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Bug 445824 - sci-libs/shapelib-1.3.0-r1 with perl-gcpan/DBD-XBase - file collision in /usr/bin/dbfdump
Summary: sci-libs/shapelib-1.3.0-r1 with perl-gcpan/DBD-XBase - file collision in /usr...
Status: RESOLVED CANTFIX
Alias: None
Product: Gentoo Linux
Classification: Unclassified
Component: Current packages (show other bugs)
Hardware: x86 Linux
: Normal normal with 1 vote (vote)
Assignee: Sci-geo Project
URL:
Whiteboard:
Keywords:
Depends on:
Blocks:
 
Reported: 2012-12-03 18:30 UTC by Paul McDermott
Modified: 2014-12-09 22:42 UTC (History)
2 users (show)

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


Attachments

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Description Paul McDermott 2012-12-03 18:30:24 UTC
sci-libs/shapelib tries to install /usr/bin/dbfdump, but perl-gcpan/DBD-XBase also have a command of the same name (& purpose).

I'm filing a bug (despite portageq reporting only one other competing application because for someone working with Shapefiles in perl it is likely they have installed DBD:XBase to support Geo::Shapefile and Geo::Shapefile::Writer, and they may easily be using applications which require shapelib.

Reproducible: Always

Steps to Reproduce:
1.g-cpan -i BDB::XBase
2.emerge -av sci-libs/shapelib
3.
Actual Results:  
 * 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/bin/dbfdump
 * 
 * Searching all installed packages for file collisions...
 * 
 * Press Ctrl-C to Stop
 * 
 * perl-gcpan/DBD-XBase-1.03:0::x-portage
 * 	/usr/bin/dbfdump
 * 
 * Package 'sci-libs/shapelib-1.3.0-r1' NOT merged due to file
 * collisions. If necessary, refer to your elog messages for the whole
 * content of the above message.


Expected Results:  
Both sci-libs/shapelib and perl-gcpan/DBD-XBase can live side-by-side.

sci-libs/shapelib is required by sci-geosciences/gpsbabel which is requried by sci-geosciences/qgis. qgis has a 'gps' use flag, but having this use flag unset does not stop gpsbabel being installed. Better use of the QGIS 'gps' use flag may be one way to mitigate the problem.

Portage 2.1.11.31 (default/linux/x86/10.0/desktop/gnome, gcc-4.5.4, glibc-2.15-r3, 3.2.12-gentoo i686)
=================================================================
System uname: Linux-3.2.12-gentoo-i686-Intel-R-_Core-TM-_i7_CPU_950_@_3.07GHz-with-gentoo-2.1
Timestamp of tree: Mon, 03 Dec 2012 02:45:01 +0000
ld GNU ld (GNU Binutils) 2.22
ccache version 3.1.8 [enabled]
app-shells/bash:          4.2_p37
dev-java/java-config:     2.1.11-r3
dev-lang/python:          2.7.3-r2, 3.2.3
dev-util/ccache:          3.1.8
dev-util/cmake:           2.8.9
dev-util/pkgconfig:       0.27.1
sys-apps/baselayout:      2.1-r1
sys-apps/openrc:          0.11.6
sys-apps/sandbox:         2.5
sys-devel/autoconf:       2.13, 2.68
sys-devel/automake:       1.10.3, 1.11.6
sys-devel/binutils:       2.22-r1
sys-devel/gcc:            4.5.4
sys-devel/gcc-config:     1.7.3
sys-devel/libtool:        2.4-r1
sys-devel/make:           3.82-r3
sys-kernel/linux-headers: 3.6 (virtual/os-headers)
sys-libs/glibc:           2.15-r3
Repositories: gentoo science local_overlay
ACCEPT_KEYWORDS="x86"
ACCEPT_LICENSE="* -@EULA dlj-1.1 Oracle-BCLA-JavaSE AdobeFlash-10.3"
CBUILD="i686-pc-linux-gnu"
CFLAGS="-O2 -march=native -pipe"
CHOST="i686-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt /usr/share/maven-bin-2.2/conf /var/lib/hsqldb"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/dconf /etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/php/apache2-php5.3/ext-active/ /etc/php/apache2-php5.4/ext-active/ /etc/php/cgi-php5.3/ext-active/ /etc/php/cgi-php5.4/ext-active/ /etc/php/cli-php5.3/ext-active/ /etc/php/cli-php5.4/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 -march=native -pipe"
DISTDIR="/usr/portage/distfiles"
FCFLAGS="-O2 -march=i686 -pipe"
FEATURES="assume-digests binpkg-logs ccache config-protect-if-modified distlocks ebuild-locks fixlafiles merge-sync news parallel-fetch protect-owned sandbox sfperms strict unknown-features-warn unmerge-logs unmerge-orphans userfetch"
FFLAGS="-O2 -march=i686 -pipe"
GENTOO_MIRRORS="rsync://ftp.snt.utwente.nl/gentoo ftp://de-mirror.org/gentoo/ ftp://ftp.mirrorservice.org/sites/www.ibiblio.org/gentoo/ http://mirror.bytemark.co.uk/gentoo/ ftp://91.121.125.139/gentoo-distfiles/"
LANG="en_GB.utf8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed"
LINGUAS="en_GB en"
MAKEOPTS="-j9"
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/science /usr/local/portage"
SYNC="rsync://rsync.europe.gentoo.org/gentoo-portage"
USE="X a52 aac acl acpi alsa bash-completion bluetooth branding bzip2 bzlib cairo cdda cdr cli colord consolekit cracklib crypt ctype cups cxx dba dbus dovecot-sasl dri dts dvd dvdr eds emboss encode evo exif fam firefox flac fortran gif gnome gnome-keyring gnome-online-accounts gpm gstreamer gtk iconv imap java5 jpeg lcms libnotify libwww logrotate mad maildir mmx mng modules mp3 mp4 mpeg mudflap mysql nautilus ncurses nls nptl ogg opengl openmp pam pango pcre pdf png policykit ppds pppd pulseaudio qt3support qt4 readline sasl scanner sdl session socialweb spell ssl startup-notification svg syslog tcpd threads tiff truetype udev udisks unicode upower usb userlocales vim vim-syntax vorbis wxwidgets x264 x86 xcb xml xmlrpc xv xvid zlib" ALSA_CARDS="ali5451 als4000 atiixp atiixp-modem bt87x ca0106 cmipci emu10k1 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="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" 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 ubx" INPUT_DEVICES="evdev" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" LIBREOFFICE_EXTENSIONS="presenter-console presenter-minimizer" LINGUAS="en_GB en" PHP_TARGETS="php5-3" PYTHON_SINGLE_TARGET="python2_7" PYTHON_TARGETS="python2_7 python3_2" RUBY_TARGETS="ruby18 ruby19" SANE_BACKENDS="hp" USERLAND="GNU" VIDEO_CARDS="nvidia" 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
Comment 1 Andreas K. Hüttel gentoo-dev 2014-12-09 22:42:29 UTC
> sci-libs/shapelib tries to install /usr/bin/dbfdump, but perl-gcpan/DBD-XBase 
> also have a command of the same name (& purpose).

I don't think we even can fix this for g-cpan installation.