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Bug 473066 - [science-overlay] sci-chemistry/mgltools-1.5.6 should depend on virtual/python-imaging
Summary: [science-overlay] sci-chemistry/mgltools-1.5.6 should depend on virtual/pytho...
Status: RESOLVED OBSOLETE
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: All Linux
: Normal normal (vote)
Assignee: Gentoo Science Related Packages
URL:
Whiteboard:
Keywords:
Depends on:
Blocks:
 
Reported: 2013-06-12 07:16 UTC by Juergen Rose
Modified: 2013-06-12 17:46 UTC (History)
0 users

See Also:
Package list:
Runtime testing required: ---


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Description Juergen Rose 2013-06-12 07:16:49 UTC
My current /var/lib/layman/science/sci-chemistry/mgltools/mgltools-1.5.6.ebuild has a RDEPEND setting with virtual/python-imaging[tk,${PYTHON_USEDEP}]:

root@caiman:/root(10)# grep -U6 imaging /var/lib/layman/science/sci-chemistry/mgltools/mgltools-1.5.6.ebuild
RDEPEND="${PLUG_DEP}
        ${PYTHON_DEPS}
        dev-lang/tk
        sci-libs/msms
        dev-python/pmw[${PYTHON_USEDEP}]
        dev-python/simpy[${PYTHON_USEDEP}]
        virtual/python-imaging[tk,${PYTHON_USEDEP}]
        dev-python/numpy[${PYTHON_USEDEP}]"
DEPEND="${RDEPEND}"

src_install() {
        insinto /usr/share/${PN}
        doins -r Data


But nevertheless 'emerge --update --newuse --deep --with-bdeps=y @world' wants to install dev-python/imaging-1.1.7-r4 as dependency of mgltools, which blocks emerge:

root@caiman:/root(12)# emerge -pt --update --newuse --deep --with-bdeps=y @world

These are the packages that would be merged, in reverse order:

Calculating dependencies... done!
...
[nomerge       ] sci-chemistry/mgltools-1.5.6 
[nomerge       ]  virtual/python-imaging-1 
[ebuild  N     ]   dev-python/imaging-1.1.7-r4  USE="examples jpeg lcms tiff tk truetype zlib -doc -scanner {-test}" PYTHON_TARGETS="python2_7 -python2_5 -python2_6" 
...
[blocks B      ] dev-python/imaging ("dev-python/imaging" is blocking dev-python/pillow-2.0.0-r1)
[blocks B      ] dev-python/pillow ("dev-python/pillow" is blocking dev-python/imaging-1.1.7-r4)


Reemerging mgltools works but does not remove the blocking issue.



