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* Added boundary checks to the SMC grid input files for ww3_grid, to ensure they comply with the limits of the nameslist. * Fb 360 calendar (#8) Changes to add support to 360-day and 365-day (no leap year) calendar - see ticket NOAA-EMC#209 * Additional CALTYPE namelist parameter in MISC section * New ww3_tc1 regtest. * RTD support for ww3_boun[dc] (#10) * Updated ww3_bound and ww3_bounc to handle model grids formulated on a rotated pole. * Manual and nml/inp files to updated clarify that ww3_bound/ww3_bounc only accept input spectra formulated on a standard pole grid. * Fb coupling time (#9) Updates to allow a coupling time step that is different from the model time step. * Includes new regtest (in ww3_tp2.14) for non-default oasis time step. * ww3_tp2.14 regtest added to matrix.base. * bug fix for ukmet development * add the matrix subsetter * clean-up * clean up * add another script which separate serial and parallel jobs and divide them * modify the script to remove ../model? after test completion. * bug fixes and adding ww3_tp2.17 to list_heavy * add if statement to remove matrix? and model? * Update matrix_divider_p.sh * Merge remote-tracking branch 'upstream/develop' into fb_matrix_divider * Merge remote-tracking branch 'upstream/develop' into fb_matrix_divider * put if check for ../model? inside matrix? loop * fix the bug for sed for model? * final fix for extra model? removal * add 2.21 to the list_heavy Co-authored-by: lewis.sampson <[email protected]> Co-authored-by: Juan Manuel Castillo Sanchez <[email protected]> Co-authored-by: Chris Bunney <[email protected]> Co-authored-by: Ali Abdolali <[email protected]>
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,128 @@ | ||
| #!/bin/bash | ||
| # --------------------------------------------------------------------------- # | ||
| # matrix_divider simply divides the main matrix into subsets with a given # | ||
| # number of test (i.e. maxlist1 for mpi tests and maxlist2 for serial tests) # | ||
| # # | ||
| # Remarks: # | ||
| # - Once the matrix is generated, this script can be execute. The user should # | ||
| # define the maxlist and this script divide the matrix into matrix? and # | ||
| # submit the job using sbatch. # | ||
| # # | ||
| # Ali Abdolali # | ||
| # August 2018 # | ||
| # March 2021 # | ||
| # # | ||
| # Copyright 2013 National Weather Service (NWS), # | ||
| # National Oceanic and Atmospheric Administration. All rights # | ||
| # reserved. WAVEWATCH III is a trademark of the NWS. # | ||
| # No unauthorized use without permission. # | ||
| # # | ||
| # --------------------------------------------------------------------------- # | ||
| # --------------------------------------------------------------------------- # | ||
| # 1. clean up and definitions # | ||
| # --------------------------------------------------------------------------- # | ||
| cp matrix matrix.tmp | ||
| HOME=${PWD%/*} | ||
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| maxlist1=48 | ||
| maxlist2=92 | ||
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| #Put the job requirement/spec in "before" | ||
| sed -e "/run_test/,\$d" matrix.tmp > before | ||
| #Put the list of tests in "list" | ||
| command egrep 'ww3_tp2.14|ww3_tp2.17|ww3_tp2.21' matrix.tmp | cat >> list_heavy | ||
| awk '!/ww3_tp2.14/' matrix.tmp > tmpfile && mv tmpfile matrix.tmp | ||
| awk '!/ww3_tp2.17/' matrix.tmp > tmpfile && mv tmpfile matrix.tmp | ||
| awk '!/ww3_tp2.21/' matrix.tmp > tmpfile && mv tmpfile matrix.tmp | ||
| command egrep 'mpirun|mpiexec|MPI_LAUNCH' matrix.tmp | cat >> list_mpi | ||
| awk '!/mpirun|mpiexec|MPI_LAUNCH/' matrix.tmp > tmpfile && mv tmpfile matrix.tmp | ||
| split -dl $maxlist1 list_mpi list_mpi_ | ||
| rm list_mpi | ||
| matrixno1=$(ls list_mpi_* | wc -l) | ||
| echo "Total nummber of matrix with parallel tests = $(($matrixno1 + 1)); each includes $maxlist1 tests" | ||
| command egrep 'run_test' matrix.tmp | cat >> list_serial | ||
| split -dl $maxlist2 list_serial list_serial_ | ||
| rm list_serial | ||
| matrixno2=$(ls list_serial_* | wc -l) | ||
| echo "Total nummber of matrix with serial test = $matrixno2; each includes $maxlist2 tests" | ||
| rm matrix.tmp | ||
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| # -------------------------------|ww3_tp2.21|ww3_tp2.21-------------------------------------------- # | ||
| # 2. Divide and dump in subsets # | ||
| # --------------------------------------------------------------------------- # | ||
