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Malwarebytes and Ubuntu 10.04

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I am new to the Linux operating system, but I have been using Malwarebytes for as long as I can remember to help me rid computers of malicious software. However I recent attempt to sweep a computer has rendered it useless. Here are some details and then I will get to the point. I am currently running Ubuntu on an external hard drive. The computer I am working on will boot from the EHD, my problem is I was able to boot once from the windows drive. When I ran Malwarebytes there were over 500 infections in the first 5 minutes and then computer complete froze and I was unable to rid the infections. What I am curious about doing is finding a solution. My initial idea was to run Malwarebytes on Ubuntu and scan the infected drive. However, I have been unsuccessful in doing so. I have read that WINE, in theory, should allow me to do this. I however have not been able to make it happen. Any help would be greatly appreciated.

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A few things to concider....

1. Malwarebytes' Anti-Malware was designed to run on the computer that is infected in Normal mode (preferably). It is not supported to be run in any portable mode like with WINE for example, and it will not run in any Linux environment.

2. If you are using Malwarebytes' Anti-Malware for as long as you can remember to help you rid computers of malicious software, sounds to me that you should have a Technicians Licence and if you do not then you are in violation of the EULA.

3. If you have a valid license you can contact corporate-support@malwarebytes.org with your order number and details and they will be happy to assist you with your issue.

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