root@caiman:/root(13)# emerge --info mgltools
Portage 2.1.12.4 (default/linux/amd64/13.0, gcc-4.7.3, glibc-2.17, 3.9.5-gentoo x86_64)
=================================================================
                        System Settings
=================================================================
System uname: Linux-3.9.5-gentoo-x86_64-AMD_Phenom-tm-_II_X6_1090T_Processor-with-gentoo-2.2
KiB Mem:    16178812 total,  15130064 free
KiB Swap:  100663280 total, 100663280 free
Timestamp of tree: Wed, 12 Jun 2013 02:00:01 +0000
ld GNU ld (GNU Binutils) 2.23.1
app-shells/bash:          4.2_p45
dev-java/java-config:     2.2.0
dev-lang/python:          2.7.5, 3.2.5, 3.3.2
dev-util/cmake:           2.8.11.1
dev-util/pkgconfig:       0.28
sys-apps/baselayout:      2.2
sys-apps/openrc:          0.11.8
sys-apps/sandbox:         2.6-r1
sys-devel/autoconf:       2.13, 2.69
sys-devel/automake:       1.9.6-r3, 1.10.3, 1.11.6, 1.12.6, 1.13.2
sys-devel/binutils:       2.23.1
sys-devel/gcc:            4.7.3
sys-devel/gcc-config:     1.8
sys-devel/libtool:        2.4.2
sys-devel/make:           3.82-r4
sys-kernel/linux-headers: 3.9 (virtual/os-headers)
sys-libs/glibc:           2.17
Repositories: gentoo x11 science sunrise sabayon x-portage x-cpan x-g-octave
ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="* -@EULA PUEL Intel-SDP dlj-1.1 skype-eula skype-4.0.0.7-copyright googleearth AdobeFlash-11.x cadsoft Oracle-BCLA-JavaSE MakeMKV-EULA"
CBUILD="x86_64-pc-linux-gnu"
CFLAGS="-march=amdfam10 -O2 -pipe"
CHOST="x86_64-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/config /usr/share/gnupg/qualified.txt /usr/share/polkit-1/actions /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-php5.3/ext-active/ /etc/php/apache2-php5.5/ext-active/ /etc/php/cgi-php5.3/ext-active/ /etc/php/cgi-php5.5/ext-active/ /etc/php/cli-php5.3/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="-march=amdfam10 -O2 -pipe"
DISTDIR="/usr/portage/distfiles"
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 xattr"
FFLAGS="-O2 -pipe"
GENTOO_MIRRORS="http://distfiles.gentoo.org"
LANG="en_US.UTF-8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
MAKEOPTS="-j7"
PKGDIR="/usr/portage/packages"
PORTAGE_CONFIGROOT="/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --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="/var/lib/layman/x11 /var/lib/layman/science /var/lib/layman/sunrise /var/lib/layman/sabayon /usr/local/portage /var/lib/cpan /var/lib/g-octave"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="3dnow 3dnowext 64bit R X Xaw3d a52 aac acl acpi admin afs alsa amd64 ao apache2 apng applet archive armadillo arpack asf aspell assistant atlas audacious audiofile automap automount bash-completion berkdb blas blast bluetooth bluray boo boost bzip2 cairo cdda cddb cdf cdio cdparanoia cdr cgi chm cli consolekit corba cracklib crypt css cups curl cxx daap db dbi dbm dbus declarative designer devhelp device-mapper dga dia dirac djvu doc dot dri ds2490 ds9097 ds9097u dts dv dvb dvd dvdr dvi dynamicplugin eds egl elf emacs emboss emf encode epiphany evo examples exif expat extensions extra extras faac faad ffmpeg fftw firefox fits flac fltk fontconfig foomaticdb fortran fortran95 fpm fpx fts3 fuse g3dvl gcj gd gdal gdbm gdu gedit geoip geolocation geos gfortran gif gimp git glade glib glpk gml gmp gnome gnome-keyring gnome-print gnuplot gnutls gold gphoto2 gpm grammar graphics graphtft graphviz grass gsl gsm gstreamer gtk gtk3 gudev guile harness hddtemp hdf hdf5 hdri html http httpd hvm hwdb iconv icq icu id3 id3tag ide imagemagick imap inotify introspection ipod ipv6 irda ithreads jabber jadetex java java6 jbig john jpeg jpeg2k kate kdepim kdrive kerberos keymap kpathsea kqemu kvm ladspa lame lapack latex lcms ldap lensfun libffi libkms libnotify libsamplerate live lm_sensors lua lzo mad mail maildir mapnik math matroska media-library mercurial mikmod mkl mmx mmxext mng mod modules mono motif mozilla mp3 mp4 mpeg mpi mplayer mtp mudflap multilib musepack musicbrainz mysql mysqli nautilus ncurses netcdf netpbm network networking networkmanager nfs nls nntp nptl nsplugin ntfs ntp numpy obex objc ocaml ocr octave odbc ofa ogdi ogg openexr opengl openmp overview pam pcre pda pdf perl plasma plotutils plugins png podcast policykit portaudio posix postgres postscript ppds preview-latex proj projectm projectx pstricks pulseaudio python python-bindings q16 q32 qemu qhull qt3support qt4 quicktime raw readline reiserfs reports rhythmbox rle romio rpc rrdcgi rrdtool sage samba sasl schroedinger science sdk sdl secure-delete semantic-desktop server session shout sip slang slp smart smbclient smp sms sndfile snmp soap sockets sound soup sox speex spell sql sqlite sse sse2 sse4a ssl stlport subtitles subversion sudo suexec svg svm swig szip t1lib tcl tcpd tex tex4ht texmacs tgif theora thesaurus threads thunderbird tidy tiff tk toolbar tools truetype udev udisks unicode usb userlocales utempter v4l vaapi vala vdpau video virt-network virtualbox visio vorbis vpx wav webdav webdav-serf webkit wmf wxwidgets x264 xa xattr xcb xemacs xetex xext xft xine xml xmlreader xmlrpc xpm xv xvid xvmc yaml youtube zlib zvbi" 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="actions alias auth_basic auth_digest authn_anon authn_dbd authn_core authn_dbm authn_default authn_file authz_core authz_dbm authz_default authz_groupfile authz_host authz_owner authz_user autoindex cache cgid dav dav_fs dav_lock dbd deflate dir disk_cache env expires ext_filter file_cache filter headers ident imagemap include info lbmethod_byrequests log_config logio mem_cache mime mime_magic negotiation proxy proxy_ajp proxy_balancer proxy_connect proxy_http rewrite setenvif slotmem_shm so socache_shmcb speling status unique_id unixd userdir usertrack vhost_alias" CALLIGRA_FEATURES="kexi words flow plan sheets stage tables krita karbon braindump author" CAMERAS="canon fuji ptp2" COLLECTD_PLUGINS="df interface irq load memory rrdtool swap syslog" CURL_SSL="nss" DRACUT_MODULES="caps lvm mdraid 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 ubx" INPUT_DEVICES="keyboard mouse evdev void" KERNEL="linux" LCD_DEVICES="cfontz hd44780 mtxorb ncurses X lcd2usb lcdlinux png usblcd" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="de fr ru" NETBEANS_MODULES="apisupport cnd dlight enterprise ergonomics groovy gsf harness ide identity j2ee java mobility nb php profiler ruby websvccommon xml" OFFICE_IMPLEMENTATION="libreoffice" PHP_TARGETS="php5-3" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_2" QEMU_SOFTMMU_TARGETS="arm i386 x86_64" QEMU_USER_TARGETS="arm i386 x86_64" RUBY_TARGETS="ruby19 ruby18" USERLAND="GNU" VIDEO_CARDS="radeon displaylink" 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, EMERGE_DEFAULT_OPTS, INSTALL_MASK, LC_ALL, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, USE_PYTHON

