Hi,
Once a trojan is found and files are moved to the chest, shouldn’t files be downloaded to replace those that were moved?
For example I just did a boot-time scan (results attached) and some Java files were moved to the chest. Shouldn’t I download Java again?
Thanks,
Jim
PS - I won’t be back for three days.
To start with the PUPs (Potentially Unwanted Programs) are generally tools/processes which could be used for good or evil being flagged. So you have to have an understanding of what is installed on your system and what those files are able to do, etc. or scanning for PUPs is going to cause more confusion than clarification.
In this case they are legitimate HP files in the HP recovery area, so there is no case of replacing them with good ones, just restore them from the chest.
The JAVA bases detections are most likely to be as a result of having an old (out of date version of JAVA). So nothing to do other than A) clear your JAVA cache and B) ensure you have the latest version of JAVA.
A. - CCleaner - Temp File Cleaner, etc..
B. - I would also suggest a visit to this site, which scans your system for out of date programs that have patches to close vulnerabilities, http://secunia.com/software_inspector/.
In addition to what DavidR said:
What Version of Java Are You Using?
http://javatester.org/version.html
you only have to replace files if system files have wrongly been removed…thats why it is not smart to delete, but send to chest so you have the option to restore
same thing with program files…or just download the progam and install again…
the java files detected does not belong to the java program itself http://en.wikipedia.org/wiki/Java_class_file
Clean, Quarantine, or Delete?
http://antivirus.about.com/b/2007/03/11/clean-quarantine-or-delete.htm
and why do you do boot scan…
The boot-time scanner is an expert feature, and was designed to be used when there’s something bad going on on the system.https://blog.avast.com/2010/02/04/v5-bts-auto-actions/
I have Java Version 1.6.0_29 from Sun Microsystems.
Thanks, I’ll do the CClenae and am scanning my system using http://javatester.org/version.html as I type this.
Thanks again!
Jim 
Jim,
Besides using the CCleaner, which most of us use here, you are better off scanning your system with the Secunia Software Inspector http://secunia.com/software_inspector/ as mentioned above. It will give you the direct download from the vendor if any patches are needed since software changes so rapidly these days making it easy for you to upgrade. It will also tell you how safe your browser is as well. And it’s free. 
Secunia Software Inspector is great and I use it a lot.
By the way the current version is Java SE 7 Update 2
That’s if you have switched to v7.For v6 which many people are still saying you should be using, it’s update 30.