I'm updating python and am trying to emerge file-4.26, but the file /usr/share/man.ecompress.dir is already owned by texinfo-4.13 according to portageq. Reproducible: Always Steps to Reproduce: 1. emerge file-4.26 2. emerge texinfo-4.13 3. Actual Results: >>> Failed to install sys-apps/file-4.26, Log file: >>> '/var/tmp/portage/sys-apps/file-4.26/temp/build.log' * Messages for package sys-apps/file-4.26: * 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/share/man.ecompress.dir * * Searching all installed packages for file collisions... * * Press Ctrl-C to Stop * * sys-apps/texinfo-4.13 * /usr/share/man.ecompress.dir * * Package 'sys-apps/file-4.26' NOT merged due to file collisions. If * necessary, refer to your elog messages for the whole content of the * above message. Expected Results: Successful emerge Portage 2.1.6.7 (default/linux/x86/2008.0/desktop, gcc-4.1.1, glibc-2.9_p20081201-r1, 2.6.25-gentoo-r1 i686) ================================================================= System uname: Linux-2.6.25-gentoo-r1-i686-Intel-R-_Pentium-R-_M_processor_2.00GHz-with-glibc2.0 Timestamp of tree: Tue, 20 Jan 2009 03:15:01 +0000 app-shells/bash: 3.2_p48 dev-java/java-config: 1.3.7-r1, 2.1.6-r1 dev-lang/python: 2.4.4, 2.5.2-r8 dev-python/pycrypto: 2.0.1-r6 sys-apps/baselayout: 2.0.0 sys-apps/openrc: 0.4.2 sys-apps/sandbox: 1.3.2 sys-devel/autoconf: 2.13, 2.63 sys-devel/automake: 1.4_p6, 1.5, 1.6.3, 1.7.9-r1, 1.8.5-r3, 1.9.6-r2, 1.10.2 sys-devel/binutils: 2.19 sys-devel/gcc-config: 1.4.0-r4 sys-devel/libtool: 2.2.6a virtual/os-headers: 2.6.28-r1 ACCEPT_KEYWORDS="x86 ~x86" CBUILD="i686-pc-linux-gnu" CFLAGS="-O2 -march=pentium-m -pipe -fomit-frame-pointer" CHOST="i686-pc-linux-gnu" CONFIG_PROTECT="/etc /usr/kde/3.5/env /usr/kde/3.5/share/config /usr/kde/3.5/shutdown /usr/share/X11/xkb /usr/share/config" CONFIG_PROTECT_MASK="/etc/env.d /etc/env.d/java/ /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo /etc/texmf/web2c /etc/udev/rules.d" CXXFLAGS="-O2 -march=pentium-m -pipe -fomit-frame-pointer" DISTDIR="/usr/portage/distfiles" FEATURES="distlocks fixpackages parallel-fetch protect-owned sandbox sfperms strict unmerge-orphans userfetch" GENTOO_MIRRORS="http://gentoo.mirrors.tds.net/gentoo" LDFLAGS="-Wl,-O1" MAKEOPTS="-j2" PKGDIR="/usr/portage/packages" 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/armagetron" SYNC="rsync://rsync.us.gentoo.org/gentoo-portage" USE="X acl acpi aim alsa avi berkdb bitmap-fonts bluetooth branding bzip2 cairo cdr cli cracklib crypt cups dbus divx divx4linux dri dvd dvdr dvdread eds emacs emboss encode esd evo fam firefox fortran gdbm gif gpm gstreamer hal iconv ipv6 isdnlog java jpeg ldap libnotify mad matroska midi mikmod mp3 mpeg mudflap ncurses nls nptl nptlonly ogg oggvorbis opengl openmp pam pcre pdf perl png ppds pppd python qt3 qt3support qt4 quicktime readline reflection sdl session spell spl ssl startup-notification svg sysfs tcpd tiff truetype truetype-fonts type1-fonts unicode usb videos vorbis win32codecs x86 xml xorg xulrunner xv xvid zlib" ALSA_CARDS="hda-intel" 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="keyboard mouse" KERNEL="linux" LCD_DEVICES="bayrad cfontz cfontz633 glk hd44780 lb216 lcdm001 mtxorb ncurses text" USERLAND="GNU" VIDEO_CARDS="radeon" Unset: CPPFLAGS, CTARGET, EMERGE_DEFAULT_OPTS, FFLAGS, INSTALL_MASK, LANG, LC_ALL, LINGUAS, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS
I have sys-apps/file 4.26(22:46:47 23-09-08)(python) and sys-apps/texinf 4.13(21:31:08 22-10-08)(nls -static) installed with no collision. Did you use different use flags?
