-- Found Git: /usr/bin/git (found version "2.9.3") -- Boost version: 1.61.0 CMake Error at /usr/share/cmake/Modules/FindPackageHandleStandardArgs.cmake:148 (message): Could NOT find HDF5 (missing: HDF5_LIBRARIES HDF5_INCLUDE_DIRS HDF5_HL_LIBRARIES) Call Stack (most recent call first): $ cat emerge-info.txt ----------------------------------------------------------------- This is an unstable amd64 chroot image (named amd64-hardened-unstable_20160731-122656) at a hardened host acting as a tinderbox. ----------------------------------------------------------------- USE flags defined in ... ... make.conf: USE=" -openssl -gnutls libressl pax_kernel xtpax -cdinstall -oci8 -bindist use" ... /etc/portage/package.use/*: mail-mta/ssmtp ssl net-misc/wget ssl app-editors/emacs -dbus -svg -ssl -gtk -gtk3 dev-util/cmake -qt4 -qt5 net-misc/iputils -caps -filecaps unmasked packages in /etc/portage/package.unmask/*: ----------------------------------------------------------------- gcc-config -l: [1] x86_64-pc-linux-gnu-4.9.3 [2] x86_64-pc-linux-gnu-4.9.3-hardenednopie [3] x86_64-pc-linux-gnu-4.9.3-hardenednopiessp [4] x86_64-pc-linux-gnu-4.9.3-hardenednossp [5] x86_64-pc-linux-gnu-4.9.3-vanilla [6] x86_64-pc-linux-gnu-5.4.0 * [7] x86_64-pc-linux-gnu-5.4.0-hardenednopie [8] x86_64-pc-linux-gnu-5.4.0-hardenednopiessp [9] x86_64-pc-linux-gnu-5.4.0-hardenednossp [10] x86_64-pc-linux-gnu-5.4.0-vanilla Available Python interpreters, in order of preference: [1] python3.4 [2] python3.5 (fallback) [3] python2.7 (fallback) ----------------------------------------------------------------- Portage 2.3.0 (python 3.4.5-final-0, hardened/linux/amd64, gcc-5.4.0, glibc-2.23-r2, 4.7.0-hardened x86_64) ================================================================= System Settings ================================================================= System uname: Linux-4.7.0-hardened-x86_64-Intel-R-_Core-TM-_i7-3770_CPU_@_3.40GHz-with-gentoo-2.2 KiB Mem: 16156084 total, 2883548 free KiB Swap: 16777212 total, 16751416 free Timestamp of repository gentoo: Mon, 15 Aug 2016 06:04:07 +0000 sh bash 4.3_p46 ld GNU ld (Gentoo 2.26.1 p1.0) 2.26.1 distcc 3.2rc1 x86_64-pc-linux-gnu [disabled] ccache version 3.2.7 [disabled] app-shells/bash: 4.3_p46::gentoo dev-lang/perl: 5.24.0-r1::gentoo dev-lang/python: 2.7.12::gentoo, 3.4.5::gentoo, 3.5.2::gentoo dev-util/ccache: 3.2.7::gentoo dev-util/cmake: 3.6.1::gentoo dev-util/pkgconfig: 0.29.1::gentoo sys-apps/baselayout: 2.2-r1::gentoo sys-apps/openrc: 0.21.3::gentoo sys-apps/sandbox: 2.10-r2::gentoo sys-devel/autoconf: 2.13::gentoo, 2.69-r2::gentoo sys-devel/automake: 1.9.6-r4::gentoo, 1.10.3-r2::gentoo, 1.11.6-r2::gentoo, 1.12.6-r1::gentoo, 1.13.4-r1::gentoo, 1.14.1-r1::gentoo, 1.15-r2::gentoo sys-devel/binutils: 2.26.1::gentoo sys-devel/gcc: 4.9.3::gentoo, 5.4.0::gentoo sys-devel/gcc-config: 1.8-r1::gentoo sys-devel/libtool: 2.4.6-r2::gentoo sys-devel/make: 4.2.1::gentoo sys-kernel/linux-headers: 4.7::gentoo (virtual/os-headers) sys-libs/glibc: 2.23-r2::gentoo Repositories: gentoo location: /usr/portage sync-type: rsync sync-uri: rsync://rsync.gentoo.org/gentoo-portage priority: 1 local location: /usr/local/portage masters: gentoo priority: 2 ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="*" CBUILD="x86_64-pc-linux-gnu" CFLAGS="-march=native -O2 -pipe" CHOST="x86_64-pc-linux-gnu" CONFIG_PROTECT="/etc /etc/grs/systems.conf /etc/omega.conf /etc/stunnel/stunnel.conf /usr/lib64/tomoyo/conf /usr/share/config /usr/share/easy-rsa /usr/share/gnupg/qualified.txt /var/lib/i2pd/certificates /var/yp/Makefile" CONFIG_PROTECT_MASK="/etc/angband/gamedata/ /etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php7.0/ext-active/ /etc/php/cgi-php7.0/ext-active/ /etc/php/cli-php7.0/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="-march=native -O2 -pipe" DISTDIR="/var/tmp/distfiles" EMERGE_DEFAULT_OPTS="--verbose --verbose-conflicts --color=n --nospinner --tree --quiet-build" FCFLAGS="-O2 -pipe" FEATURES="assume-digests binpkg-logs config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync network-sandbox parallel-fetch preserve-libs protect-owned sandbox sfperms strict test-fail-continue unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -pipe" GENTOO_MIRRORS="http://ftp.uni-erlangen.de/pub/mirrors/gentoo rsync://mirror.netcologne.de/gentoo/ ftp://sunsite.informatik.rwth-aachen.de/pub/Linux/gor.bytemark.co.uk/gentoo/ rsync://ftp.snt.utwente.nl/gentoo" LANG="en_US.utf8" 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 --exclude=/.git" PORTAGE_TMPDIR="/var/tmp" USE="acl amd64 berkdb bzip2 cli cracklib crypt cxx dri gdbm hardened iconv ipv6 justify libressl mmx mmxext modules multilib ncurses nls nptl openmp pam pax_kernel pcre pie readline seccomp session sse sse2 ssl ssp tcpd unicode urandom use xattr xtpax 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" CPU_FLAGS_X86="aes avx mmx mmxext popcnt sse sse2 sse3 sse4_1 sse4_2 ssse3" CURL_SSL="libressl" 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" L10N="bg cs dgo my ta-LK zh-TW" 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_4" RUBY_TARGETS="ruby20 ruby21" USERLAND="GNU" VIDEO_CARDS="amdgpu fbdev intel nouveau radeon radeonsi vesa 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: CC, CPPFLAGS, CTARGET, CXX, INSTALL_MASK, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON
Created attachment 443368 [details] CMakeOutput.log
Created attachment 443370 [details] emerge-history.txt
Created attachment 443372 [details] environment
Created attachment 443374 [details] sci-libs:xdmf2-1.0_p141226-r1:20160815-075342.log
I have the same issue.
Fix is in tree now, thanks kensington for your dedication! commit a794290b70ad9e707d613ccceee5ab215c232d4d Author: David Seifert <soap@gentoo.org> Date: Sat Sep 3 22:18:45 2016 +0200 sci-libs/xdmf2: Remove heuristics to help detect HDF5_ROOT Gentoo-bug: 591302 * EAPI=6 * Add missing RDEPEND on dev-libs/boost * Add ${PYTHON_REQUIRED_USE} to REQUIRED_USE * [QA] Byte-compile XdmfCore.py and Xdmf.py * Thanks to Michael Palimaka <kensington@gentoo.org> for helping to identify the culprit
*** Bug 630728 has been marked as a duplicate of this bug. ***
