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Bug 267630 - [Science] file collisions between apbs and zsi
Summary: [Science] file collisions between apbs and zsi
Status: RESOLVED FIXED
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: New packages (show other bugs)
Hardware: All Linux
: High normal (vote)
Assignee: Python Gentoo Team
URL:
Whiteboard:
Keywords: InOverlay
Depends on:
Blocks:
 
Reported: 2009-04-27 09:08 UTC by Alexey Shvetsov
Modified: 2009-04-27 09:25 UTC (History)
1 user (show)

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


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Description Alexey Shvetsov archtester gentoo-dev 2009-04-27 09:08:21 UTC
>>> Installing (3 of 11) dev-python/zsi-2.1.0_alpha1
 * checking 47 files for package collisions         
 * This package will overwrite one or more files that may belong to other
 * packages (see list below). You can use a command such as `portageq    
 * owners / <filename>` to identify the installed package that owns a    
 * file. If portageq reports that only one package owns a file then do   
 * NOT file a bug report. A bug report is only useful if it identifies at
 * least two or more packages that are known to install the same file(s).
 * If a collision occurs and you can not explain where the file came from
 * then you should simply ignore the collision since there is not enough 
 * information to determine if a real problem exists. Please do NOT file 
 * a bug report at http://bugs.gentoo.org unless you report exactly which
 * two packages install the same file(s). Once again, please do NOT file 
 * a bug report unless you have completely understood the above message. 
 *                                                                       
 * Detected file collision(s):                                           
 *                                                                       
 *      /usr/lib64/python2.6/site-packages/ZSI/writer.py                 
 *      /usr/lib64/python2.6/site-packages/ZSI/TCnumbers.py              
 *      /usr/lib64/python2.6/site-packages/ZSI/ServiceProxy.py           
 *      /usr/lib64/python2.6/site-packages/ZSI/TCapache.py               
 *      /usr/lib64/python2.6/site-packages/ZSI/TC.py                     
 *      /usr/lib64/python2.6/site-packages/ZSI/resolvers.py              
 *      /usr/lib64/python2.6/site-packages/ZSI/digest_auth.py            
 *      /usr/lib64/python2.6/site-packages/ZSI/fault.py                  
 *      /usr/lib64/python2.6/site-packages/ZSI/schema.py                 
 *      /usr/lib64/python2.6/site-packages/ZSI/parse.py                  
 *      /usr/lib64/python2.6/site-packages/ZSI/address.py                
 *      /usr/lib64/python2.6/site-packages/ZSI/typeinterpreter.py        
 *      /usr/lib64/python2.6/site-packages/ZSI/TCtimes.py                
 *      /usr/lib64/python2.6/site-packages/ZSI/client.py                 
 *      /usr/lib64/python2.6/site-packages/ZSI/ServiceContainer.py       
 *      /usr/lib64/python2.6/site-packages/ZSI/auth.py                   
 *      /usr/lib64/python2.6/site-packages/ZSI/__init__.py               
 *      /usr/lib64/python2.6/site-packages/ZSI/dispatch.py               
 *      /usr/lib64/python2.6/site-packages/ZSI/version.py                
 *      /usr/lib64/python2.6/site-packages/ZSI/TCcompound.py             
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/Namespaces.py     
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/UserTuple.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/c14n.py           
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/TimeoutSocket.py  
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/logging.py        
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/XMLname.py        
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/XMLSchema.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/Utility.py        
