Fix bad interactions between patchAPI and parseAPI

[mxz297]

The general problem is that when users use patchAPI to modify CFG, some of the modification is not properly updated in parseAPI data structures.

[mxz297]

@hainest Ready to test

[hainest]

See #560 for details.

[hainest]

This seems to tickle the hang bug. I had to run it three times on x86 to get it to complete before the watchdog killed it. There were no regressions on x86, though (I'm still testing ARM).

[hainest]

The following regressions are seen on ARM with respect to the head of master. The last 8 have been seen with other PRs, and are likely non-deterministic failures.

test1_21,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test1_22,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test1_24,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test1_28,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test1_30,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test2_13,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test2_7,gcc,none,64,attach,NA,dynamic,PIC,FAILED

test5_1,g++,none,64,rewriter,NA,dynamic,nonPIC,CRASHED
test5_2,g++,none,64,rewriter,NA,dynamic,nonPIC,CRASHED
test5_3,g++,none,64,rewriter,NA,dynamic,nonPIC,CRASHED
test5_4,g++,none,64,rewriter,NA,dynamic,nonPIC,CRASHED
test5_5,g++,none,64,rewriter,NA,dynamic,nonPIC,CRASHED
test5_7,g++,none,64,rewriter,NA,dynamic,nonPIC,CRASHED
test5_8,g++,none,64,rewriter,NA,dynamic,nonPIC,CRASHED
test5_9,g++,none,64,rewriter,NA,dynamic,nonPIC,CRASHED

[mxz297]

The following regressions are seen on ARM with respect to the head of master. The last 8 have been seen with other PRs, and are likely non-deterministic failures.

test1_21,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test1_22,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test1_24,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test1_28,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test1_30,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test2_13,gcc,none,64,attach,NA,dynamic,PIC,FAILED
test2_7,gcc,none,64,attach,NA,dynamic,PIC,FAILED

I just had a testsuite run on leela. The above failures does not happen, but I got a hang on test_thread_6, with a different hang scenario that I encountered on ppcle....

[mxz297]

The PR is rebased and under testing.

[mxz297]

No regressions on x86, power or ARM.