I'm getting errors with 2.6 & 2.7 on different Windows 7 systems and otherwise good SP apks:
Slow Netbook with Java 1.7.0_17 "Error: Sign Timeout!"
Faster Laptop with Java 1.6.0_33 "Error: Sign Timeout!"
Powerful Workstation with Java 1.8.0_51 "Error create Process() Java Align!"
All in later stages of signing.
APK's are current good 2.35 & 2.37, including some known good working ones I've just used as a sanity check and selecting preset paths only.