Fix the main library stop routine for timemory (#39)

* Fix the main library stop routine for timemory

- the main pop_timemory function was popping too many calls
- this primarily affected recursive calls

* Lengthen the timeout for the Configure CMake step

* Fix python tests

- new validate-timemory-json.py script

* Documentation update

- Call-counts in timemory output examples in documentation were affected by the changes

* Fix the per-thread metrics during finalization

- pthread_create_mutex starts/stops the per-thread data
- removed unintentional continue statement

* Docs tweaks

* Fix lap counter on per-thread metrics

[ROCm/rocprofiler-systems commit: a142b2029d]

projects/rocprofiler-systems/source/lib/omnitrace/library.cpp

@@ -696,8 +696,10 @@ omnitrace_init_tooling_hidden()
             if(get_state() != State::Finalized)
             {
                 if(get_use_sampling()) sampling::shutdown();
-                if(thread_data<omnitrace_thread_bundle_t>::instance())
-                    thread_data<omnitrace_thread_bundle_t>::instance()->stop();
+                auto& _thr_bundle = thread_data<omnitrace_thread_bundle_t>::instance();
+                if(_thr_bundle && _thr_bundle->get<comp::wall_clock>() &&
+                   _thr_bundle->get<comp::wall_clock>()->get_is_running())
+                    _thr_bundle->stop();
             }
         } };
         (void) _thread_setup;
@@ -744,6 +746,7 @@ omnitrace_init_tooling_hidden()
                 _data.allocator.destroy(_v);
                 _data.allocator.deallocate(_v, 1);
                 _data.bundles.erase(_data.bundles.begin() + (i - 1));
+                break;
             }
         }
     };
@@ -1122,7 +1125,6 @@ omnitrace_finalize_hidden(void)
         if(itr && itr->get<comp::wall_clock>() &&
            !itr->get<comp::wall_clock>()->get_is_running())
         {
-            continue;
             std::string _msg = JOIN("", *itr);
             auto        _pos = _msg.find(">>>  ");
             if(_pos != std::string::npos) _msg = _msg.substr(_pos + 5);