I took the following steps: # emerge sync # emerge -u --deep world (this included a new portage version 2.0.48-r5) When emerge is busy building glibc 2.3.2-r1 my system gets a segmentation fault. After that I get segmentation faults continously: jynx root # emerge -up --deep world Segmentation fault jynx root # emerge -up --deep world These are the packages that I would merge, in order: Calculating world dependencies ...done! [ebuild U ] sys-libs/glibc-2.3.2-r1 [2.3.1-r4] [ebuild U ] net-mail/fetchmail-6.2.3 [6.2.2-r2] [ebuild U ] dev-php/php-4.3.2-r2 [4.3.2] [ebuild U ] app-admin/webmin-1.100-r1 [1.090] [ebuild N ] dev-perl/Crypt-SSLeay-0.49 [ebuild U ] dev-perl/libnet-1.16 [1.13] [ebuild U ] dev-perl/libwww-perl-5.69-r1 [5.69] [ebuild U ] net-fs/nfs-utils-1.0.5-r1 [1.0.3] Segmentation fault jynx root # emerge -u --deep world Calculating world dependencies ...done! >>> emerge (1 of 8) sys-libs/glibc-2.3.2-r1 to / >>> md5 src_uri ;-) glibc-2.3.2.tar.bz2 >>> md5 src_uri ;-) glibc-linuxthreads-2.3.2.tar.bz2 >>> Unpacking source... >>> Unpacking glibc-2.3.2.tar.bz2 to /var/tmp/portage/glibc-2.3.2-r1/work tar: Skipping to next header tar: Skipping to next header tar: Archive contains obsolescent base-64 headers bzip2: Data integrity error when decompressing. Input file = /usr/portage/distfiles/glibc-2.3.2.tar.bz2, output file = (stdout) It is possible that the compressed file(s) have become corrupted. You can use the -tvv option to test integrity of such files. You can use the `bzip2recover' program to attempt to recover data from undamaged sections of corrupted files. tar: Error exit delayed from previous errors !!! ERROR: sys-libs/glibc-2.3.2-r1 failed. !!! Function unpack, Line 294, Exitcode 2 !!! failure unpacking glibc-2.3.2.tar.bz2 jynx root # rm /usr/portage/distfiles/glibc-2.3.2.tar.bz2 jynx root # emerge -u --deep world Calculating world dependencies ...done! >>> emerge (1 of 8) sys-libs/glibc-2.3.2-r1 to / >>> Downloading ftp://ftp.snt.utwente.nl/pub/linux/gentoo//distfiles/glibc-2.3.2.tar.bz2 --00:17:29-- ftp://ftp.snt.utwente.nl/pub/linux/gentoo/distfiles/glibc-2.3.2.tar.bz2 => `/usr/portage/distfiles/glibc-2.3.2.tar.bz2' Resolving ftp.snt.utwente.nl... done. Connecting to ftp.snt.utwente.nl[130.89.175.1]:21... connected. Logging in as anonymous ... Logged in! ==> SYST ... done. ==> PWD ... done. ==> TYPE I ... done. ==> CWD /pub/linux/gentoo/distfiles ... done. ==> PASV ... done. ==> RETR glibc-2.3.2.tar.bz2 ... done. Length: 13,377,170 (unauthoritative) 100%[====================================>] 13,377,170 471.19K/s ETA 00:00 00:17:57 (471.19 KB/s) - `/usr/portage/distfiles/glibc-2.3.2.tar.bz2' saved [13377170] >>> md5 src_uri ;-) glibc-2.3.2.tar.bz2 >>> md5 src_uri ;-) glibc-linuxthreads-2.3.2.tar.bz2 >>> Unpacking source... >>> Unpacking glibc-2.3.2.tar.bz2 to /var/tmp/portage/glibc-2.3.2-r1/work tar: Skipping to next header tar: Archive contains obsolescent base-64 headers bzip2: Data integrity error when decompressing. Input file = /usr/portage/distfiles/glibc-2.3.2.tar.bz2, output file = (stdout) It is possible that the compressed file(s) have become corrupted. You can use the -tvv option to test integrity of such files. You can use the `bzip2recover' program to attempt to