# These settings were set by the catalyst build script that automatically built this stage # Please consult /etc/make.conf.example for a more detailed example CFLAGS="-O2 -march=pentium-m -pipe -fomit-frame-pointer" CHOST="i686-pc-linux-gnu" CXXFLAGS="${CFLAGS}" MAKEOPTS="-j2" ACCEPT_KEYWORDS="~x86" USE="X acpi aim alsa avi cdr crypt divx4linux win32codecs xvid divx dvd \ dvdr emacs gif -gtk -gtk2 -qt -kde -gnome firefox jpeg mpeg \ ncurses ogg vorbis oggvorbis matroska opengl png ssl \ tiff truetype unicode usb videos java bitmap-fonts \ truetype-fonts type1-fonts dbus hal pdf" GENTOO_MIRRORS="http://gentoo.mirrors.tds.net/gentoo" SYNC="rsync://rsync.us.gentoo.org/gentoo-portage" ALSA_CARDS="hda-intel" INPUT_DEVICES="keyboard mouse" VIDEO_CARDS="radeon" source /usr/local/portage/layman/make.conf Also, I tried ignoring the collision and now I have this when emerging another package: >>> Failed to install dev-libs/newt-0.52.8, Log file: >>> '/var/tmp/portage/dev-libs/newt-0.52.8/temp/build.log' * Messages for package dev-python/dnspython-1.6.0: * Documentation is sparse at the moment. Use pydoc, * or read the HTML documentation at the dnspython's home page. * Messages for package dev-libs/newt-0.52.8: * 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. * * package dev-libs/newt-0.52.8 NOT merged * * Detected file collision(s): * * /usr/share/man.ecompress.dir * * Searching all installed packages for file collisions... * * Press Ctrl-C to Stop * * sys-apps/file-4.26 * /usr/share/man.ecompress.dir * * sys-apps/texinfo-4.13 * /usr/share/man.ecompress.dir * * Package 'dev-libs/newt-0.52.8' NOT merged due to file collisions. If * necessary, refer to your elog messages for the whole content of the * above message. * GNU info directory index is up-to-date. vix ~ # portageq owners / /usr/share/man.ecompress.dir sys-apps/texinfo-4.13 /usr/share/man.ecompress.dir sys-apps/file-4.26 /usr/share/man.ecompress.dir
Looks like a problem (fixed) in sys-apps/portage-2.1.6.7?
This is the same issue reported in bug #242354 but we don't know exactly what causes it. The ecompressdir program is supposed to remove the *.ecompress.dir files, and it works flawlessly for most people.
I got a workaround. Add COLLISION_IGNORE="/usr/share/man.ecompress.dir" to /etc/make.conf
Please attache /var/tmp/portage/sys-apps/file-4.26/temp/build.log since it might contain some clue.
It no longer exists because of the workaround.
If you set PORT_LOGDIR="/var/log/portage" in /etc/make.conf and rebuild the package, then it will save the log for you in there.
Created attachment 179201 [details] build log for acl This failed because of collision: * Detected file collision(s): * * /usr/share/man.ecompress.dir * * Searching all installed packages for file collisions... * * Press Ctrl-C to Stop * * dev-lang/python-2.5.4 * /usr/share/man.ecompress.dir * * sys-apps/portage-2.2_rc23 * /usr/share/man.ecompress.dir * * dev-util/scons-1.2.0 * /usr/share/man.ecompress.dir * * app-portage/layman-1.2.3 * /usr/share/man.ecompress.dir * * dev-libs/newt-0.52.8 * /usr/share/man.ecompress.dir * * sys-apps/texinfo-4.13 * /usr/share/man.ecompress.dir * * dev-python/eyeD3-0.6.16 * /usr/share/man.ecompress.dir * * sys-apps/file-4.26 * /usr/share/man.ecompress.dir * * dev-python/twisted-8.2.0 * /usr/share/man.ecompress.dir * * sys-libs/timezone-data-2009a * /usr/share/man.ecompress.dir * * sys-apps/attr-2.4.43 * /usr/share/man.ecompress.dir * * Package 'sys-apps/acl-2.2.47' NOT merged due to file collisions. If * necessary, refer to your elog messages for the whole content of the * above message.
