From c76ce4262f00445957a3efa56d99450473586a25 Mon Sep 17 00:00:00 2001
From: Matteo Cicuttin <datafl4sh@toxicnet.eu>
Date: Fri, 4 Jun 2021 12:17:41 +0200
Subject: [PATCH] Fixed stuff to compile on CECI clusters.
---
CMakeLists.txt | 11 +++--
cmake/FindSILO.cmake | 4 +-
include/eigen.h | 2 -
include/maxwell_interface.h | 5 +--
share/capacitor/capacitor.geo | 15 +++++++
share/capacitor/capacitor.m | 16 +++++++
share/capacitor/params_capacitor.lua | 66 ++++++++++++++++++++++++++++
src/silo_io.cpp | 4 ++
8 files changed, 113 insertions(+), 10 deletions(-)
create mode 100644 share/capacitor/capacitor.geo
create mode 100644 share/capacitor/capacitor.m
create mode 100644 share/capacitor/params_capacitor.lua
diff --git a/CMakeLists.txt b/CMakeLists.txt
index 047b0f9..80681c5 100644
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -5,7 +5,7 @@ include(CheckLanguage)
set(CMAKE_CXX_STANDARD 17)
set(CMAKE_CXX_STANDARD_REQUIRED ON)
-set(CMAKE_CUDA_ARCHITECTURES 35)
+set(CMAKE_CUDA_ARCHITECTURES 35 70)
# Additional modules path for cmake
set (CMAKE_MODULE_PATH
@@ -53,11 +53,15 @@ else()
endif()
endif()
-find_package(SILO)
+find_package(SILO REQUIRED)
if (SILO_FOUND)
add_definitions(-DHAVE_SILO)
include_directories("${SILO_INCLUDE_DIRS}")
set(LINK_LIBS ${LINK_LIBS} ${SILO_LIBRARIES})
+ option(OPT_SILO_USE_HDF5 "Use HDF5 driver for silo files" ON)
+ if (OPT_SILO_USE_HDF5)
+ add_definitions(-DSILO_USE_HDF5)
+ endif()
endif()
find_package(Lua REQUIRED)
@@ -96,7 +100,8 @@ if (OPT_ENABLE_GPU_SOLVER)
add_definitions(-DHAVE_CUDA)
endif()
- if (TARGET CUDA::nvml)
+ option(OPT_USE_CUDA_NVML "Enable NVML" ON)
+ if (OPT_USE_CUDA_NVML AND TARGET CUDA::nvml)
set(HAVE_CUDA_NVML TRUE)
set(LINK_LIBS ${LINK_LIBS} CUDA::nvml)
add_definitions(-DHAVE_CUDA_NVML)
diff --git a/cmake/FindSILO.cmake b/cmake/FindSILO.cmake
index 98818d1..e1e14d1 100644
--- a/cmake/FindSILO.cmake
+++ b/cmake/FindSILO.cmake
@@ -3,10 +3,10 @@ include(FindPackageHandleStandardArgs)
find_path(SILO_INCLUDE_DIRS
NAMES silo.h
- PATHS /usr/include /usr/local/include)
+ PATHS /usr/include /usr/local/include ${SILO_DIR}/include)
find_library(SILO_LIBRARIES
NAMES silo siloh5
- PATHS /usr/lib /usr/local/include)
+ PATHS /usr/lib /usr/local/include ${SILO_DIR}/lib)
FIND_PACKAGE_HANDLE_STANDARD_ARGS(SILO DEFAULT_MSG SILO_LIBRARIES SILO_INCLUDE_DIRS)
diff --git a/include/eigen.h b/include/eigen.h
index 89d5618..9682c88 100644
--- a/include/eigen.h
+++ b/include/eigen.h
@@ -1,7 +1,5 @@
#pragma once
-#define EIGEN_MAX_ALIGN_BYTES 32
-
#include <Eigen/Dense>
#include <Eigen/Sparse>
#include <Eigen/StdVector>
diff --git a/include/maxwell_interface.h b/include/maxwell_interface.h
index d5f7626..f5485d5 100644
--- a/include/maxwell_interface.h
+++ b/include/maxwell_interface.h
@@ -385,9 +385,6 @@ init_H_field(const model& mod, solver_state_gpu& state, const Function& H)
state.emf_curr.Hz.copyin(Hz.data(), Hz.size());
}
-
-#endif /* ENABLE_GPU_SOLVER */
-
void gpu_compute_jumps(const entity_data_gpu&, const field_gpu&, field_gpu&,
double *, gpuStream_t stream = 0);
@@ -409,4 +406,6 @@ void gpu_compute_fluxes_H(const entity_data_gpu&, const field_gpu&, field_gpu&,
void decompress_bndsrc(const solver_state_gpu& state, const field_gpu& csrcs,
