Basic instructions

How to download/build pyuedge, read and save hdf5 files, and some simple plot commands.

Author: trognlien

.DS_Store

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+Various procedures for python uedge:
+#################################
+
+For initial installation of the python version of uedge:
+============================================
+To install forthon and mppl (should only need to do once)
+   pip install forthon mppl 
+
+To install the present version of uedge
+   pip install uedge
+
+To install a specific version of uedge (here V7.08)
+   pip install uedge==7.08.1
+
+To install a specific version and leave source code available
+   pip install —upgrade —no-cache-dir uedge==7.08.1
+
+To download a specific version of uedge
+   pip download uedge==7.08.1
+ 
+should add —upgrade if this is an upgrade to an existing build
+######################################################
+
+To build or remake a version of uedge on your machine, 
+say uedge_vxx, after you have made changes to the source 
+============================================
+cd to uedge_vxx
+edit the files you want to change
+go back to the uedge_vxx level
+type:
+python setup.py sdist 
+cd dist
+type:
+pip install uedge_vxx.tar.gz - - upgrade
+###############################################
+
+To restore an hdf5 save file within a python session:
+============================================
+python
+import uedge
+from uedge.hdf5 import *
+hdf5_restore(“hdf5_filename”)
+##############################################
+
+To save a uedge solution in hdf5 format:
+============================================
+within a pyuedge session:
+from uedge.hdf5 import *  #if not done previously
+hdf5_save(“mycase.hdf5”)
+#############################################
+
+To convert old pdb files to hdf5 files
+=============================================
+login to viserion.llnl.gov   (Meyer’s linux box)
+module load anaconda2
+pdb2hdf5 mycase.pdb mycase.hdf5  
+# here mycase.hdf5 will then contain the date in hdf5 format
+###############################################
+
+To read input file
+=============================================
+from within python
+import uedge
+from uedge import *                  #makes the uedge variables available
+from input_file_name import *   #omit any .py
+###############################################

pyUEDGE_basic_instructions/basic_pyuedge_instructions.txt

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+=======
+Plotting profiles on outer divertor plate:
+=======
+
+profile(com.yyrb,bbb.ne[com.nx,],title=“Electron density”, xlabel=“Distance along outer plate (m)”, ylabel=“ne (1/m**3)”)
+
+profile(com.yyrb,bbb.ng[com.nx,],title=“Hydrogen atom density”, xlabel=“Distance along outer plate (m)”, yfrlabel=“ng(1/m**3)”)
+
+profile(com.yyrb,bbb.te[com.nx,]/bbb.ev,title=“Electron temperature”, xlabel=“Distance along outer plate (m)”, ylable=“Te (eV)”)
+
+profile(com.yyrb,bbb.ti[com.nx,]/bbb.ev,title=“Ion temperature”, xlabel=“Distance along outer plate (m)”, ylable=“Ti (eV)”)
+
+profile(com.yyrb,bbb.feex[com.nx,],title=“Electron thermal heat flux *area”, xlabel=“Distance along outer plate (m)”, ylabel=“feex”)
+
+profile(com.yyrb,bbb.feix[com.nx,],title=“Ion thermal heat flux *area”, xlabel=“Distance along outer plate (m)”, ylabel=“feix”)
+
+
+=======
+Plotting profiles on inner divertor plate:
+=======
+
+profile(com.yylb,bbb.ne[0,],title=“Electron density”, xlabel=“Distance along inner plate (m)”, ylabel=“ne (1/m**3)”)
+
+profile(com.yylb,bbb.ng[0,],title=“Hydrogen atom density”, xlabel=“Distance along inner plate (m)”, ylabel=“ng(1/m**3)”)
+
+profile(com.yylb,bbb.te[0,]/bbb.ev,title=“Electron temperature”, xlabel=“Distance along inner plate (m)”, ylabel=“Te (eV)”)
+
+profile(com.yylb,bbb.ti[0,]/bbb.ev,title=“Ion temperature”, xlabel=“Distance along inner plate (m)”, ylabel=“Ti (eV)”)
+
+profile(com.yylb,-bbb.feex[0,],title=“Electron thermal heat flux *area”, xlabel=“Distance along inner plate (m)”, ylabel=“feex”)
+
+profile(com.yylb,-bbb.feix[0,],title=“Ion thermal heat flux *area”, xlabel=“Distance along inner plate (m)”, ylabel=“feix”)
+
+=======
+Plotting midplane profiles:
+=======
+
+profile(com.yylb,bbb.ne[bbb.ixmp,],title=“Electron density at midplane”, xlabel=“Distance from separatrix (m)”, ylabel=“ne (1/m**3)”)
+
+profile(com.yylb,bbb.ng[bbb.ixmp,],title=“Hydrogen atom density at midplane”, xlabel=“Distance from separatrix (m)”, ylabel=“ng(1/m**3)”)
+
+profile(com.yylb,bbb.te[bbb.ixmp,]/bbb.ev,title=“Electron temperature at midplane”, xlabel=“Distance from separatrix (m)”, ylabel=“Te (eV)”)
+
+profile(com.yylb,bbb.ti[bbb.ixmp,]/bbb.ev,title=“Ion temperature at midplane”, xlabel=“Distance from separatrix (m)”, ylabel=“Ti (eV)”)
+
+
+