small updates on 1D Berkeley and adds reference solution to Berkeley example for testing; updates submodule address

.github/scripts/run_tests.sh

@@ -116,6 +116,9 @@ fi
 if [ "${TESTDIR}" == "EXAMPLES/global_small" ]; then
   sed -i "s:^RECORD_LENGTH_IN_MINUTES .*:RECORD_LENGTH_IN_MINUTES = 0.1:" DATA/Par_file
 fi
+if [ "${TESTDIR}" == "EXAMPLES/regional_Berkeley" ]; then
+  sed -i "s:^RECORD_LENGTH_IN_MINUTES .*:RECORD_LENGTH_IN_MINUTES = 4.0:" DATA/Par_file  # needs increase due to source time function
+fi
 
 # debug
 if [ "${DEBUG}" == "true" ]; then

.github/workflows/CI.yml

@@ -663,3 +663,27 @@ jobs:
         GPU: true
       run: ./.github/scripts/run_tests.sh
       shell: bash
+
+  linuxTest_15:
+    name: Test 15 - regional_Berkeley
+    runs-on: ubuntu-latest
+    needs: [linuxCheck]
+
+    steps:
+    - uses: actions/checkout@v4
+
+    - name: Install packages
+      run: ./.github/scripts/run_install.sh
+      shell: bash
+
+    - name: Run build
+      env:
+        TESTFLAGS: --enable-vectorization
+      run: ./.github/scripts/run_build.sh
+      shell: bash
+
+    - name: Run test
+      env:
+        TESTDIR: EXAMPLES/regional_Berkeley
+      run: ./.github/scripts/run_tests.sh
+      shell: bash

.gitmodules

@@ -3,4 +3,4 @@
 	url = https://github.com/geodynamics/autoconf_cig.git
 [submodule "external_libs/ROCm-HIP-CPU"]
 	path = external_libs/ROCm-HIP-CPU
-	url = git@github.com:ROCm/HIP-CPU.git
+	url = https://github.com/ROCm/HIP-CPU.git

.travis/run_tests.sh

@@ -180,6 +180,8 @@ if [ "$TESTCOV" == "1" ] && [ "$TESTID" == "1" ]; then
   sed -i "s:^NTSTEP_BETWEEN_OUTPUT_INFO .*:NTSTEP_BETWEEN_OUTPUT_INFO    = 50:" DATA/Par_file
   ./run_this_example.sh
   if [[ $? -ne 0 ]]; then exit 1; fi
+  # cleanup
+  rm -rf OUTPUT_FILES* DATABASES_MPI*
   cd $WORKDIR
 fi
 echo -en 'travis_fold:end:coverage.regular-kernel\\r'
@@ -197,6 +199,8 @@ if [ "$TESTCOV" == "1" ] && [ "$TESTID" == "1" ]; then
   sed -i "s:^NTSTEP_BETWEEN_OUTPUT_INFO .*:NTSTEP_BETWEEN_OUTPUT_INFO    = 50:" DATA/Par_file
   ./run_this_example.sh
   if [[ $? -ne 0 ]]; then exit 1; fi
+  # cleanup
+  rm -rf OUTPUT_FILES* DATABASES_MPI*
   cd $WORKDIR
 fi
 echo -en 'travis_fold:end:coverage.regional-LDDRK\\r'
@@ -215,6 +219,8 @@ if [ "$TESTCOV" == "1" ] && [ "$TESTID" == "2" ]; then
   sed -i "s:^NTSTEP_BETWEEN_OUTPUT_INFO .*:NTSTEP_BETWEEN_OUTPUT_INFO    = 50:" DATA/Par_file
   ./run_this_example.sh
   if [[ $? -ne 0 ]]; then exit 1; fi
+  # cleanup
+  rm -rf OUTPUT_FILES* DATABASES_MPI*
   cd $WORKDIR
 fi
 echo -en 'travis_fold:end:coverage.regional-s40rts\\r'
@@ -225,6 +231,7 @@ echo -en 'travis_fold:end:coverage.regional-s40rts\\r'
 ## tested by github actions
 ## - EXAMPLES/regional_Greece_small
 ## - EXAMPLES/regional_sgloberani
+## - EXAMPLES/regional_Berkeley
 ## - EXAMPLES/point_force
 ## - EXAMPLES/moon_global
 ## - EXAMPLES/mars_regional
@@ -244,6 +251,8 @@ if [ "$TESTCOV" == "1" ] && [ "$TESTID" == "1" ]; then
   sed -i "s:^NTSTEP_BETWEEN_OUTPUT_INFO .*:NTSTEP_BETWEEN_OUTPUT_INFO    = 50:" DATA/Par_file
   ./run_this_example.sh
   if [[ $? -ne 0 ]]; then exit 1; fi
+  # cleanup
+  rm -rf OUTPUT_FILES* DATABASES_MPI*
   cd $WORKDIR
 fi
 echo -en 'travis_fold:end:coverage.point-force\\r'
@@ -261,6 +270,8 @@ if [ "$TESTCOV" == "1" ] && [ "$TESTID" == "2" ]; then
   sed -i "s:^NTSTEP_BETWEEN_OUTPUT_INFO .*:NTSTEP_BETWEEN_OUTPUT_INFO    = 50:" DATA/Par_file
   ./run_this_example.sh
   if [[ $? -ne 0 ]]; then exit 1; fi
+  # cleanup
+  rm -rf OUTPUT_FILES* DATABASES_MPI*
   cd $WORKDIR
 fi
 echo -en 'travis_fold:end:coverage.moon-global\\r'
@@ -278,10 +289,31 @@ if [ "$TESTCOV" == "1" ] && [ "$TESTID" == "2" ]; then
   sed -i "s:^NTSTEP_BETWEEN_OUTPUT_INFO .*:NTSTEP_BETWEEN_OUTPUT_INFO    = 50:" DATA/Par_file
   ./run_this_example.sh
   if [[ $? -ne 0 ]]; then exit 1; fi
+  # cleanup
+  rm -rf OUTPUT_FILES* DATABASES_MPI*
   cd $WORKDIR
 fi
 echo -en 'travis_fold:end:coverage.mars-regional\\r'
 
