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Started by an SCM change Obtained jenkins_tests/clubb_release_diff_test/Jenkinsfile from git https://github.com/larson-group/clubb.git [Pipeline] Start of Pipeline [Pipeline] node Still waiting to schedule task Waiting for next available executor Running on Jenkins in /home/jenkins/workspace/clubb_release_diff_test [Pipeline] { [Pipeline] stage [Pipeline] { (Declarative: Checkout SCM) [Pipeline] checkout The recommended git tool is: git Cloning the remote Git repository Cloning repository https://github.com/larson-group/clubb.git > git init /home/jenkins/workspace/clubb_release_diff_test # timeout=10 Fetching upstream changes from https://github.com/larson-group/clubb.git > git --version # timeout=10 > git --version # 'git version 2.30.2' using GIT_ASKPASS to set credentials A token based key used by Jenkins to preform Github actions, created 6/21/2021 > git fetch --tags --force --progress -- https://github.com/larson-group/clubb.git +refs/heads/*:refs/remotes/origin/* # timeout=10 > git config remote.origin.url https://github.com/larson-group/clubb.git # timeout=10 > git config --add remote.origin.fetch +refs/heads/*:refs/remotes/origin/* # timeout=10 Avoid second fetch > git rev-parse refs/remotes/origin/master^{commit} # timeout=10 Checking out Revision 475d569931a16ce1187c26757a0913e53c62abe5 (refs/remotes/origin/master) > git config core.sparsecheckout # timeout=10 > git checkout -f 475d569931a16ce1187c26757a0913e53c62abe5 # timeout=10 Commit message: "Code changes to implement modificiations on wp3 clippings This commit contains code changes to implement modifications of skewness clippings on wp3 in src/CLUBB_core/clip_explicit.F90. The default method attempts to apply smaller (larger) clippings below (above) 100m AGL level, which can cause a discontinuities around 100m AGL level. This clippings is found to trigger sawthooth oscillations in wp3 when linear diffusion is used. Such swathooth oscillations are eleminated if a smoothed Heaviside function is introduced to obtain a smooth transition of clippings at around 100m AGL level. The changes is necessary to obtain the first order convergence in CLUBB-SCM when lienar diffusion is used." > git rev-list --no-walk 5cd77e018ec1ca2d920bd34b5500529068b95749 # timeout=10 [Pipeline] } [Pipeline] // stage [Pipeline] withEnv [Pipeline] { [Pipeline] stage [Pipeline] { (Checkout Clubb and Clubb_Release) [Pipeline] sh + git clone https://github.com/larson-group/clubb.git Cloning into 'clubb'... + git clone https://github.com/larson-group/clubb_release.git Cloning into 'clubb_release'... [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Diff) [Pipeline] sh + diff --exclude=.git --exclude=version_clubb_core.txt --exclude=version_silhs.txt -r clubb clubb_release diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/input/tunable_parameters/configurable_model_flags.in clubb_release/input/tunable_parameters/configurable_model_flags.in 45d44 < l_use_wp3_lim_with_smth_Heaviside = .false., diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/src/CLUBB_core/advance_clubb_core_module.F90 clubb_release/src/CLUBB_core/advance_clubb_core_module.F90 1988d1987 < clubb_config_flags%l_use_wp3_lim_with_smth_Heaviside, & ! intent(in) diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/src/CLUBB_core/advance_wp2_wp3_module.F90 clubb_release/src/CLUBB_core/advance_wp2_wp3_module.F90 79d78 < l_use_wp3_lim_with_smth_Heaviside, & ! intent(in) 295,296c294 < l_use_tke_in_wp2_wp3_K_dfsn, & ! Use TKE in eddy diffusion for wp2 and wp3 < l_use_wp3_lim_with_smth_Heaviside ! Flag to activate mods on wp3 limiters for conv test --- > l_use_tke_in_wp2_wp3_K_dfsn ! Use TKE in eddy diffusion for wp2 and wp3 872d869 < l_use_wp3_lim_with_smth_Heaviside, & ! intent(in) 1018d1014 < l_use_wp3_lim_with_smth_Heaviside, & 1186,1187c1182 < l_use_tke_in_wp2_wp3_K_dfsn, & ! Use TKE in eddy diffusion for wp2 and wp3 < l_use_wp3_lim_with_smth_Heaviside ! Flag to activate mods on wp3 limiters for conv test --- > l_use_tke_in_wp2_wp3_K_dfsn ! Use TKE in eddy diffusion for wp2 and wp3 1605d1599 < l_use_wp3_lim_with_smth_Heaviside, & ! intent(in) diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/src/CLUBB_core/clip_explicit.F90 clubb_release/src/CLUBB_core/clip_explicit.F90 965d964 < l_use_wp3_lim_with_smth_Heaviside, & ! intent(in) 1045,1050d1043 < ! Flag to activate modifications on wp3 limiters for convergence test < ! (use smooth Heaviside 'Preskin' function in the calculation of < ! clip_skewness for wp3) < logical, intent(in):: & < l_use_wp3_lim_with_smth_Heaviside < 1070,1073c1063,1065 < call clip_skewness_core( nz, ngrdcol, gr, sfc_elevation, & ! intent(in) < Skw_max_mag, wp2_zt, & ! intent(in) < l_use_wp3_lim_with_smth_Heaviside, & ! intent(in) < wp3 ) ! intent(inout) --- > call clip_skewness_core( nz, ngrdcol, gr, sfc_elevation, & ! intent(in) > Skw_max_mag, wp2_zt, & ! intent(in) > wp3 ) ! intent(inout) 1088d1079 < l_use_wp3_lim_with_smth_Heaviside, & 1097,1099d1087 < use advance_helper_module, only: & < smooth_heaviside_peskin < 1118,1122d1105 < ! Flag to activate modifications on wp3 limiters for convergence test < ! (use smooth Heaviside 'Preskin' function in the calculation of clip_skewness for wp3) < logical, intent(in):: & < l_use_wp3_lim_with_smth_Heaviside < 1137,1140d1119 < real( kind = core_rknd ), dimension(ngrdcol,nz) :: & < zagl_thresh, & ! temporatory array < H_zagl ! Heaviside function for clippings of wp3_lim_sqd < 1163,1165c1142 < if (l_use_wp3_lim_with_smth_Heaviside) then < < !implement a smoothed Heaviside function to avoid discontinuities --- > do k = 1, nz 1167,1169c1144,1152 < zagl_thresh(i,:) = ( gr%zt(i,:) - sfc_elevation(i) ) / 100.0_core_rknd < zagl_thresh(i,:) = zagl_thresh(i,:) - 1.0_core_rknd < H_zagl(i,:) = smooth_heaviside_peskin(zagl_thresh(i,:), 0.6_core_rknd) --- > if ( gr%zt(i,k) - sfc_elevation(i) <= 100.0_core_rknd ) then ! Clip for 100 m. AGL. > !wp3_upper_lim(k) = 0.2_core_rknd * sqrt_2 * wp2_zt(k)**(3.0_core_rknd/2.0_core_rknd) > !wp3_lower_lim(k) = -0.2_core_rknd * sqrt_2 * wp2_zt(k)**(3.0_core_rknd/2.0_core_rknd) > wp3_lim_sqd(i,k) = 0.0021_core_rknd * Skw_max_mag**2 * wp2_zt_cubed(i,k) > else ! Clip skewness consistently with a. > !wp3_upper_lim(k) = 4.5_core_rknd * wp2_zt(k)**(3.0_core_rknd/2.0_core_rknd) > !wp3_lower_lim(k) = -4.5_core_rknd * wp2_zt(k)**(3.0_core_rknd/2.0_core_rknd) > wp3_lim_sqd(i,k) = Skw_max_mag**2 * wp2_zt_cubed(i,k) ! Skw_max_mag = 4.5_core_rknd^2 > endif 1170a1154 > end do 1172,1198d1155 < do k = 1, nz < do i = 1, ngrdcol < wp3_lim_sqd(i,k) = wp2_zt_cubed(i,k) & < * ( H_zagl(i,k) * Skw_max_mag**2 & < + (1.0_core_rknd - H_zagl(i,k)) & < * 0.0021_core_rknd *Skw_max_mag**2 ) < end do < end do < < else ! default method < < do k = 1, nz < do i = 1, ngrdcol < if ( gr%zt(i,k) - sfc_elevation(i) <= 100.0_core_rknd ) then ! Clip for 100 m. AGL. < !wp3_upper_lim(k) = 0.2_core_rknd * sqrt_2 * wp2_zt(k)**(3.0_core_rknd/2.0_core_rknd) < !wp3_lower_lim(k) = -0.2_core_rknd * sqrt_2 * wp2_zt(k)**(3.0_core_rknd/2.0_core_rknd) < wp3_lim_sqd(i,k) = 0.0021_core_rknd * Skw_max_mag**2 * wp2_zt_cubed(i,k) < else ! Clip skewness consistently with a. < !wp3_upper_lim(k) = 4.5_core_rknd * wp2_zt(k)**(3.0_core_rknd/2.0_core_rknd) < !wp3_lower_lim(k) = -4.5_core_rknd * wp2_zt(k)**(3.0_core_rknd/2.0_core_rknd) < wp3_lim_sqd(i,k) = Skw_max_mag**2 * wp2_zt_cubed(i,k) ! Skw_max_mag = 4.5_core_rknd^2 < endif < end do < end do < < end if < diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/src/CLUBB_core/clubb_api_module.F90 