| # parallel jobs | ||
| count=0 | ||
| for i in `seq -f '%02g' 0 "$((matrixno1 - 1))"`; do | ||
| #echo $i | ||
| #Replace matrix.out > matrix?.out, model > model? | ||
| (( count = count + 1 )) | ||
| if [ -f "matrix${count}" ]; then rm -f matrix${count}; fi | ||
| cat before >> matrix$count | ||
| cat list_mpi_$i >> matrix$count | ||
| sed -i 's/'matrix.out'/'matrix${count}.out'/gI' matrix$count | ||
| sed -i 's/'model'/'model${count}'/gI' matrix$count | ||
| echo " echo ' '" >> matrix$count | ||
| echo " echo ' **************************************************************'" >> matrix$count | ||
| echo " echo ' * end of WAVEWATCH III matrix$count of regression tests *'" >> matrix$count | ||
| echo " echo ' **************************************************************'" >> matrix$count | ||
| echo " echo ' '" >> matrix$count | ||
| echo "rm -rf ${HOME}/model${count}" >> matrix$count | ||
| #make sure ../model$count does not exist and copy a fresh copy | ||
| awk '1;/cd/ && !x {print " cp -r ../model ../model'$count'"; x=1;}' matrix$count > tmpfile && mv tmpfile matrix$count | ||
| awk '1;/cd/ && !x {print " if [ -d ../model'${count}' ]; then rm -rf ../model'${count}'; fi"; x=1;}' matrix$count > tmpfile && mv tmpfile matrix$count | ||
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| echo " matrix$count prepared" | ||
| done | ||
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| #serial jobs | ||
| for i in `seq -f '%02g' 0 "$((matrixno2 - 1))"`; do | ||
| #echo $i | ||
| #Replace matrix.out > matrix?.out, model > model? | ||
| (( count = count + 1 )) | ||
| if [ -f "matrix${count}" ]; then rm -f matrix${count}; fi | ||
| cat before >> matrix$count | ||
| cat list_serial_$i >> matrix$count | ||
| sed -i 's/'matrix.out'/'matrix${count}.out'/gI' matrix$count | ||
| sed -i 's/'model'/'model${count}'/gI' matrix$count | ||
| echo " echo ' '" >> matrix$count | ||
| echo " echo ' **************************************************************'" >> matrix$count | ||
| echo " echo ' * end of WAVEWATCH III matrix$count of regression tests *'" >> matrix$count | ||
| echo " echo ' **************************************************************'" >> matrix$count | ||
| echo " echo ' '" >> matrix$count | ||
| echo "rm -rf ${HOME}/model${count}" >> matrix$count | ||
| #make sure ../model$count does not exist and copy a fresh copy | ||
| awk '1;/cd/ && !x {print " cp -r ../model ../model'$count'"; x=1;}' matrix$count > tmpfile && mv tmpfile matrix$count | ||
| awk '1;/cd/ && !x {print " if [ -d ../model'${count}' ]; then rm -rf ../model'${count}'; fi"; x=1;}' matrix$count > tmpfile && mv tmpfile matrix$count | ||
| echo " matrix$count prepared" | ||
| done | ||
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| #ww3_tp2.14 is separated, as it has dependency. | ||
| #ww3_tp2.17 and ww3_tp2.21 is separated, as it takes a long time to finish | ||
| (( count = count + 1 )) | ||
| if [ -f "matrix${count}" ]; then rm -f matrix${count}; fi | ||
| cat before >> matrix$count | ||
| cat list_heavy >> matrix$count | ||
| sed -i 's/'matrix.out'/'matrix${count}.out'/gI' matrix$count | ||
| sed -i 's/'model'/'model${count}'/gI' matrix$count | ||
| echo " echo ' '" >> matrix$count | ||
| echo " echo ' **************************************************************'" >> matrix$count | ||
| echo " echo ' * end of WAVEWATCH III matrix$count of regression tests *'" >> matrix$count | ||
| echo " echo ' **************************************************************'" >> matrix$count | ||
| echo " echo ' '" >> matrix$count | ||
| echo "rm -rf ${HOME}/model${count}" >> matrix$count | ||
| #make sure ../model$count does not exist and copy a fresh copy | ||
| awk '1;/cd/ && !x {print " cp -r ../model ../model'$count'"; x=1;}' matrix$count > tmpfile && mv tmpfile matrix$count | ||
| awk '1;/cd/ && !x {print " if [ -d ../model'${count}' ]; then rm -rf ../model'${count}'; fi"; x=1;}' matrix$count > tmpfile && mv tmpfile matrix$count | ||
| echo " matrix$count prepared" | ||
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| rm before | ||
| rm list* | ||
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| echo "file matrix is divided into $count subsets ...." | ||
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| # --------------------------------------------------------------------------- # | ||
| # End to matrix_divider # | ||
| # --------------------------------------------------------------------------- # | ||
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