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BNAadministrator3 committed Dec 29, 2015
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@echo *******************************************************************************
@echo * Welcome to use ParBNA by NICS, EE, Tsinghua University *
@echo * Brain Network Analysis *
@echo * This function calculates characteristics of brain networks, *
@echo * Degree, Clustering coefficients (Cp), Graph diameter (Lp), Modular structure*
@echo *******************************************************************************

@echo -Please enter a directory containing your networks (.csr files)
@echo -All the .csr files in the directory will be processed.
@set /p out=^>^><nul
@set /p directory="C:\YuduLi\sub002lzg"
@echo.

@echo. >BNA_execute.bat
@echo -Do you want to calculate Degree [Y, N]?
@set /p out=^>^><nul
@set /p mychoice=
@echo.
@if %mychoice%==Y goto calcu_degree
@if %mychoice%==y goto calcu_degree
@if %mychoice%==N goto ask_Cp
@if %mychoice%==n goto ask_Cp
@:calcu_degree
@echo .\Degree.exe %directory%>>BNA_execute.bat
@goto ask_Cp

@:ask_Cp
@echo -Do you want to calculate Cp [Y, N]?
@set /p out=^>^><nul
@set /p mychoice=
@echo.
@if %mychoice%==Y goto calcu_Cp
@if %mychoice%==y goto calcu_Cp
@if %mychoice%==N goto ask_Lp
@if %mychoice%==n goto ask_Lp
@:calcu_Cp
@echo -How many random networks for Cp comparison? Enter 0 if desiring no comparison.
@set /p out=^>^><nul
@set /p number=
@echo.
@echo .\Cp.exe %directory% %number% >>BNA_execute.bat
@goto ask_Lp

@:ask_Lp
@echo -Do you want to calculate Lp [Y, N]?
@set /p out=^>^><nul
@set /p mychoice=
@echo.
@if %mychoice%==Y goto calcu_Lp
@if %mychoice%==y goto calcu_Lp
@if %mychoice%==N goto ask_bc
@if %mychoice%==n goto ask_bc
@:calcu_Lp
@echo -How many random networks for Lp comparison? Enter 0 if desiring no comparison.
@set /p out=^>^><nul
@set /p number=
@echo.
@echo .\CUBFW_Lp.exe %directory% %number% >>BNA_execute.bat
@goto ask_bc

@:ask_bc
@echo -Do you want to calculate Betweenness Centrality [Y, N]?
@set /p out=^>^><nul
@set /p mychoice=
@echo.
@if %mychoice%==Y goto calcu_bc
@if %mychoice%==y goto calcu_bc
@if %mychoice%==N goto end
@if %mychoice%==n goto end
@:calcu_bc
@echo .\CUBC.exe %directory%>>BNA_execute.bat

@:end
@echo @pause>>BNA_execute.bat
@.\BNA_execute.bat
@pause
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.\Degree.exe
@pause
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Degree c:\YuduLi\sub002lzg\CovRegressed_4DVolume_69078_spa11.620%_cor0.250.csrCPU kernel time 0.521s
Degree c:\YuduLi\sub002lzg\CovRegressed_4DVolume_69078_spa4.835%_cor0.350.csrCPU kernel time 0.217s
Degree c:\YuduLi\sub002lzg\CovRegressed_4DVolume_69078_spa7.643%_cor0.300.csrCPU kernel time 0.343s
Degree CPU total time 16.517s

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@echo *******************************************************************************
@echo * Welcome to use ParBNA by NICS, EE, Tsinghua University *
@echo * Brain Network Construction *
@echo * This function constructs brain networks from BOLD signals *
@echo *******************************************************************************

@echo -Please enter a directory containing your .nii files for BOLD signals.
@echo -The directory should contain a "mask.nii".
@echo -All the .nii file(s) in the directory will be processed.
@set /p out=^>^><nul
@set /p directory="C:\YuduLi\sub002lzg"
@echo.

@echo -Please input a threshold for "mask.nii" to select the valid voxel [0~1].
@echo -e.g. 0.5
@set /p out=^>^><nul
@set /p threshold_mask= 0.5
@echo.

@echo -Please input threshold(s) for correlation coefficients to binarize the network(s) [0~1].
@echo -e.g. 0.5 0.6 0.7
@set /p out=^>^><nul
@set /p threshold_corr= 0.5
@echo.

@echo -Are the correlation metrices to be averaged [Y, N, B]?
@echo -Y: The output is a network averaged from all the corelation matrices.
@echo -N: The output are individual networks.
@echo -B: The output are both of above.
@set /p out=^>^><nul
@set /p average= N
@echo.

