I get the exact same error trying to install yEd 3.9.2 on a Windows 7 64 bit edition. The log sais:
Started executable \\SERVER\Download\Windows\2012-07-22 - yEd 3.9.2\yEd-3.9.2_setup.exe at Sun Jul 22 16:37:27 2012
number of sections: 5
size of optional headers: 224
resSectionTableStart: 536
rawDataSize: 32768, rawDataOffset: 202240
sun.locale.formatasdefault is true
language/country is de_DE
change working directory to \\SERVER\Download\Windows\2012-07-22 - yEd 3.9.2
single instance mode
semaphore name Local\__callisto_download_windows_2012-07-22_-_yed_3.9.2_yed-3.9.2_setup.exe, code 0, value 00000094
Init done
Starting work
number of sections: 5
size of optional headers: 224
resSectionTableStart: 536
rawDataSize: 32768, rawDataOffset: 202240
starting at 235008
verifying integrity length 42595005
ERROR: check ReadFile failed 0 183 8009123