Updating Fedora

I'm trying to install the updates for fedora and I'm getting the following error:

Component: Software Updater
Summary: TB9f78d0ec main.py:244:executeatabaseError: database disk image is malformed

Traceback (most recent call last):
File "/usr/sbin/pup", line 389, in ?
main()
File "/usr/sbin/pup", line 385, in main
pup.run()
File "/usr/sbin/pup", line 357, in run
self.doRefresh()
File "/usr/sbin/pup", line 161, in doRefresh
self.reposSetup(pbar)
File "/usr/lib/python2.4/site-packages/pirut/__init__.py", line 154, in reposSetup
self.doSackSetup()
File "/usr/lib/python2.4/site-packages/yum/__init__.py", line 291, in doSackSetup
self.repos.populateSack(which=repos)
File "/usr/lib/python2.4/site-packages/yum/repos.py", line 289, in populateSack
dobj = repo.cacheHandler.getPrimary(xml, csum)
File "/usr/lib/python2.4/site-packages/yum/sqlitecache.py", line 96, in getPrimary
return self._getbase(location, checksum, 'primary')
File "/usr/lib/python2.4/site-packages/yum/sqlitecache.py", line 89, in _getbase
self.updateSqliteCache(db, parser, checksum, metadatatype)
File "/usr/lib/python2.4/site-packages/yum/sqlitecache.py", line 373, in updateSqliteCache
cur.execute("DELETE FROM "+table+ " where pkgKey in %s" % delpkgs)
File "/usr/lib/python2.4/site-packages/sqlite/main.py", line 244, in execute
self.rs = self.con.db.execute(SQL)
DatabaseError: database disk image is malformed

Local variables in innermost frame:
self: <sqlite.main.Cursor instance at 0xb3d390ac>
parms: ()
SQL: DELETE FROM provides where pkgKey in (11549,11617,11660,11515,11770,11588,11606,11733,2 50,11509,11745,11529,11858,1432,11557,11853,11622, 11540,11487,11550,11581,11761,11719,11816,11849,11 634,11673,11631,11584,11481,11675,11715,11575,1164 9,11497,11535,11762,11763,11525,11735,11818,11601, 11669,11865,11613,11556,11499,11500,11697,11541,11 695,11513,11706,11723,11683,11757,11616,11688,1183 9,11643,11609,11732,11676,11811,11648,11498,11595, 11580,11555,11646,11519,11846,11823,11837,11614,11 844,11636,11492,11717,11603,11790,11626,11705,1163 7,11814,11713,11833,11521,11604,11516,11567,11729, 11602,11854,11524,11718,11488,11563,11855,11680,11 668,11739,11583,11793,11783,11736,11572,11806,1179 5,11530,11756,11655,11768,11504,11711,11767,11832, 11741,11671,11689,11647,11600,11862,11759,11791,11 579,11522,11589,11543,11700,11815,11807,11552,1165 8,11809,11577,11632,11482,11797,11786,11860,11625, 11623,11690,11478,11578,11722,11721,11821,11685,11 827,11825,11781,11772,11702,11624,11629,11539,1169 1,11773,364,11851,11678,11641,11569,11708,11508,11 817,11496,11652,11659,11566,11554,11796,11545,1168 1,11766,11476,11507,11493,11755,11672,11664,11640, 11780,11608,11710,11805,11820,11573,11785,11856,11 548,11490,11621,11651,11716,11611,11544,11748,1148 9,11788,11787,11502,11662,11694,11479,11840,11594, 11674,11831,11542,11784,11531,11599,11505,11800,11 619,11570,11591,11698,11775,11644,11537,11506,1150 1,11494,11779,11536,11696,11804,11686,11835,11707, 11754,11682,11861,11802,11758,11738,11628,11819,11 776,11491,11728,11746,11703,11630,11838,11565,1176 9,11670,11526,11777,11666,11517,11564,11638,11528, 11495,11822,11607,11826,1196,11760,11576,11799,118 45,11560,11665,11701,11734,11726,11813,11727,11778 ,11532,11752,11653,11551,11857,11642,11538,11750,1 1699,11635,11667,11679,11558,11574,11480,11843,118 08,11605,11527,11618,11867,11847,11615,11829,11850 ,11582,11693,11687,11774,11859,11868,11712,11771,1 1830,11842,11866,11590,11598,11747,11596,11730,117 94,11812,11585,11477,11511,11656,11764,11512,11657 ,11593,11848,11782,11743,11753,11737,11863,11639,1 1725,11714,11559,11485,11547,11751,11568,11709,117 31,11724,11841,11834,11627,11720,11650,11546,11633 ,1518,11765,11533,11663,11692,11803,11586,11645,11 677,11587,11486,11534,11792,11514,11562,11620,1186 4,11740,11742,11744,11610,11801,11520,11523,11484, 11749,11810,11553,11510,11561,11661,946,11518,1178 9,11828,11836,11824,11654,11684,11483,11597,11798, 11571,11852,11592,11704,11503,11612)

Is this caused from by computer?

[markjensen]

On the surface, it sounds like your rpm database may be corrupt? Did you have some sort of problems updating/installing before, perhaps something that locked up or was interrupted for some reason?

The rpm command has a "rebuild database" option. More info here: http://www.rpm.org/hintskinks/repairdb/

Maybe a good way to peek at the health of your rpm database would be a rpm -qa to query and list all packages in the database...


Also, what is the exact command you are using to do the update?

That didn't work. If it helps, I updated it on I think monday then I shut it down and installed my new hard drive which I installed Suse on. I hope that helps. Kaleb

Sorry, I just realized that you were wondering which command I'm using. I've use yum update and when that didn't work, I tryed updating it through the GUI which came out with the same error.

[Seve]

Hello:
Did you install some non-compatible repos or a non-std rpm from somewhere, which may have replaced some base FC5 rpms?
No expert here, but it looks like python is borked?
I know this doesn't fix your problem, just trying to figure out what caused it.
Seve

Thats fine - Thanks for your help! I don't think so because the last thing I did with it was do some updates on monday and then I shut it down and booted up into Suse on another hard drive. Kaleb

[marko]

Try as root:

# yum clean dbcache

because I suspect sqllite's db is what's bad, then re-run your

# yum update

if that doesn't help, *really* clean it out and do your
yum update:

yum clean all
yum clean metadata
yum clean cache
yum clean dbcache

yum update

Mark

Thanks marko! That worked! Also you were right, it was the dbcache that needed to be cleaned