Bug 517940 – sci-chemistry/molmol-2k_p2-r5 failed to build

• Status: RESOLVED FIXED
• Product: Gentoo Linux

[Description Pacho Ramos 2014-07-24 08:01:41 UTC]

Created attachment 381482 [details]
build.log

make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/molmol-2k_p2-r5/work/src/cmdio'
cd cmddial; make default
make[4]: Entering directory `/var/tmp/portage/sci-chemistry/molmol-2k_p2-r5/work/src/cmddial'
x86_64-pc-linux-gnu-gcc -I../../tools/include -I../../sg/include -I../../include  -O2 -pipe -march=native -I../../tools/include -I../../sg/include -I../../include   -c -o ExDialColor.o ExDialColor.c
x86_64-pc-linux-gnu-gcc -I../../tools/include -I../../sg/include -I../../include  -O2 -pipe -march=native -I../../tools/include -I../../sg/include -I../../include   -c -o ExDialSelect.o ExDialSelect.c
x86_64-pc-linux-gnu-gcc -I../../tools/include -I../../sg/include -I../../include  -O2 -pipe -march=native -I../../tools/include -I../../sg/include -I../../include   -c -o ExDialStyle.o ExDialStyle.c
x86_64-pc-linux-gnu-gcc -I../../tools/include -I../../sg/include -I../../include  -O2 -pipe -march=native -I../../tools/include -I../../sg/include -I../../include   -c -o ExDialMol.o ExDialMol.c
x86_64-pc-linux-gnu-gcc -I../../tools/include -I../../sg/include -I../../include  -O2 -pipe -march=native -I../../tools/include -I../../sg/include -I../../include   -c -o ExDialMeas.o ExDialMeas.c
make[4]: *** No rule to make target `ExDialRes.c', needed by `ExDialRes.o'.  Stop.
make[4]: Leaving directory `/var/tmp/portage/sci-chemistry/molmol-2k_p2-r5/work/src/cmddial'
make[3]: *** [cmddial] Error 2
make[3]: Leaving directory `/var/tmp/portage/sci-chemistry/molmol-2k_p2-r5/work/src'
make[2]: *** [default] Error 2
make[2]: Leaving directory `/var/tmp/portage/sci-chemistry/molmol-2k_p2-r5/work/src'
make[1]: *** [src] Error 2
make[1]: Leaving directory `/var/tmp/portage/sci-chemistry/molmol-2k_p2-r5/work'
make: *** [default] Error 2

[Comment 1 Pacho Ramos 2014-07-24 08:01:59 UTC]

Portage 2.2.10 (default/linux/amd64/13.0/desktop/gnome/systemd, gcc-4.7.3, glibc-2.17, 3.15.5-gentoo x86_64)
=================================================================
System uname: Linux-3.15.5-gentoo-x86_64-Intel-R-_Core-TM-_i7-3537U_CPU_@_2.00GHz-with-gentoo-2.2
KiB Mem:     8052444 total,   1145204 free
KiB Swap:    4607996 total,   4212760 free
Timestamp of tree: Thu, 24 Jul 2014 07:30:01 +0000
ld GNU ld (GNU Binutils) 2.23.2
ccache version 3.1.9 [enabled]
app-shells/bash:          4.2_p45
dev-java/java-config:     2.2.0
dev-lang/python:          2.7.6, 3.3.3
dev-util/ccache:          3.1.9-r3
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, 1.12.6, 1.13.4
sys-devel/binutils:       2.23.2
sys-devel/gcc:            4.7.3-r1
sys-devel/gcc-config:     1.7.3
sys-devel/libtool:        2.4.2-r1
sys-devel/make:           3.82-r4
sys-kernel/linux-headers: 3.13 (virtual/os-headers)
sys-libs/glibc:           2.17
Repositories: gentoo x-portage
ACCEPT_KEYWORDS="amd64"
ACCEPT_LICENSE="*"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-O2 -pipe -march=native"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt /var/lib/hsqldb"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/fonts/fonts.conf /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 -march=native"
DISTDIR="/usr/distfiles"
EMERGE_DEFAULT_OPTS="--quiet-build=n --autounmask-write --keep-going"
FCFLAGS="-O2 -pipe"
FEATURES="assume-digests binpkg-logs ccache config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync multilib-strict news parallel-fetch preserve-libs protect-owned sandbox sfperms sign split-log strict test test-fail-continue unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O2 -pipe"
GENTOO_MIRRORS="http://ftp.heanet.ie/pub/gentoo/"
LANG="es_ES.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--hash-style=gnu"
MAKEOPTS="-j5"
PKGDIR="/usr/local/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="/usr/local/portage"
USE="X a52 aac acl acpi alsa amd64 applet avx avx256 bash-completion berkdb bluetooth branding bzip2 cairo cdda cddb cdr cli colord cracklib crypt cups cvs cxx dbus djvu dri dts dvd dvdr dvi eds emboss enchant encode evo exif fam fat ffmpeg firefox flac fortran fuse gdbm gif gnome gnome-keyring gnome-online-accounts gpm gstreamer gtk gtk3 gtkstyle http iconv infinality introspection irc jabber jpeg kpathsea latex lcms ldap libnotify libsecret libvisual lyx mad mms mmx mmxext mng modules monolithic-build mp3 mp4 mpeg multilib musicbrainz nautilus ncurses network-cron networkmanager nls nptl ntfs ntp numa nvidia ogg opengl openmp optimized-qmake pam pango pch pdf png policykit ppds pulseaudio qt3support qt4 readline reiserfs scanner sdl session smp sna socialweb spell sse sse2 sse3 sse4 sse4_1 ssl ssse3 startup-notification svg systemd t1lib tcpd test theora threads tiff truetype udev udisks unicode upnp-av upower usb v4l vaapi vala vcd vdpau vorbis wifi wxwidgets x264 xattr xcb xfs xml xv xvid youtube zlib" ABI_X86="64" ALSA_CARDS="hda-intel" 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="evdev synaptics" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="es es_ES en_US" 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 vesa intel i915 i965" 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, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, SYNC, USE_PYTHON

[Comment 2 Justin Lecher (RETIRED) 2014-07-24 08:17:28 UTC]

does it build with -j1?

is /var/tmp/portage/sci-chemistry/molmol-2k_p2-r5/work/src/cmddial/ExDialRes.c present?

could you please attach /var/tmp/portage/sci-chemistry/molmol-2k_p2-r5/temp/epatch.log ?

[Comment 3 Justin Lecher (RETIRED) 2014-07-24 08:24:53 UTC]

which version of patch are you using?

[Comment 4 Justin Lecher (RETIRED) 2014-07-24 09:07:03 UTC]

+  24 Jul 2014; Justin Lecher <[e-mail]> files/wild.patch:
+  Fix patch to work with current stable version of patch as well, #517940
+

[Comment 5 Pacho Ramos 2014-07-24 12:45:06 UTC]

Yes, it works, thanks :)