clubb_release/src/CLUBB_core/clubb_api_module.F90 4530d4529 < l_use_wp3_lim_with_smth_Heaviside, & ! Out 4658d4656 < l_use_wp3_lim_with_smth_Heaviside, & ! Flag to activate mods on wp3 limiters for conv test 4720d4717 < l_use_wp3_lim_with_smth_Heaviside, & ! Out 4783d4779 < l_use_wp3_lim_with_smth_Heaviside, & ! In 4913d4908 < l_use_wp3_lim_with_smth_Heaviside, & ! Flag to activate mods on wp3 limiters for conv test 4979d4973 < l_use_wp3_lim_with_smth_Heaviside, & ! In diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/src/CLUBB_core/model_flags.F90 clubb_release/src/CLUBB_core/model_flags.F90 267d266 < l_use_wp3_lim_with_smth_Heaviside, & ! Flag to activate mods on wp3 limiters for conv test 400d398 < l_use_wp3_lim_with_smth_Heaviside, & 532d529 < l_use_wp3_lim_with_smth_Heaviside, & ! Flag to activate mods on wp3 limiters for conv test 603d599 < l_use_wp3_lim_with_smth_Heaviside = .false. 665d660 < l_use_wp3_lim_with_smth_Heaviside, & 798d792 < l_use_wp3_lim_with_smth_Heaviside, & ! Flag to activate mods on wp3 limiters for conv test 867d860 < clubb_config_flags%l_use_wp3_lim_with_smth_Heaviside = l_use_wp3_lim_with_smth_Heaviside 951d943 < write(iunit,*) "l_use_wp3_lim_with_smth_Heaviside = ", clubb_config_flags%l_use_wp3_lim_with_smth_Heaviside diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/src/clubb_driver.F90 clubb_release/src/clubb_driver.F90 846d845 < l_use_wp3_lim_with_smth_Heaviside, & ! Flag to activate mods on wp3 limiters for conv test 907c906 < l_use_tke_in_wp2_wp3_K_dfsn, l_use_wp3_lim_with_smth_Heaviside, l_smooth_Heaviside_tau_wpxp, & --- > l_use_tke_in_wp2_wp3_K_dfsn, l_smooth_Heaviside_tau_wpxp, & 1070d1068 < l_use_wp3_lim_with_smth_Heaviside, & ! Intent(out) 1472d1469 < l_use_wp3_lim_with_smth_Heaviside, & ! Intent(in) 2285,2288c2282,2283 < call clip_skewness_core( gr%nz, 1, gr, sfc_elevation(:), & < params(iSkw_max_mag), wp2_zt(1,:), & < clubb_config_flags%l_use_wp3_lim_with_smth_Heaviside, & < wp3(1,:) ) --- > call clip_skewness_core( gr%nz, 1, gr, sfc_elevation(:), params(iSkw_max_mag), & > wp2_zt(1,:), wp3(1,:) ) diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/src/clubb_tuner.F90 clubb_release/src/clubb_tuner.F90 663d662 < l_use_wp3_lim_with_smth_Heaviside, & ! Flag to activate mods on wp3 limiters for conv test 691c690 < l_use_tke_in_wp2_wp3_K_dfsn, l_use_wp3_lim_with_smth_Heaviside, l_smooth_Heaviside_tau_wpxp --- > l_use_tke_in_wp2_wp3_K_dfsn, l_smooth_Heaviside_tau_wpxp 743d741 < l_use_wp3_lim_with_smth_Heaviside, & ! Intent(out) diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/src/G_unit_test_types/pdf_parameter_tests.F90 clubb_release/src/G_unit_test_types/pdf_parameter_tests.F90 540d539 < l_use_wp3_lim_with_smth_Heaviside, & ! Flag to activate mods on wp3 limiters for conv test 689d687 < l_use_wp3_lim_with_smth_Heaviside, & diff '--exclude=.git' '--exclude=version_clubb_core.txt' '--exclude=version_silhs.txt' -r clubb/src/G_unit_test_types/spurious_source_test.F90 clubb_release/src/G_unit_test_types/spurious_source_test.F90 480d479 < l_use_wp3_lim_with_smth_Heaviside, & ! Flag to activate mods on wp3 limiters for conv test 605d603 < l_use_wp3_lim_with_smth_Heaviside, & [Pipeline] } [Pipeline] // stage [Pipeline] stage [Pipeline] { (Declarative: Post Actions) [Pipeline] script [Pipeline] { [Pipeline] cleanWs [WS-CLEANUP] Deleting project workspace... [WS-CLEANUP] Deferred wipeout is used... [WS-CLEANUP] done [Pipeline] } [Pipeline] // script [Pipeline] script [Pipeline] { [Pipeline] emailext Sending email to: messnermet@uwm.edu [Pipeline] } [Pipeline] // script [Pipeline] } [Pipeline] // stage [Pipeline] } [Pipeline] // withEnv [Pipeline] } [Pipeline] // node [Pipeline] End of Pipeline ERROR: script returned exit code 1 Finished: FAILURE