re-enable clang tests

But skip the grappa ones using the @SkipTest annotation
try to fix bug capturing process output
a debugging print for inhale
more cleanup
c_testquery: more cleanup
debug prints in base query template
debugging stdout on travis:
try to prepare outs better
travis: try shell in subprocess
more debug print flushing
remove all mention of counters from base query template
base_query.template: remove stderr prints
c_lang_enviroment: cleanups

better skipping,
trying to redirect stderr to stdout for make,
some comment cleanup
Run make clean before make, catch compile errors