I have seen a similar issue using 'yum check-update' on Ubunty Trusty
with libxml2=2.9.1+dfsg1-3ubuntu4.8 failing to parse the primary.xml.gz
index.
$ yum check-update
custom-repo:
[########################################################################### ]
6900/6903
(process:1482): GLib-WARNING **: GError set over the top of a previous GError
or uninitialized memory.
This indicates a bug in someone's code. You must ensure an error is NULL before
it's set.
The overwriting error message was: Parsing primary.xml error: attributes
construct error
(process:1482): GLib-WARNING **: GError set over the top of a previous GError
or uninitialized memory.
This indicates a bug in someone's code. You must ensure an error is NULL before
it's set.
The overwriting error message was: Parsing primary.xml error: Couldn't find end
of Start Tag size line 238347
(process:1482): GLib-WARNING **: GError set over the top of a previous GError
or uninitialized memory.
This indicates a bug in someone's code. You must ensure an error is NULL before
it's set.
The overwriting error message was: Parsing primary.xml error: Premature end of
data in tag package line 238338
(process:1482): GLib-WARNING **: GError set over the top of a previous GError
or uninitialized memory.
This indicates a bug in someone's code. You must ensure an error is NULL before
it's set.
The overwriting error message was: Parsing primary.xml error: Premature end of
data in tag metadata line 2
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 288, in user_main
errcode = main(args)
File "/usr/share/yum-cli/yummain.py", line 140, in main
result, resultmsgs = base.doCommands()
File "/usr/share/yum-cli/cli.py", line 436, in doCommands
self._getTs(needTsRemove)
File "/usr/lib/python2.7/dist-packages/yum/depsolve.py", line 101, in _getTs
self._getTsInfo(remove_only)
File "/usr/lib/python2.7/dist-packages/yum/depsolve.py", line 112, in
_getTsInfo
pkgSack = self.pkgSack
File "/usr/lib/python2.7/dist-packages/yum/__init__.py", line 892, in <lambda>
pkgSack = property(fget=lambda self: self._getSacks(),
File "/usr/lib/python2.7/dist-packages/yum/__init__.py", line 673, in
_getSacks
self.repos.populateSack(which=repos)
File "/usr/lib/python2.7/dist-packages/yum/repos.py", line 294, in
populateSack
sack.populate(repo, mdtype, callback, cacheonly)
File "/usr/lib/python2.7/dist-packages/yum/yumRepo.py", line 190, in populate
dobj = repo_cache_function(xml, csum)
File "/usr/lib/python2.7/dist-packages/sqlitecachec.py", line 46, in
getPrimary
self.repoid))
TypeError: Parsing primary.xml error: Specification mandate value for attribute
archive
I have seen this a few times, but never took the time to dig into it
until recently. What I found was the size of the primary.xml.gz file is
what seems to be causing the failure. If (size of file in bytes)/(8192
bytes) has a remainder of 1 byte this failure will occur. Basically, in
the case of "yum check-update", if the last read (that returns more than
0 bytes) on the primary.xml.gz file ONLY contains a single null
character it fails.
strace excerpt (with the primary.xml.gz as fd 5):
read(5, "\0", 8192) = 1
read(5, "", 8191) = 0
After the above it fails immediately.
Updating libxml2 to v2.9.3+dfsg1-1ubuntu0.2 from the Ubuntu Xenial repos
seems to fix the problem, but that is not an acceptable solution in my
case because the Xenial package brings in some other dependencies that I
cannot update to.
Any chance someone could fix this issue for Ubuntu Trusty?
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https://bugs.launchpad.net/bugs/1375637
Title:
Premature end of data in tag file line 247651 with libxml2
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