@echo .\CUCorMat.exe "C:\YuduLi\sub002lzg" 0.2 n n r 0.25 0.3 0.35>BNC_execute.bat
@echo @pause>>BNC_execute.bat
@.\BNC_execute.bat
@pause
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rem .\CUCorMat.exe E:\xumo\4Dnii 0.2 Y 0.15 0.25 0.35 0.45 0.55
rem .\ConvertNII.exe E:\xumo\4Dnii\4Dnii_197_58523_0.023%.deg E:\xumo\4Dnii\mask.nii 0.2
rem .\Degree.exe E:\xumo\4Dnii
.\Cp.exe E:\xumo\niimodu 10
rem .\Modularity_CPU.exe E:\xumo\4Dnii 0
rem .\CUBFW_Lp.exe E:\xumo\4Dnii 0
rem .\CUBFW_Lp.exe E:\xumo\4Dnii 0
rem .\CUBC.exe E:\xumo\4Dnii

rem.\CUBFW_Lp.exe E:\xumo\onenii 0
@pause
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.\CUCorMat.exe "C:\YuduLi\sub002lzg" 0.2 n n r 0.25 0.3 0.35
@pause
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Microsoft Visual Studio Solution File, Format Version 12.00
# Visual Studio 2012
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "ConvertNII", "ConvertNII\ConvertNII\ConvertNII.vcxproj", "{B2C2F911-0531-4334-82C4-A675D9B2CF1B}"
EndProject
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "Cp", "Cp\Cp\Cp.vcxproj", "{285304C3-6C56-49C4-91F6-03E8332751BC}"
EndProject
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "Degree", "Degree\Degree\Degree.vcxproj", "{2B6A645D-BCFC-486A-B0FA-FC6EF5737C37}"
EndProject
Project("{2150E333-8FDC-42A3-9474-1A3956D46DE8}") = "Solution Items", "Solution Items", "{356D47D3-157B-445A-A6E1-18542D355954}"
EndProject
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "Louvain_Modularity", "Louvain_Modularity\Louvain_Modularity\Louvain_Modularity.vcxproj", "{CD5F1456-82DB-4F8F-A11B-F9D930330D1B}"
EndProject
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "PC_CPU", "PC_CPU\PC_CPU\PC_CPU.vcxproj", "{B3F755C9-4B9F-4AED-A171-3269D390228B}"
EndProject
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "CUCorMat", "CorMat\CUCorMat\CUCorMat\CUCorMat.vcxproj", "{3ED85F69-EDFD-41F3-A8FC-804596D267AC}"
EndProject
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "CUCP", "Cp_GPU\CUCP\CUCP.vcxproj", "{020F3508-B64C-4F67-9936-B1FBB1D870C5}"
EndProject
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "CUBFW_Lp", "Lp\CUBFW_Lp\CUBFW_Lp\CUBFW_Lp.vcxproj", "{D1B7B08C-C14D-4011-959F-14F7DD0F952D}"
EndProject
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "CUEC", "CUEC\CUEC.vcxproj", "{EBE7A838-C722-4643-981E-1C0C0A9077C7}"
EndProject
Project("{8BC9CEB8-8B4A-11D0-8D11-00A0C91BC942}") = "SmallWorldProperty", "SmallWorldProperty\SmallWorldProperty.vcxproj", "{7E3F01B7-3DA9-4BA0-A527-0DFBE1504DD4}"
EndProject
Global
GlobalSection(SolutionConfigurationPlatforms) = preSolution
Debug|Mixed Platforms = Debug|Mixed Platforms
Debug|Win32 = Debug|Win32
Debug|x64 = Debug|x64
Release|Mixed Platforms = Release|Mixed Platforms
Release|Win32 = Release|Win32
Release|x64 = Release|x64
EndGlobalSection
GlobalSection(ProjectConfigurationPlatforms) = postSolution
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{7E3F01B7-3DA9-4BA0-A527-0DFBE1504DD4}.Release|Win32.ActiveCfg = Release|Win32
{7E3F01B7-3DA9-4BA0-A527-0DFBE1504DD4}.Release|Win32.Build.0 = Release|Win32
{7E3F01B7-3DA9-4BA0-A527-0DFBE1504DD4}.Release|x64.ActiveCfg = Release|Win32
{7E3F01B7-3DA9-4BA0-A527-0DFBE1504DD4}.Release|x64.Build.0 = Release|Win32
EndGlobalSection
GlobalSection(SolutionProperties) = preSolution
HideSolutionNode = FALSE
EndGlobalSection
EndGlobal
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