+echo 'Coverage...' && echo -en 'travis_fold:start:coverage.regional-Berkeley\\r'
+if [ "$TESTCOV" == "1" ] && [ "$TESTID" == "2" ]; then
+  ##
+  ## testing regional_Berkeley
+  ##
+  echo "##################################################################"
+  echo "EXAMPLES/regional_Berkeley/"
+  echo
+  cd EXAMPLES/regional_Berkeley/
+  sed -i "s:^RECORD_LENGTH_IN_MINUTES .*:RECORD_LENGTH_IN_MINUTES = 0.0:" DATA/Par_file
+  sed -i "s:^NTSTEP_BETWEEN_OUTPUT_INFO .*:NTSTEP_BETWEEN_OUTPUT_INFO    = 50:" DATA/Par_file
+  ./run_this_example.sh
+  if [[ $? -ne 0 ]]; then exit 1; fi
+  # cleanup
+  rm -rf OUTPUT_FILES* DATABASES_MPI*
+  cd $WORKDIR
+fi
+echo -en 'travis_fold:end:coverage.regional-Berkeley\\r'
+
 
 # done
 echo "all done"

EXAMPLES/process_DATA_Par_files_to_update_their_parameters_from_a_main_file.py

@@ -36,7 +36,8 @@
 # (more exclude directories can be appended in this list)
 EXCLUDE_DIR_LIST = [ \
   "unused_routines", \
-  "small_SEM_solvers_in_Fortran_and_C_without_MPI_to_learn" \
+  "small_SEM_solvers_in_Fortran_and_C_without_MPI_to_learn", \
+  "tmp"
 ]
 
 # optional parameters in Par_file
@@ -56,7 +57,13 @@
   "SCATTERING_STRENGTH", \
   "SCATTERING_CORRELATION", \
   "SHIFT_SIMULTANEOUS_RUNS", \
-  "FILESYSTEM_IO_BANDWIDTH" \
+  "FILESYSTEM_IO_BANDWIDTH", \
+  "STF_IS_UCB_HEAVISIDE", \
+  "SOURCE_T1", \
+  "SOURCE_T2", \
+  "SOURCE_T3", \
+  "SOURCE_T4", \
+  "TAU" \
 ]
 
 #

EXAMPLES/regional_Berkeley/DATA/Par_file

@@ -269,6 +269,16 @@ USE_MONOCHROMATIC_CMT_SOURCE    = .false.
 # print source time function
 PRINT_SOURCE_TIME_FUNCTION      = .true.
 
+## Berkeley source time function
+STF_IS_UCB_HEAVISIDE            = .true.
+# UCB source frequency content (i.e., heaviside function)
+SOURCE_T1                       = 500.d0
+SOURCE_T2                       = 400.d0
+SOURCE_T3                       = 50.d0
+SOURCE_T4                       = 40.d0
+# UCB source time shift
+TAU                             = 500.d0
+
 #-----------------------------------------------------------
 #
 # Seismograms

EXAMPLES/regional_Berkeley/README

@@ -2,9 +2,22 @@
 README
 ----------------------------------------------------------
 
-This example creates a regional mesh using transversely isotropic PREM
+This example creates a regional mesh using the 3D Berkeley model SEMUCB_A3d
 and runs a spectral-element simulation.
 
+In the Par_file, we also add the following parameters to use a specific Berkeley source time function:
+```
+## Berkeley source time function
+STF_IS_UCB_HEAVISIDE            = .true.
+# UCB source frequency content (i.e., heaviside function)
+SOURCE_T1                       = 500.d0
+SOURCE_T2                       = 400.d0
+SOURCE_T3                       =  50.d0
+SOURCE_T4                       =  40.d0
+# UCB source time shift
+TAU                             = 500.d0
+```
+
 The simulation is setup to use 4 CPUs only, thus can be run locally on a desktop machine
 (needs to have MPI installed).
 
@@ -18,24 +31,9 @@ type:
 to setup this directory for the simulation and to run a corresponding
 script "run_mesher_solver.bash".
 
-The simulation is accurate down to a shortest period of ~ 15 s.
+The simulation is accurate down to a shortest period of ~ 21 s.
 (minimum period resolved ~ (256/NEX_XI) * (ANGULAR_WIDTH_XI_IN_DEGREES/90) * 17)
 
 Reference seismograms for comparisons are provided in the directory: REF_SEIS/
-
-
-2. kernel simulation:
----------------------
-
-type:
-./run_this_example.kernel.sh
-
-to setup this directory for the simulation and to submit a corresponding
-script "run_mesher_solver.kernel.bash".
-
-The simulation will use the adjoint source given in directory: SEM/
-to compute a travel-time sensitivity kernel.
-
-
 Please modify these scripts according to your specifics.