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| + | '''phParAdapt''' is a program for doing mesh adaptation in PHASTA. This is either done using [[SCOREC Core]] utilties, or though Simmetrix. |
| − | == Download and compile (viz nodes) ==
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| − | This sections is inspired from <http://redmine.scorec.rpi.edu/projects/pumi/wiki/Build_Instructions>. | |
| − | The SCOREC tools now build against CMake. Only Parma, the PHASTA utilities and phParAdapt still builds against Autotools.
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| − | From a termonal, run the following commands:
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| − | soft add +cmake
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| − | soft add +git
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| − | cd ~
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| − | mkdir SCOREC.develop
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| − | cd SCOREC.develop
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| − | git clone ssh://your_username@jumpgate-phasta.colorado.edu/users/mrasquin/SCOREC.develop/compilation
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| − | The git command will download these instructions, along with a checkout and compile script for Parma and phParAdapt. The next commands are to compile the whole stack with the GNU compiler on the viz nodes are:
| + | [[phParAdapt-SCOREC]] |
| − | soft add +gcc-4.8.1
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| − | soft add +openmpi-gnu
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| − | mkdir install-gcc-O2 //all the libraries and executable will go there
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| − | mkdir build-gcc-O2 // this is where you will run the cmake commands
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| − | cd build-gcc-O2
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| − | cmake ../CMake.SCOREC -DCMAKE_BUILD_TYPE=RelWithDebInfo -DCMAKE_INSTALL_PREFIX=/users/mrasquin/SCOREC.develop/install-gcc-O2 -DCMAKE_C_COMPILER=mpicc -DCMAKE_CXX_COMPILER=mpicxx
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| − | Do not forget to update the path to PREFIX according to your install directory.
| + | [[phParAdapt-Simmetrix]] |
| − | By default, it compiles with meshmodel. See the redmine link above about how to compile with parasolid or other geometric model.
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| − | The cmake command downloads the parmetis package inside the build-gcc-O2 directory. If you want to use 64 bit integer in parmetis, which is only useful for big meshes in serial, edit
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| − | parmetis-4.0.2/metis/include/metis.h
| + | == Subpages == |
| | + | {{Special:PrefixIndex/PhParAdapt/}} |
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| − | and set
| + | [[Category:Software]] |
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| − | #define IDXTYPEWIDTH 64
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| − | | |
| − | Now, compile the SCOREC tools:
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| − | | |
| − | make 2>&1 | tee log_cmake_make.dat
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| − | make install 2>&1 | tee log_cmake_install.dat
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| − | cd .. #back to SCOREC.develop
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| − | | |
| − | == Convert geom_ver63.sms to FMDB format==
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| − | *This can be done in same directory in which you created geom_ver63.sms. You first need to convert geom_ver63.sms to FMDB format. The executable that will do this is at /users/jema6380/runSimMesh2FMDB.sh
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| − | *Make a link from the output file, geom_FMDB.sms, to geom.sms (ln -s geom_FMDB.sms geom.sms)
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| − | | |
| − | ==Create geom.spj==
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| − | *If you have not done so already, create geom.spj. This is not done with Simulation Maker as was done previously, but can simply be done with a vim editor. See the file /users/jema6380/Models/Boeing/BetaScale2CaltechTunnel/CT_Open32_B0_D30_U20/9-A0-24jets/geom.spj for some guidance. As a quick example, if your boundary condition is a velocity of 20 i_hat m/s (comp3) on the inlet face (which let's say has a face number of 1651), then you would enter:
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| − | comp3: 1651 2 20 1 0 0
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| − | where the "2" designates that we are talking about a face, which has 2 dimensions; the "20" is the speed; and the "1 0 0" is the direction.
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| − | *Michel created a script that will make this process faster, which is desirable if you have a large number of faces. If you want to use the script, then first use the executable at /users/jema6380/getFaceList.sh to create a list of faces. From the terminal type:
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| − | ./getFaceList.sh "input_file"
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| − | where "input_file" is the file that contains the face numbers, which presumably does not already list them consecutively. This might be BLattr.inp, for exmple.
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| − | *Now create a new directory called "FacesModelAttributes" and put all of the boundary conditions in .dat files. See the files in /users/jema6380/Models/Boeing/BetaScale2CaltechTunnel/CT_Open32_B0_D30_U20/Simplified_SPJ_file/FacesModelAttributes/ for guidance. Make sure all the .dat files have a name that begins with "attr_" .
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| − | *copy /users/jema6380/buildSimplifiedAttrFile.sh to the Simplified_SPJ_file directory and do:
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| − | ./buildSimplifiedAttrFile.sh
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| − | *This should create a file called result.spj, which contains all of the boundary conditions. cd back to your working mesh directory and make a link from result.spj to geom.spj. Also make a link from result.spj to geomNOIC.spj
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| − | | |
| − | ==Partition geom_ver63.sms==
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| − | *Make sure you have geom.xmt_txt in your working directory.
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