Bug 1031271

Summary: [abrt] yum-3.4.3-54.fc18: misc.py:975:stat_f:OSError: [Errno 5] Input/output error: '/var/lib/yum/yumdb/l/41f8992e43ec601c38929dc44d3569f58e5df9ca-libreport-python-2.1.7-1.fc18-x86_64/from_repo'
Product: [Fedora] Fedora Reporter: Shivam Gupta <hellis_waitin>
Component: yumAssignee: Packaging Maintenance Team <packaging-team-maint>
Status: CLOSED NOTABUG QA Contact: Fedora Extras Quality Assurance <extras-qa>
Severity: unspecified Docs Contact:
Priority: unspecified    
Version: 18CC: admiller, ffesti, firas.alkafri, hellis_waitin, packaging-team-maint, zpavlas
Target Milestone: ---   
Target Release: ---   
Hardware: x86_64   
OS: Unspecified   
Whiteboard: abrt_hash:3e9e2592db19fef951ce6008465c61450501b9b9
Fixed In Version: Doc Type: Bug Fix
Doc Text:
Story Points: ---
Clone Of: Environment:
Last Closed: 2013-11-18 09:06:09 UTC Type: ---
Regression: --- Mount Type: ---
Documentation: --- CRM:
Verified Versions: Category: ---
oVirt Team: --- RHEL 7.3 requirements from Atomic Host:
Cloudforms Team: --- Target Upstream Version:
Attachments:
Description Flags
File: backtrace
none
File: environ none

Description Shivam Gupta 2013-11-16 10:03:50 UTC
Version-Release number of selected component:
yum-3.4.3-54.fc18

Additional info:
reporter:       libreport-2.1.7
cmdline:        /usr/bin/python /usr/bin/yum update
executable:     /usr/bin/yum
kernel:         3.11.4-101.fc18.x86_64
runlevel:       N 5
type:           Python
uid:            0

Truncated backtrace:
misc.py:975:stat_f:OSError: [Errno 5] Input/output error: '/var/lib/yum/yumdb/l/41f8992e43ec601c38929dc44d3569f58e5df9ca-libreport-python-2.1.7-1.fc18-x86_64/from_repo'

Traceback (most recent call last):
  File "/usr/bin/yum", line 29, in <module>
    yummain.user_main(sys.argv[1:], exit_code=True)
  File "/usr/share/yum-cli/yummain.py", line 319, in user_main
    errcode = main(args)
  File "/usr/share/yum-cli/yummain.py", line 144, in main
    result, resultmsgs = base.doCommands()
  File "/usr/share/yum-cli/cli.py", line 485, in doCommands
    return self.yum_cli_commands[self.basecmd].doCommand(self, self.basecmd, self.extcmds)
  File "/usr/share/yum-cli/yumcommands.py", line 405, in doCommand
    return base.updatePkgs(extcmds, update_to=(basecmd == 'update-to'))
  File "/usr/share/yum-cli/cli.py", line 899, in updatePkgs
    self.update()
  File "/usr/lib/python2.7/site-packages/yum/__init__.py", line 4768, in update
    tx_return.extend(self.update(po=new))
  File "/usr/lib/python2.7/site-packages/yum/__init__.py", line 4969, in update
    available_pkg, updated_pkg)
  File "/usr/lib/python2.7/site-packages/yum/__init__.py", line 4687, in _add_up_txmbr
    txmbr = self.tsInfo.addUpdate(upkg, ipkg)
  File "/usr/lib/python2.7/site-packages/yum/transactioninfo.py", line 507, in addUpdate
    self.add(txmbr)
  File "/usr/lib/python2.7/site-packages/yum/transactioninfo.py", line 277, in add
    self.addUpdated(oldpo, txmember.po)
  File "/usr/lib/python2.7/site-packages/yum/transactioninfo.py", line 532, in addUpdated
    txmbr = TransactionMember(po)
  File "/usr/lib/python2.7/site-packages/yum/transactioninfo.py", line 806, in __init__
    po.yumdb_info.get('from_repo')
  File "/usr/lib/python2.7/site-packages/yum/rpmsack.py", line 1853, in get
    res = self._read(attr)
  File "/usr/lib/python2.7/site-packages/yum/rpmsack.py", line 1768, in _read
    info = misc.stat_f(fn, ignore_EACCES=True)
  File "/usr/lib/python2.7/site-packages/yum/misc.py", line 975, in stat_f
    return os.stat(filename)
OSError: [Errno 5] Input/output error: '/var/lib/yum/yumdb/l/41f8992e43ec601c38929dc44d3569f58e5df9ca-libreport-python-2.1.7-1.fc18-x86_64/from_repo'

Local variables in innermost frame:
ignore_EACCES: True
e: OSError(5, 'Input/output error')
filename: '/var/lib/yum/yumdb/l/41f8992e43ec601c38929dc44d3569f58e5df9ca-libreport-python-2.1.7-1.fc18-x86_64/from_repo'

Comment 1 Shivam Gupta 2013-11-16 10:03:56 UTC
Created attachment 824855 [details]
File: backtrace

Comment 2 Shivam Gupta 2013-11-16 10:04:00 UTC
Created attachment 824856 [details]
File: environ

Comment 3 Zdeněk Pavlas 2013-11-18 09:06:09 UTC
stat() of existing file fails with I/O error, your FS is seriously broken. You can try fixing this with fsck. As a last resort, just "rm" the inacessible file. (/var/lib/yum/yumdb/ directory holds information such as from which repo and why packages were installed, but it's not essential for basic pkg management).