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/WSDLTools.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/__init__.py       
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/commands.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/wsdl2dispatch.py 
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/containers.py    
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/pyclass.py       
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/utility.py       
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/__init__.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/wsdl2python.py   
 *                                                                       
 * Searching all installed packages for file collisions...               
 *                                                                       
 * Press Ctrl-C to Stop                                                  
 *                                                                       
 * sci-chemistry/apbs-1.1.0                                              
 *      /usr/lib64/python2.6/site-packages/ZSI/ServiceContainer.py       
 *      /usr/lib64/python2.6/site-packages/ZSI/ServiceProxy.py           
 *      /usr/lib64/python2.6/site-packages/ZSI/TC.py                     
 *      /usr/lib64/python2.6/site-packages/ZSI/TCapache.py               
 *      /usr/lib64/python2.6/site-packages/ZSI/TCcompound.py             
 *      /usr/lib64/python2.6/site-packages/ZSI/TCnumbers.py              
 *      /usr/lib64/python2.6/site-packages/ZSI/TCtimes.py                
 *      /usr/lib64/python2.6/site-packages/ZSI/__init__.py               
 *      /usr/lib64/python2.6/site-packages/ZSI/address.py                
 *      /usr/lib64/python2.6/site-packages/ZSI/auth.py                   
 *      /usr/lib64/python2.6/site-packages/ZSI/client.py                 
 *      /usr/lib64/python2.6/site-packages/ZSI/digest_auth.py            
 *      /usr/lib64/python2.6/site-packages/ZSI/dispatch.py               
 *      /usr/lib64/python2.6/site-packages/ZSI/fault.py                  
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/__init__.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/commands.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/containers.py    
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/pyclass.py       
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/utility.py       
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/wsdl2dispatch.py 
 *      /usr/lib64/python2.6/site-packages/ZSI/generate/wsdl2python.py   
 *      /usr/lib64/python2.6/site-packages/ZSI/parse.py                  
 *      /usr/lib64/python2.6/site-packages/ZSI/resolvers.py              
 *      /usr/lib64/python2.6/site-packages/ZSI/schema.py                 
 *      /usr/lib64/python2.6/site-packages/ZSI/typeinterpreter.py        
 *      /usr/lib64/python2.6/site-packages/ZSI/version.py                
 *      /usr/lib64/python2.6/site-packages/ZSI/writer.py                 
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/Namespaces.py     
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/TimeoutSocket.py  
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/UserTuple.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/Utility.py        
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/WSDLTools.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/XMLSchema.py      
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/XMLname.py        
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/__init__.py       
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/c14n.py           
 *      /usr/lib64/python2.6/site-packages/ZSI/wstools/logging.py        
 *                                                                       
 * Package 'dev-python/zsi-2.1.0_alpha1' NOT merged due to file          
 * collisions. If necessary, refer to your elog messages for the whole   
 * content of the above message.                                         