recover data from undamaged sections of corrupted files. tar: Error exit delayed from previous errors !!! ERROR: sys-libs/glibc-2.3.2-r1 failed. !!! Function unpack, Line 294, Exitcode 2 !!! failure unpacking glibc-2.3.2.tar.bz2 That's it :-( When I get the source from gentoo.oregonstate.edu I get following error !!! File is corrupt or incomplete. (Digests do not match) >>> our recorded digest: ede969aad568f48083e413384f20753c >>> your file's digest: d19eef3de53149996cf000d480d26c70 !!! File does not exist: /usr/portage/distfiles//glibc-2.3.2.tar.bz2 Reproducible: Always Steps to Reproduce: 1. emerge -u --deep world 2. 3. Actual Results: segmentation fault Expected Results: build a new glibc jynx mail # emerge info Portage 2.0.48-r5 (default-x86-1.4, gcc-3.2.3, glibc-2.3.1-r4) ================================================================= System uname: 2.4.21 i686 Pentium III (Coppermine) GENTOO_MIRRORS="ftp://ftp.snt.utwente.nl/pub/linux/gentoo/ http://gentoo.oregonstate.edu/ http://www.ibiblio.org/pub/Linux/distributions/gentoo" CONFIG_PROTECT="/etc /var/qmail/control /usr/share/config /usr/kde/2/share/config /usr/kde/3/share/config /usr/X11R6/lib/X11/xkb" CONFIG_PROTECT_MASK="/etc/gconf /etc/env.d" PORTDIR="/usr/portage" DISTDIR="/usr/portage/distfiles" PKGDIR="/usr/portage/packages" PORTAGE_TMPDIR="/var/tmp" PORTDIR_OVERLAY="" USE="x86 oss apm arts avi crypt cups encode foomaticdb gif gpm imlib jpeg libg++ mad mikmod mmx mpeg ncurses nls oggvorbis pdflib png quicktime sdl slang spell svga truetype xml2 xmms xv zlib gdbm berkdb readline java X tcpd pam libwww ssl perl python motif opengl -3dnow -gnome -gtk -kde -qt acl sse snmp imap ldap samba usb" COMPILER="gcc3" CHOST="i686-pc-linux-gnu" CFLAGS="-march=pentium3 -O3 -pipe" CXXFLAGS="-march=pentium3 -O3 -pipe" ACCEPT_KEYWORDS="x86" MAKEOPTS="-j2" AUTOCLEAN="yes" SYNC="rsync://rsync.gentoo.org/gentoo-portage" FEATURES="sandbox ccache"
I am unable to run a emerge sync succesfully ? After the message updating portage cache a lot of the following errors occurs: aux_get(): (1) Error in app-misc/celestia-1.3.0 ebuild. Check for syntax error or corruption in the ebuild. (--debug) -!!! Unable to copy '/usr/portage/metadata/cache/app-misc/celestia-1.2.4' to '/var/cache/edb/dep//app-misc/celestia-1.2.4' !!! [Errno 5] Input/output error: '/var/cache/edb/dep//app-misc/celestia-1.2.4' aux_get(): (1) Error in app-misc/celestia-1.2.4 ebuild. Check for syntax error or corruption in the ebuild. (--debug) / aux_get(): (2) Error in app-office/openoffice-1.1_rc1 ebuild. Check for syntax error or corruption in the ebuild. (--debug) - aux_get(): (0) Error in app-text/gpdf-0.104 ebuild. Check for syntax error or corruption in the ebuild. (--debug) \ aux_get(): (0) Error in dev-java/ibm-jre-1.4.0-r2 ebuild. Check for syntax error or corruption in the ebuild. (--debug) / aux_get(): (0) Error in dev-php/php-5.0_beta1 ebuild. Check for syntax error or corruption in the ebuild. (--debug) etc etc
Please try running memtest86 on your system. This looks like faulty hardware, not like a software problem.
I did upgrade my system from 256MB to 512MB RAM but did some succesfully builds after that. I will run memtest86 to test my memory.
do you have enough free diskspace ?
