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my ubuntu version is 12.04, and when cat /proc/version, it shows

Linux version 3.2.0-23-generic (buildd@crested) (gcc version 4.6.3 (Ubuntu/Linaro 4.6.3-1ubuntu4) ) #36-Ubuntu SMP Tue Apr 10 20:39:51 UTC 2012
Linux yuzhe-HP 3.2.0-23-generic #36-Ubuntu SMP Tue Apr 10 20:39:51 UTC 2012 x86_64 x86_64 x86_64 GNU/Linux

Here it shows the os is x86_64. To install oracle jdk over linux, install package comes with two versions x86 and x64. Which should I choose for a x86_64 system?

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It is a 64bit system. Using the designation x86 only for 32bit architectures is not quite correct. There are x86 processors with 64bit architecture. More precisely there are two different architectures designated as x64: the Intel x86 with 64bit and the AMD64.

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