>>> Failed to install dev-python/zsi-2.1.0_alpha1, Log file:

$ emerge --info
Portage 2.2_rc31 (default/linux/amd64/2008.0/desktop, gcc-4.3.3, glibc-2.9_p20081201-r2, 2.6.29-gentoo x86_64)
=================================================================                                             
System uname: Linux-2.6.29-gentoo-x86_64-Intel-R-_Core-TM-2_Duo_CPU_E7200_@_2.53GHz-with-gentoo-2.0.0         
Timestamp of tree: Mon, 27 Apr 2009 07:30:01 +0000                                                            
ccache version 2.4 [enabled]                                                                                  
app-shells/bash:     4.0_p17-r1                                                                               
dev-java/java-config: 2.1.7                                                                                   
dev-lang/python:     2.6.2                                                                                    
dev-util/ccache:     2.4-r8                                                                                   
dev-util/cmake:      2.6.3-r1                                                                                 
sys-apps/baselayout: 2.0.0                                                                                    
sys-apps/openrc:     0.4.3-r2                                                                                 
sys-apps/sandbox:    1.9                                                                                      
sys-devel/autoconf:  2.13, 2.63-r1                                                                            
sys-devel/automake:  1.5, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10.2                                                
sys-devel/binutils:  2.19.1-r1                                                                                
sys-devel/gcc-config: 1.4.1                                                                                   
sys-devel/libtool:   2.2.6a                                                                                   
virtual/os-headers:  2.6.28-r1                                                                                
ACCEPT_KEYWORDS="amd64 ~amd64"                                                                                
CBUILD="x86_64-pc-linux-gnu"                                                                                  
CFLAGS="-O3 -pipe -march=native -mtune=native -mfpmath=sse -msse4.1"                                          
CHOST="x86_64-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 /var/lib/hsqldb"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/splash /etc/terminfo /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c /etc/udev/rules.d"            
CXXFLAGS="-O3 -pipe -march=native -mtune=native -mfpmath=sse -msse4.1"                                                                                    
DISTDIR="/usr/portage/distfiles"                                                                                                                          
FEATURES="ccache distlocks fixpackages gpg parallel-fetch prelink preserve-libs protect-owned sandbox sfperms sign strict unmerge-orphans userfetch"
FFLAGS="-O3 -pipe -march=native -mtune=native -mfpmath=sse -msse4.1"
GENTOO_MIRRORS="http://distfiles.gentoo.org http://distro.ibiblio.org/pub/linux/distributions/gentoo"
LANG="ru_RU.UTF-8"
LC_ALL=""
LDFLAGS="-Wl,-O1,--hash-style=gnu,--sort-common,--as-needed"
LINGUAS="ru en"
MAKEOPTS="-j5"
PKGDIR="/usr/portage/packages"
PORTAGE_CONFIGROOT="/"
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/layman/kde-testing /usr/local/portage/layman/science /usr/local/portage/layman/alexxy /usr/local/portage/layman/sunrise /usr/local/portage/layman/java-overlay /usr/local/overlays/portage /usr/local/overlays/cross"
SYNC="rsync://rsync.gentoo.org/gentoo-portage"
USE="X a52 aac acl acpi addressbook akonadi alsa amd64 amr amrnb amrr amrwb analogtv arpack avahi bash-completion berkdb bittorrent blas branding bzip2 cairo cdaudio cdinstall cdr cli consolekit context cracklib crypt cups curl cvs cyrillic d daap dbus detex dga dhcp dirac divx djvu dri dts dv dvb dvbplayer dvbsetup dvd dvdnav dvdr dvdread ebook embedded emboss enca encode evo exif extra fam fbcondecor ffmpeg fftw flac fontconfig foomaticdb fortran ftp gd gdbm gif gimp git glib glitz gmedia gmp google-gadgets gpg gphoto2 gpm grace graphics graphviz gs gsl gstreamer gtk hal humanities hyperestraier iconv idn ieee1394 imagemagick inotify ipv6 isdnlog ithreads jadetex java javascript jpeg jpeg2k kde kdehiddenvisibility kipi kpathsea ladspa lapack latex lcms ldap libffi libnotify live lm_sensors lzo mad marble md5sum mdnsresponder-compat midi mikmod mktemp mmx mmxext mng mp2 mp3 mp4 mpeg mpi mpi-threads mplayer mudflap multilib music mysql ncurses nemesi nepomuk network-cron nls nptl nptlonly nsplugin ogg omega openal openexr opengl openmp pam pch pcntl pcre pdf perl phonon plasma plotutils plugins png pnm policykit postscript ppds pppd ps pstricks publishers python qt3support qt4 quicktime rar rdesktop readline realmedia redland reflection resolvconf rss rtc samba sandbox schroedinger science screen sdl semantic-desktop sensord session setup slang smp speex spell spl srt sse sse2 ssl ssse3 startup-notification subversion svg symlink sysfs tcl tcpd tetex tex tex4ht themes theora threads thumbnail tiff tk tools truetype umfpack unicode urandom usb utempter v4l2 vde vdpau vhook vim vim-syntax visualization vorbis webdav webkit wmf wmp wxwindows x264 x86emu xattr xcb xcomposite xetex xml xorg xpm xscreensaver xulrunner xv xvid xvmc zeroconf zlib zsh-completion" 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" ALSA_PCM_PLUGINS="adpcm alaw asym copy dmix dshare dsnoop empty extplug file hooks iec958 ioplug ladspa lfloat linear meter mmap_emul 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="evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LINGUAS="ru en" USERLAND="GNU" VIDEO_CARDS="nvidia"
Unset:  CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, INSTALL_MASK, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
Comment 1 Justin Lecher (RETIRED) gentoo-dev 2009-04-27 09:16:31 UTC
Huge changes w/o version bump. I bumped it, so hopefully it is fixed now.