=================================================================
                        Package Settings
=================================================================

sci-chemistry/mgltools-1.5.6 was built with the following:
USE="" PYTHON_TARGETS="python2_7 -python2_6"
Comment 1 Juergen Rose 2013-06-12 09:00:29 UTC
After deinstalling mgltools, gimagereader and openshot the blocking disappeared:

root@caiman:/root(14)# emerge -C mgltools
root@caiman:/root(17)# emerge -C gimagereader openshot
root@caiman:/root(19)# emerge -pt --update --newuse --deep --with-bdeps=y @world
...[ebuild   R    ]   media-libs/babl-0.1.10 [0.1.10] USE="vala*" 

WARNING: One or more updates have been skipped due to a dependency conflict:
...

After performing depclean:

root@caiman:/root(26)# emerge --depclean beautifulsoup msms mgltools-autodocktools clapack mgltools-networkeditor mgltools-gle =vala-0.14.2-r2 mgltools-pyautodock =mediawiki-1.20.5 mgltools-sff librsvg-python mgltools-symserv pyenchant mlt nss-mdns mgltools-cmolkit =mediawiki-1.20.6 httplib2 mgltools-vision mgltools-scenario2 mgltools-bhtree polkit-kde-kcmodules mgltools-visionlib mgltools-webservices mgltools-utpackages =mediawiki-1.21.0  mgltools-qslimlib mgltools-volume =gentoo-sources-3.9.4 mgltools-cadd =gentoo-sources-3.9.3 mgltools-opengltk autodock mgltools-pyglf mgltools-pmv mgltools-molkit mgltools-pybabel mgltools-viewer-framework mgltools-geomutils mgltools-dejavu mgltools-mglutil mgltools-support sdl-image simpy zsi tkdnd pdb2pqr apbs maloc

I could emerge all mgltools packages

root@caiman:/root(30)# emerge -vD mgltools

without the need to install dev-python/imaging. So it looks if not mgltools
but gimagereader and openshot from the sabayon overlay are responsible for dependence on dev-python/imaging.
Comment 2 Justin Lecher (RETIRED) gentoo-dev 2013-06-12 17:46:45 UTC
version dropped and other version are fixed now.