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Merge branch 'master' of https://bitbucket.org/jpekkila/astaroth

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jpekkila
2019-06-17 14:46:34 +03:00
parent 1d3d331570 c3722b37bd
commit 70c047ec8c
1 changed files with 27 additions and 23 deletions
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README.md
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@@ -13,23 +13,44 @@ NVIDIA GPU with >= 3.0 compute capability. See https://en.wikipedia.org/wiki/CUD
1. `cd 3rdparty`
1. `./setup_dependencies.sh` Note: this may take some time.
## Building (Astaroth 2.0)
## Building
1. `cd astaroth_2.0/build`
There are two ways to build the code as instructed below.
If you encounter issues, recheck that the 3rd party libraries were successfully built during the previous step.
### Method I: In the code directory
1. `cd build/`
1. `cmake -DDOUBLE_PRECISION=OFF -DBUILD_DEBUG=OFF ..` (Use `cmake -D CMAKE_C_COMPILER=icc -D CMAKE_CXX_COMPILER=icpc -DDOUBLE_PRECISION=OFF -DBUILD_DEBUG=OFF ..` if compiling on TIARA)
1. `../scripts/compile_acc.sh && make -j`
1. `./ac_run <options>`
If you encounter issues, recheck that the 3rd party libraries were successfully built during the previous step.
Edit `config/astaroth.conf` to change the numerical setup.
### Method II: With a script in a custom build directory (RECOMMENDED)
1. `source sourceme.sh` to add relevant directories to the `PATH`
1. `ac_mkbuilddir.sh -b my_build_dir/` to set up a custom build directory. There are also other options available. See `ac_mkbuilddir.sh -h` for more.
1. `$AC_HOME/scripts/compile_acc.sh` to generate kernels from the Domain Specific Language
1. `cd my_build_dir/`
1. `make -j`
1. `./ac_run <options>`
Edit `my_build_dir/astaroth.conf` to change the numerical setup.
### Available options
- `-s` simulation
- `-b` benchmark
- `-t` automated test (NOTE! This is expected to fail with the default configuration as there's no CPU model solution for forcing/entropy)
- `-t` automated test
By default, the program does a real-time visualization of the simulation domain. The camera and the initial conditions can be controller by `arrow keys`, `pgup`, `pgdown` and `spacebar`.
## Visualization
See `analysis/python/` directory of existing data visualization and analysis scripts.
## Generating documentation
Run `doxygen doxyfile` in astaroth_2.0 directory. The generated files can be found in `doc/doxygen`. The main page of the documentation will be at `dox/doxygen/astaroth_doc_html/index.html`.
@@ -90,9 +111,9 @@ globalFunction(void)
return;
}
```
## Miikka's compilation notes
## TIARA cluster compilation notes
Modules Modules usen when compiling when compiling
Modules used when compiling the code on TIARA cluster.
* intel/2016
* hdf5/1.8.16_openmpi_1.10.2_ic16.0
@@ -100,20 +121,3 @@ Modules Modules usen when compiling when compiling
* openmpi/1.10.2_ic16.0
* gcc/5.3.0
* cuda/9.0
Requires this gcc flag to compile: `-mno-bmi2` Otherwise you get assembler error!
For stencil pre-processing `flex` and particularly `libfl` is required for `acc/code_generator.c` to compile.
Need CUDA version 9.2 or above version.
Comment out cudaGetDeviceCount(&num_devices) in astaroth.cu
OLD: `astaroth_2.0/acc/build.sh` only work when each line is written individually. (**solution needed**)
(**These are here because I don't dare to delete them yet** OLD: Intel compiler does not get correct flags with cmake on default settings.
This worked with 1.0: `cmake -D CMAKE_C_COMPILER=icc -D CMAKE_CXX_COMPILER=icpc -DDOUBLE_PRECISION=OFF -DBUILD_DEBUG=OFF ..`
but not this time. Issue with calling c+11 + definin compiler flags correctly in nvcc.
OLD: I need to put `-I/software/opt/cuda/9.0/include` into the ../CMakeLists.txt so that it compiles. )