Update cm10.1-apply.sh

Updated patch level for "msm8660: Add GPS HAL" and "msm8660: Update  for new kernel and userspace"

Added "msm8660: Remove legacy WiFi flag" http://review.cyanogenmod.org/#/c/36198/

Commented out merged commit "SamsungQualcommUiccRIL: fix responseCallList for v7 RIL"