- I think diskspace is not a problem. This is my df output: jynx root # df Filesystem 1K-blocks Used Available Use% Mounted on /dev/root 1976524 58656 1817464 4% / /dev/vg/lvusr 8388348 1376440 7011908 17% /usr /dev/vg/lvvar 4194172 125160 4069012 3% /var /dev/vg/lvtmp 2097084 32876 2064208 2% /tmp /dev/vg/lvopt 2097084 112636 1984448 6% /opt /dev/vg/lvhome 2097084 348356 1748728 17% /home /dev/vg/lvdata 8388348 4982148 3406200 60% /data /dev/vg/lvoracle 4194172 32840 4161332 1% /opt/oracle /dev/vg/lvpleasure 8388348 2320548 6067800 28% /data/pleasure none 127392 0 127392 0% /dev/shm - The memtest however show a lot of errors. I booted my system from the Gentoo 1.4_rc4 live CD and choose memtest. A lot of errors ocurred in the range from 286MB and 350MB. I removed one 256 MB memory module and ran memtest again. This time I saw no errors (did not finish the whole test however). - Started a # emerge sync but still problems: aux_get(): (1) Error in app-editors/vim-core-6.2_pre2 ebuild. Check for syntax error or corruption in the ebuild. (--debug) \!!! Unable to copy '/usr/portage/metadata/cache/app-editors/vim-core-6.2_pre6-r1' to '/var/cache/edb/dep//app-editors/vim-core-6.2_pre6-r1' !!! [Errno 5] Input/output error: '/var/cache/edb/dep//app-editors/vim-core-6.2_pre6-r1' aux_get(): (1) Error in app-editors/vim-core-6.2_pre6-r1 ebuild. Check for syntax error or corruption in the ebuild. (--debug) \chmod: failed to get attributes of `/var/cache/edb/dep//app-editors/xemacs-21.4.12': Permission denied chmod: failed to get attributes of `/var/cache/edb/dep//app-editors/gnome-chord-0.7.0': Permission denied chmod: failed to get attributes of `/var/cache/edb/dep//app-editors/kxmleditor-0.8.1': Permission denied chmod: failed to get attributes of `/var/cache/edb/dep//app-editors/kxmleditor-0.8': Permission denied ...done! - Just started a # emerge -u --deep world Awaiting result
- the emerge fails. It is getting hopeless. One positive remark because there are no segmentation faults after I removed one 256MB Dimm. Still 256MB memory left. jynx root # emerge -u --deep world Calculating world dependencies \ aux_get(): (1) Error in app-editors/emacs-21.2-r1 ebuild. Check for syntax error or corruption in the ebuild. (--debug) - aux_get(): (1) Error in app-editors/emacs-21.2-r1 ebuild. Check for syntax error or corruption in the ebuild. (--debug) !!! all ebuilds that could satisfy "virtual/emacs" have been masked. !!! (dependency required by "app-emacs/php-mode-102" [ebuild]) !!! Problem with ebuild app-emacs/php-mode-102 !!! Possibly a DEPEND/*DEPEND problem. !!! Depgraph creation failed.
last error is a known bug marking it as dupe. *** This bug has been marked as a duplicate of 9050 ***
- sorry but I do not have the line in my virtuals file like described in bug 9050. I do have permission problems when accessing file in /var/cache/ebd. Even with ls. jynx dep # ls -al app-editors ls: app-editors/xemacs-21.4.12: Permission denied ls: app-editors/gnome-chord-0.7.0: Permission denied ls: app-editors/kxmleditor-0.8.1: Permission denied ls: app-editors/kxmleditor-0.8: Permission denied total 3 drwsrwsr-x 2 root portage 184 Jul 29 18:29 . drwxrwsr-x 84 root portage 2336 Jul 29 19:59 .. - Segmentation faults show up again :-( jynx dep # emerge sync >>> starting rsync with rsync://rsync.gentoo.org/gentoo-portage... This is rsync8.de.gentoo.org. receiving file list ... 