If you are Using Unity click the top icon in the dash and search for "update manager".
Please report this bug against the 'update-manager' package and include the following error message: 'E: Read error - read (5 Input/output error), E: The package lists or status file could not be parsed or opened.'So something keep causing it, also my fast system has suddenly become very slow and windows like FF keep going grey for a few seconds, then coming back. After swapping these, I ran the apt-get update successfully and I was then able to open synaptic package manager without hitch.
Ive not made any big changes and previously such a speedy system, very worrying! I then again reset the repositories, and hit "reload". I then opened update manager which very quickly checked the lists and found I was up to date. Unfortunately although this does fix the problem it keeps happening, every day, or every time I use apt-get.
Done The following extra packages will be installed: deluge-common deluge-core libboost-filesystem1.37.0 libboost-python1.37.0 libboost-system1.37.0 libboost-thread1.37.0 libtorrent-rasterbar2 python-libtorrent Suggested packages: libtorrent-rasterbar-dbg The following NEW packages will be installed: deluge deluge-common deluge-core libboost-filesystem1.37.0 libboost-python1.37.0 libboost-system1.37.0 libboost-thread1.37.0 libtorrent-rasterbar2 python-libtorrent 0 upgraded, 9 newly installed, 0 to remove and 0 not upgraded. After this operation, 19.4MB of additional disk space will be used. Y Get:1 libboost-python1.37.0 1.37.0-3ubuntu3 [335k B] Get:2 libboost-system1.37.0 1.37.0-3ubuntu3 [124k B] Get:3 libboost-filesystem1.37.0 1.37.0-3ubuntu3 [146k B] Get:4 libboost-thread1.37.0 1.37.0-3ubuntu3 [140k B] Get:5 libtorrent-rasterbar2 0.14.2-2ubuntu1 [1162k B] Get:6 python-libtorrent 0.14.2-2ubuntu1 [457k B] Get:7 deluge-core 1.1.6+dfsg-2ubuntu1 [1317k B] Get:8 deluge-common 1.1.6+dfsg-2ubuntu1 [188k B] Get:9 deluge 1.1.6+dfsg-2ubuntu1 [257k B] Fetched 4127k B in 55s (74.8k B/s) dpkg: failed in buffer_read(fd): copy info file `/var/lib/dpkg/available': Input/output error E: Sub-process /usr/bin/dpkg returned an error code (2)~$ sudo apt-get install rtorrent Reading package lists...
Its not related to reboots as I did not reboot my computer for several days and the problem kept happening. Take a look in in /var/lib/apt/lists and see if any of the information/permissions look different than the rest: Someone emailed me asking if I solved this, so I thought I would update the thread- I had to use the solution provided by: the next 4 or 5 times I ran apt get.
Then, on the 5th time, it just stopped happening, and apt get works fine now. Although, I did continue to update ubuntu when prompted by the system updater (may or may not be relevant!