field_gpu& srcs);
+#endif /* ENABLE_GPU_SOLVER */
+
} // namespace maxwell
diff --git a/share/capacitor/capacitor.geo b/share/capacitor/capacitor.geo
new file mode 100644
index 0000000..9fd46c5
--- /dev/null
+++ b/share/capacitor/capacitor.geo
@@ -0,0 +1,15 @@
+l = 0.02;
+d = 0.001;
+t = 0.0003;
+sh = 2*t+d;
+
+SetFactory("OpenCASCADE");
+Mesh.Algorithm3D = 10;
+
+Box(1) = {-l/2, -l/2, -sh/2, l, l, t};
+Box(2) = {-l/2, -l/2, -sh/2 + t, l, l, d};
+Box(3) = {-l/2, -l/2, -sh/2 + t+d, l, l, t};
+Sphere(4) = {0, 0, 0, l, -Pi/2, Pi/2, 2*Pi};
+Coherence;
+
+MeshSize{ PointsOf{ Volume{1,2,3}; } } = 0.0008;
diff --git a/share/capacitor/capacitor.m b/share/capacitor/capacitor.m
new file mode 100644
index 0000000..f7abfba
--- /dev/null
+++ b/share/capacitor/capacitor.m
@@ -0,0 +1,16 @@
+l = 0.02;
+d = 0.001;
+epsilon = 10 * 8.85e-12;
+t = 1e-13;
+J = 1;
+
+A = l*l;
+I = J*A;
+
+C = epsilon*A/d;
+Q = I*t;
+
+V = Q/C
+E = V/d
+
+Q*d/(epsilon*l*A)
diff --git a/share/capacitor/params_capacitor.lua b/share/capacitor/params_capacitor.lua
new file mode 100644
index 0000000..bfba7ec
--- /dev/null
+++ b/share/capacitor/params_capacitor.lua
@@ -0,0 +1,66 @@
+sim.name = "capacitor" -- simulation name
+sim.dt = 1e-13 -- timestep size
+sim.timesteps = 100000 -- num of iterations
+sim.gmsh_model = "capacitor.geo" -- gmsh model filename
+sim.use_gpu = 0 -- 0: cpu, 1: gpu
+sim.approx_order = 1 -- approximation order
+sim.time_integrator = "leapfrog"
+postpro.silo_output_rate = 10 -- rate at which to write silo files
+postpro.cycle_print_rate = 10 -- console print rate
+
+local alu = {1, 3}
+for i,v in ipairs(alu) do
+ materials[v] = {}
+ materials[v].epsilon = 1
+ materials[v].mu = 1
+ materials[v].sigma = 3.69e7
+end
+
+local diel = { 2 }
+for i,v in ipairs(diel) do
+ materials[v] = {}
+ materials[v].epsilon = 10
+ materials[v].mu = 1
+ materials[v].sigma = 0
+end
+
+local air = { 4 }
+for i,v in ipairs(air) do
+ materials[v] = {}
+ materials[v].epsilon = 1
+ materials[v].mu = 1
+ materials[v].sigma = 0
+end
+
+-- ** Boundary conditions **
+local absorbing_bcs = {1}
+for i,v in ipairs(absorbing_bcs) do
+ bndconds[v] = {}
+ bndconds[v].kind = "impedance"
+end
+
+function interp(t, t0, t1, y0, y1)
+ return (t-t0)*(y1-y0)/(t1-t0) + y0
+end
+
+local current_shape = { {0, 1}, {10*sim.dt, 1} }
+
+
+function discharge_source(tag, x, y, z, t)
+ for ii = 1,(#current_shape-1) do
+ local t0 = current_shape[ii][1]
+ local c0 = current_shape[ii][2]
+ local t1 = current_shape[ii+1][1]
+ local c1 = current_shape[ii+1][2]
+ if (t >= t0 and t < t1) then
+ Ez = interp(t, t0, t1, c0, c1)
+ return 0, 0, Ez
+ end
+ end
+ return 0, 0, 0
+end
+
+sources[2] = discharge_source
+
+
+
diff --git a/src/silo_io.cpp b/src/silo_io.cpp
index c9ffea2..6bceafa 100644
--- a/src/silo_io.cpp
+++ b/src/silo_io.cpp
@@ -110,7 +110,11 @@ silo::import_mesh_from_gmsh()
bool
silo::create_db(const std::string& dbname)
{
+#ifdef SILO_USE_HDF5
m_siloDb = DBCreate(dbname.c_str(), DB_CLOBBER, DB_LOCAL, NULL, DB_HDF5);
+#else
+ m_siloDb = DBCreate(dbname.c_str(), DB_CLOBBER, DB_LOCAL, NULL, DB_PDB);
+#endif
if (m_siloDb)
return true;
--
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