55612 files to consider rsync[10611] (receiver) heap statistics: arena: 7754232 (bytes from sbrk) ordblks: 761 (chunks not in use) smblks: 2 hblks: 1 (chunks from mmap) hblkhd: 258048 (bytes from mmap) usmblks: 0 fsmblks: 40 uordblks: 6863032 (bytes used) fordblks: 891200 (bytes free) keepcost: 70752 (bytes in releasable chunk) Number of files: 55612 Number of files transferred: 0 Total file size: 43372207 bytes Total transferred file size: 0 bytes Literal data: 0 bytes Matched data: 0 bytes File list size: 1237029 Total bytes written: 164 Total bytes read: 1237096 wrote 164 bytes read 1237096 bytes 145560.00 bytes/sec total size is 43372207 speedup is 35.06 rm: cannot remove `/var/cache/edb/dep//app-editors/xemacs-21.4.12': Permission denied rm: cannot remove `/var/cache/edb/dep//app-editors/gnome-chord-0.7.0': Permission denied rm: cannot remove `/var/cache/edb/dep//app-editors/kxmleditor-0.8.1': Permission denied rm: cannot remove `/var/cache/edb/dep//app-editors/kxmleditor-0.8': Permission denied >>> Updating Portage cache... |Segmentation fault - Now I try emerge sync again but the system does not respond anymore (no ssh sessions possible anymore) On the console an error message says: Oops: 0000 CPU: 0 EIP: 0010: [<c01ca945>] not tainted EFLAGS: 00010282 .... process: python2.2 Stack: ... ... Call trace: ... ... What could be wrong. I had never problems with this system until the last emerge world with glibc in it !? (I am unable to uncheck "Leave as RESOLVED DUPLICATE")
At this point (after the last emerge sync) the system hangs and I am unable to login Because I am stuck and this does not look like a known bug with a resolution I did the following: - reboot (actually had to turn off the power) - mv /var/cache/edb/dep /var/cache/edb/dep.old - mkdir /var/cache/edb/dep - chmod g+w /var/cache/edb/dep - chmod g+s /var/cache/edb/dep After that I tried emerge sync and this works with no errors ! Now I will try emerge world: jynx root # emerge -up --deep world These are the packages that I would merge, in order: Calculating world dependencies ...done! [ebuild U ] sys-libs/glibc-2.3.2-r1 [2.3.1-r4] [ebuild U ] net-mail/fetchmail-6.2.3 [6.2.2-r2] [ebuild U ] net-print/cups-1.1.19-r1 [1.1.19] [ebuild U ] dev-php/php-4.3.2-r2 [4.3.2] [ebuild U ] net-libs/liblockfile-1.03-r1 [1.03] [ebuild U ] app-admin/webmin-1.100-r1 [1.090] [ebuild N ] dev-perl/Crypt-SSLeay-0.49 [ebuild U ] dev-perl/libnet-1.16 [1.13] [ebuild U ] dev-perl/libwww-perl-5.69-r1 [5.69] [ebuild U ] net-fs/nfs-utils-1.0.5-r1 [1.0.3] jynx root # emerge -u --deep world Calculating world dependencies ...done! >>> emerge (1 of 10) sys-libs/glibc-2.3.2-r1 to / !!! File is corrupt or incomplete. (Digests do not match) >>> our recorded digest: ede969aad568f48083e413384f20753c >>> your file's digest: b6306888ae749e28ca652df30107b95a !!! File does not exist: /usr/portage/distfiles//glibc-2.3.2.tar.bz2 - Hmm not so good...I try removing the current distfile and try again jynx root # rm /usr/portage/distfiles//glibc-2.3.2.tar.bz2 20:48:36 (469.16 KB/s) - `/usr/portage/distfiles/glibc-2.3.2.tar.bz2' saved [13377170] >>> md5 src_uri ;-) glibc-2.3.2.tar.bz2 >>> md5 src_uri ;-) glibc-linuxthreads-2.3.2.tar.bz2 >>> Unpacking source... >>> Unpacking glibc-2.3.2.tar.bz2 to /var/tmp/portage/glibc-2.3.2-r1/work - looks better the build actually is progressing. What caused all this trouble is a mystery to me. Can one bad memory module causes this kind of portage problems. Still compiling :-)
emerge world succesfully finished. But for sure it was not bug 9050.
thx 4 info
Since you've worked with corrupt memory for some time, everything you changed during this time may be broken. Check your emerge logs and re-emerge everything that was built during this time, and run a filesystem check before. Good luck. Re-Opening....
... and setting to resolved/invalid.