It must be related to the error messages that look like this: xargs: xargs.c:450: main: Assertion `bc_ctl.arg_max <= (131072-2048)' failed Maybe if you rebuild sys-apps/findutils then that will fix it.
*** Bug 242354 has been marked as a duplicate of this bug. ***
I updated it. I haven't had it crash yet, but I accidentally left COLLISION_IGNORE in make.conf. It was actually still crashing every once in a while with that, partially because I didn't include all possible *.ecompress.doc and partially for some other reason. I'll let you know if I have any more problems.
FYI: I masked the latest findutils in Prefix, because for me on at least Solaris it crashes for a long find run with an assertion.
(In reply to comment #9) > Created an attachment (id=179201) [edit] > build log for acl Adding base-system since the problem seems to be related to the xargs 'bc_ctl.arg_max' assertion messages shown in the log. Do you have version 4.5.3 of findutils installed?
Yes, I installed findutils 4.5.3 as suggested, and I haven't had problems since.
so findutils-4.5.2 has problems while findutils-4.5.3 does not. sounds fixed to me.
I have findutils-4.5.4 installed but still same issue. I have to manually remove /usr/share/man.ecompress.dir every time it claims about collision. emerge -s findutils Searching... [ Results for search key : findutils ] [ Applications found : 1 ] * sys-apps/findutils Latest version available: 4.5.4 Latest version installed: 4.5.4 Size of files: 2,217 kB Homepage: http://www.gnu.org/software/findutils/ Description: GNU utilities for finding files License: GPL-2 (In reply to comment #16) > so findutils-4.5.2 has problems while findutils-4.5.3 does not. sounds fixed > to me. >
Sorry, filename is not /usr/share/man.ecompress.dir but /usr/share/info.ecompress.dir. And this issue happens while i was trying to "emerge -Du world" after a fresh installation from minimal gentoo CD. As a workaround adding COLLISION_IGNORE="/usr/share/info.ecompress.dir" to /etc/make.conf works. (In reply to comment #17) > I have findutils-4.5.4 installed but still same issue. I have to manually > remove /usr/share/man.ecompress.dir every time it claims about collision. > > emerge -s findutils > Searching... > [ Results for search key : findutils ] > [ Applications found : 1 ] > > * sys-apps/findutils > Latest version available: 4.5.4 > Latest version installed: 4.5.4 > Size of files: 2,217 kB > Homepage: http://www.gnu.org/software/findutils/ > Description: GNU utilities for finding files > License: GPL-2 > > > (In reply to comment #16) > > so findutils-4.5.2 has problems while findutils-4.5.3 does not. sounds fixed > > to me. > > >
This is redhat bz 439168 (URL Field). It happens when you upgrade GLIBC but do not rebuild findutils. Rebuilding findutils should fix it IOW. From the URL: ------- Comment #5 From Jakub Jelinek 2008-03-27 10:47:12 EDT ------- Current glibc is 2.7.90-12, not -9. Anyway, the bug is in xargs, the assert is bogus. With the 2.6.23+ kernels sysconf (_SC_ARG_MAX) can return large value than ARG_MAX macro. While bc_get_arg_max handles that correctly, xargs.c instead of asserting say assert(bc_ctl.arg_max <= bc_ctl.posix_arg_size_max); or (more expensive): assert(bc_ctl.arg_max <= bc_get_arg_max() - 2048); asserts: assert(bc_ctl.arg_max <= (ARG_MAX-2048)); which of course fails if sysconf (_SC_ARG_MAX) > ARG_MAX. ------- Comment #7 From Jakub Jelinek 2008-03-27 12:34:21 EDT ------- Next rawhide glibc will #undef ARG_MAX, which is more POSIXly correct and for findutils just a rebuild will be needed (though the assert is still a bad idea, otherwise whenever some OS changes from a fixed arg size limit to a dynamic one xargs will need rebuild), though it can break other programs which use ARG_MAX incorrectly (google codesearch e.g. showed arla, some ksh variants, etc.). Programs should use sysconf (_SC_ARG_MAX) if ARG_MAX is not defined, and _SC_ARG_MAX is defined.
*** Bug 235905 has been marked as a duplicate of this bug. ***
*** Bug 244461 has been marked as a duplicate of this bug. ***
*** Bug 270424 has been marked as a duplicate of this bug. ***
Had some of this happen recently while updating a forgotten system. In my case upgrading bash to 4.2 fixed the issue.