GitHub - CY-Zhang/MultisliceCPP: Modified CPP multislice STEM simulation code based on Kirkland's CPP code

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Modified CPP multislice STEM simulation code based on Kirkland's CPP code

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Name		Name	Last commit message	Last commit date
Latest commit History 14 Commits
Autocbed.input		Autocbed.input
Autocbed.sh		Autocbed.sh
AutostemTemplate.input		AutostemTemplate.input
Readme.txt		Readme.txt
atompot.cpp		atompot.cpp
autocbed.cpp		autocbed.cpp
autocbed.hpp		autocbed.hpp
autocbedcmd.cpp		autocbedcmd.cpp
autoslic.cpp		autoslic.cpp
autoslic.hpp		autoslic.hpp
autosliccmd.cpp		autosliccmd.cpp
autostem.cpp		autostem.cpp
autostem.hpp		autostem.hpp
autostemcmd.cpp		autostemcmd.cpp
cfpix.cpp		cfpix.cpp
cfpix.hpp		cfpix.hpp
fftw3.h		fftw3.h
floatTIFF.cpp		floatTIFF.cpp
floatTIFF.hpp		floatTIFF.hpp
image.cpp		image.cpp
incostem.cpp		incostem.cpp
incostem.hpp		incostem.hpp
incostemcmd.cpp		incostemcmd.cpp
makefile		makefile
mulslice.cpp		mulslice.cpp
pdb2xyz.cpp		pdb2xyz.cpp
probe.cpp		probe.cpp
probe.hpp		probe.hpp
probecmd.cpp		probecmd.cpp
slicelib.cpp		slicelib.cpp
slicelib.hpp		slicelib.hpp
stemslic.cpp		stemslic.cpp
sumpix.cpp		sumpix.cpp

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Multislice package updated 06/09/17, cz

Update on 06/09/17
- Added autocbed to the package
- Both CBED and PACBED would be saved as tif file in the output, CBED follows notation of Name_x-y-thickness.tif
- Output image would have the original single precision image on the second layer, the first layer and third layer is meaningless

Update on 2/27/17:
- probe, auotslic modified to use the freqn function with float variables
- makefile updated to compile/remove all files we have here

Update on 1/9/17:
- function freqn variable changed back to float (from double) to avoid some simulation error
- currently only autostem and atompot can be compiled, probe, autoslic needs to be adapted to he new chi function
- this version doesn't include sensitivity map yet, sensitivity map version can be found in ACI/MultisliceCPPNew, which doesn't contain adapted chi function

Updates on 12/9/16:
-applied aberration function following Rose et al notation
-connect probe, autoslic, autostem to the new aberration function
-update k space parameters that is created by function freqn to double instead of float

part of the package can be compiled with g++ on ACI by type

	make atompot
	make autoslic
	make autostem
	make image
	make probe
	make autocbed

currently not compatible with condor_compile due to some library problem