipe for target 'libOpenMMRPMDOpenCL.so' failed
make[2]: *** [libOpenMMRPMDOpenCL.so] Error 1
make[2]: Leaving directory '/var/tmp/portage/sci-libs/openmm-5.0.1-r2/work/openmm-5.0.1_build'
CMakeFiles/Makefile2:2768: recipe for target 'plugins/rpmd/platforms/opencl/CMakeFiles/OpenMMRPMDOpenCL.dir/all' failed
make[1]: *** [plugins/rpmd/platforms/opencl/CMakeFiles/OpenMMRPMDOpenCL.dir/all] Error 2
make[1]: Leaving directory '/var/tmp/portage/sci-libs/openmm-5.0.1-r2/work/openmm-5.0.1_build'
Makefile:126: recipe for target 'all' failed
make: *** [all] Error 2
 * ERROR: sci-libs/openmm-5.0.1-r2::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-libs/openmm-5.0.1-r2::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-libs/openmm-5.0.1-r2::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-libs:openmm-5.0.1-r2:20150112-092725.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-libs/openmm-5.0.1-r2/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-libs/openmm-5.0.1-r2/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-libs/openmm-5.0.1-r2/work/openmm-5.0.1_build'
 * S: '/var/tmp/portage/sci-libs/openmm-5.0.1-r2/work/OpenMM5.0.1-Source'


This chroot image is located at a hardened amd64 host.

Portage 2.2.14 (python 2.7.9-final-0, default/linux/amd64/13.0, gcc-4.8.3, glibc-2.19-r1, 3.17.7-hardened-r1 x86_64)
=================================================================
System uname: Linux-3.17.7-hardened-r1-x86_64-Intel-R-_Core-TM-_i7-3770_CPU_@_3.40GHz-with-gentoo-2.2
KiB Mem:    16166924 total,   1479260 free
KiB Swap:   16777212 total,  16762492 free
Timestamp of tree: Mon, 12 Jan 2015 06:45:01 +0000
ld GNU ld (Gentoo 2.24 p1.4) 2.24
ccache version 3.1.9 [disabled]
app-shells/bash:          4.2_p53
dev-lang/perl:            5.18.2-r2
dev-lang/python:          2.7.9-r1, 3.3.5-r1
dev-util/ccache:          3.1.9-r4
dev-util/cmake:           2.8.12.2-r1
dev-util/pkgconfig:       0.28-r1
sys-apps/baselayout:      2.2
sys-apps/openrc:          0.12.4
sys-apps/sandbox:         2.6-r1
sys-devel/autoconf:       2.13, 2.69
sys-devel/automake:       1.11.6-r1, 1.13.4
sys-devel/binutils:       2.24-r3
sys-devel/gcc:            4.8.3
sys-devel/gcc-config:     1.7.3
sys-devel/libtool:        2.4.2-r1
sys-devel/make:           4.0-r1
sys-kernel/linux-headers: 3.16 (virtual/os-headers)
sys-libs/glibc:           2.19-r1
Repositories: gentoo
ACCEPT_KEYWORDS="amd64"
ACCEPT_LICENSE="*"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/games/angband/edit/ /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.5/ext-active/ /etc/php/cgi-php5.5/ext-active/ /etc/php/cli-php5.5/ext-active/ /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c"
CXXFLAGS="-O2 -pipe"
DISTDIR="/usr/portage/distfiles"
EMERGE_DEFAULT_OPTS="--nospinner --tree --quiet-build --deep --jobs 1"
FCFLAGS="-O2 -pipe"
FEATURES="assume-digests binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch preserve-libs protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync"
FFLAGS="-O2 -pipe"
GENTOO_MIRRORS="http://mirror.leaseweb.com/gentoo/ http://ftp.uni-erlangen.de/pub/mirrors/gentoo http://ftp-stud.hs-esslingen.de/pub/Mirrors/gentoo/ http://gd.tuwien.ac.at/opsys/linux/gentoo/"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
MAKEOPTS="-j1"
PKGDIR="/usr/portage/packages"
PORTAGE_CONFIGROOT="/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages"
PORTAGE_TMPDIR="/var/tmp"
PORTDIR="/usr/portage"
PORTDIR_OVERLAY=""
SYNC="rsync://rsync.de.gentoo.org/gentoo-portage"
USE="acl amd64 berkdb bindist bzip2 cli cracklib crypt cxx dri fortran gdbm iconv ipv6 mbox mmx modules multilib ncurses nls nptl openmp pam pax_kernel pcre readline session sse sse2 ssl tcpd unicode zlib" ABI_X86="64" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 cmipci emu10k1x ens1370 ens1371 es1938 es1968 fm801 hda-intel intel8x0 intel8x0m maestro3 trident usb-audio via82xx via82xx-modem ymfpci" APACHE2_MODULES="authn_core authz_core socache_shmcb unixd 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 cgi cgid 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" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump author" CAMERAS="ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" ELIBC="glibc" GPSD_PROTOCOLS="ashtech aivdm earthmate evermore fv18 garmin garmintxt gpsclock itrax mtk3301 nmea ntrip navcom oceanserver oldstyle oncore rtcm104v2 rtcm104v3 sirf superstar2 timing tsip tripmate tnt ublox ubx" INPUT_DEVICES="keyboard mouse evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-5" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_3" RUBY_TARGETS="ruby19 ruby20" USERLAND="GNU" VIDEO_CARDS="fbdev glint intel mach64 mga nouveau nv r128 radeon savage sis tdfx trident vesa via vmware dummy v4l" XTABLES_ADDONS="quota2 psd pknock lscan length2 ipv4options ipset ipp2p iface geoip fuzzy condition tee tarpit sysrq steal rawnat logmark ipmark dhcpmac delude chaos account"
Unset:  CPPFLAGS, CTARGET, INSTALL_MASK, LANG, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON

[Comment 1 Christoph Junghans (RETIRED) 2015-01-13 15:40:26 UTC]

Nothing in the tree uses OpenMM-5.0.1 anymore, maybe we should late rite it.

[Comment 2 Christoph Junghans (RETIRED) 2015-03-08 00:05:50 UTC]

# Christoph Junghans <[e-mail]> (7 Mar 2015)
# Fails to build (bug #536406); nothing in the tree uses it.
# Masked for removal in 30 days
sci-libs/openmm

[Comment 3 Christoph Junghans (RETIRED) 2015-04-03 16:57:16 UTC]

+  03 Apr 2015; Christoph Junghans <[e-mail]> package.mask:
+  sci-libs/openmm: removed (bug #536406)
+