User API + reorganized lib folders (#30)

* User API + reorganized lib folders

- omnitrace_user_start_trace
- omnitrace_user_stop_trace
- omnitrace_user_start_thread_trace
- omnitrace_user_stop_thread_trace
- omnitrace_user_push_region
- omnitrace_user_pop_region

* New OpenMP examples/tests

* Fix to KokkosP

* OMPT support

- fixed omnitrace instrumenting reporting
- common invoke improvements
- component::user_region

* exclude kmp_threadprivate_

* Separate omnitrace into multiple files

* PTL and timemory submodule updates

* Active guards + USE_OMPT guards in omnitrace-dl

* Tweak transpose default iterations

* omnitrace-precommit build target

* Omnitrace exe restructuring pt 2

- Never instrument functions with less than 4 instructions
- Never instrument ompt_start_tool or nanosleep
- module_function serializes heuristics
- removed hash stuff from omnitrace
- removed instr_procedures lambda
- WAITPID_DEBUG_MESSAGE

* set_state, "_hidden" fix, CI exceptions, backtrace fix

- set_state function
- fixed "_hidden" from appearing in print macros using __FUNCTION__
- OMNITRACE_CI_THROW
- more CI checks in library
- fixed backtrace init value sample issue being ignored

* Tweaks to OMPT tests

* cmake-formatting

* Removed debug output from backtrace processing

* Fix warnings and verbosity

* omnitrace-dl fix for libomp

* omnitrace-avail fixes

- remove second omnitrace_init_library call
- fix -r option not working

* Additional testing

- source/bin/tests
- tests for omnitrace-exe
- tests for omnitrace-avail

* cmake-format

* Reduce runtime of openmp-lu

* Update openmp-lu and tests timeout

* openmp-lu and CI tweaks

- decrease iterations
- OMP_NUM_THREADS=2
- install clang and libomp-dev in linux-ci
- fix data-files in linux-ci

.github/workflows/linux-ci.yml

@@ -28,7 +28,7 @@ jobs:
       timeout-minutes: 5
       run:
         sudo apt-get update &&
-        sudo apt-get install -y build-essential m4 autoconf libtool python3-pip libtbb-dev libboost-{atomic,system,thread,date-time,filesystem,timer}-dev ${{ matrix.compiler }} ${{ matrix.mpi }} &&
+        sudo apt-get install -y build-essential m4 autoconf libtool python3-pip libtbb-dev libboost-{atomic,system,thread,date-time,filesystem,timer}-dev clang libomp-dev ${{ matrix.compiler }} ${{ matrix.mpi }} &&
         python3 -m pip install --upgrade pip &&
         python3 -m pip install 'cmake==3.16.3'
 
@@ -107,7 +107,7 @@ jobs:
       with:
         name: data-files
         path: |
-          ${{ github.workspace }}/build/omnitrace-tests-output/*.txt
+          ${{ github.workspace }}/build/omnitrace-tests-output/**/*.txt
 
   ubuntu-bionic:
     runs-on: ubuntu-18.04
@@ -202,7 +202,7 @@ jobs:
       with:
         name: data-files
         path: |
-          ${{ github.workspace }}/build/omnitrace-tests-output/*.txt
+          ${{ github.workspace }}/build/omnitrace-tests-output/**/*.txt
 
   ubuntu-focal-external:
     runs-on: ubuntu-20.04
@@ -217,7 +217,7 @@ jobs:
       timeout-minutes: 5
       run:
         sudo apt-get update &&
-        sudo apt-get install -y build-essential m4 autoconf libtool python3-pip libboost-{atomic,system,thread,date-time,filesystem,timer}-dev libtbb-dev libiberty-dev ${{ matrix.compiler }} &&
+        sudo apt-get install -y build-essential m4 autoconf libtool python3-pip libboost-{atomic,system,thread,date-time,filesystem,timer}-dev libtbb-dev libiberty-dev clang libomp-dev ${{ matrix.compiler }} &&
         sudo python3 -m pip install --upgrade pip &&
         python3 -m pip install 'cmake==3.16.3'
 
@@ -321,7 +321,7 @@ jobs:
       with:
         name: data-files
         path: |
-          ${{ github.workspace }}/build/omnitrace-tests-output/*.txt
+          ${{ github.workspace }}/build/omnitrace-tests-output/**/*.txt
 
   ubuntu-focal-dyninst-package:
     runs-on: ubuntu-20.04
@@ -336,7 +336,7 @@ jobs:
       timeout-minutes: 5
       run:
         sudo apt-get update &&
-        sudo apt-get install -y build-essential m4 autoconf libtool python3-pip ${{ matrix.compiler }} &&
+        sudo apt-get install -y build-essential m4 autoconf libtool python3-pip clang libomp-dev ${{ matrix.compiler }} &&
         sudo python3 -m pip install --upgrade pip &&
         python3 -m pip install 'cmake==3.16.3'
 
@@ -432,7 +432,7 @@ jobs:
       with:
         name: data-files
         path: |
-          ${{ github.workspace }}/build/omnitrace-tests-output/*.txt
+          ${{ github.workspace }}/build/omnitrace-tests-output/**/*.txt
 
   ubuntu-focal-external-rocm:
     runs-on: ubuntu-20.04
@@ -454,7 +454,7 @@ jobs:
         sudo wget -q -O - https://repo.radeon.com/rocm/rocm.gpg.key | sudo apt-key add - &&
         echo "deb [arch=amd64] https://repo.radeon.com/rocm/apt/${{ matrix.rocm_version }}/ ubuntu main" | sudo tee /etc/apt/sources.list.d/rocm.list &&
         sudo apt-get update &&
-        sudo apt-get install -y build-essential m4 autoconf libtool python3-pip libboost-{atomic,system,thread,date-time,filesystem,timer}-dev libtbb-dev libiberty-dev ${{ matrix.compiler }} libudev-dev libnuma-dev rocm-dev rocm-utils roctracer-dev rocprofiler-dev hip-base hsa-amd-aqlprofile hsa-rocr-dev hsakmt-roct-dev ${{ matrix.mpi }} libpapi-dev &&
+        sudo apt-get install -y build-essential m4 autoconf libtool python3-pip libboost-{atomic,system,thread,date-time,filesystem,timer}-dev libtbb-dev libiberty-dev clang libomp-dev ${{ matrix.compiler }} libudev-dev libnuma-dev rocm-dev rocm-utils roctracer-dev rocprofiler-dev hip-base hsa-amd-aqlprofile hsa-rocr-dev hsakmt-roct-dev ${{ matrix.mpi }} libpapi-dev &&
         sudo python3 -m pip install --upgrade pip &&
         python3 -m pip install 'cmake==3.16.3'