Error when running init

[hgxy15]

Hi Ben,

When running emClarity init as demonstrated in the tutorial, I ran into the matrix dimension exceeded error. I changed the if statement on line 112 of emClarity.m and recompiled the program and solved the problem. I dont know if this error is due to my matlab version (R2017b) and whether this will affect other utilities of emClarity. if strcmpi(varargin{2},'help') || strcmpi(varargin{2},'h') || ... length(varargin) ~= 2 && length(varargin) ~= 3 was changed to: if length(varargin) ~= 2 && length(varargin) ~= 3 || ... strcmpi(varargin{2},'help') || strcmpi(varargin{2},'h')

[hgxy15]

Also, I ran into some problem when running alignRaw, the program reports error parsing param0.m, the program seems to fail in finding the function BH_parseParameterFile.m, I find the function in metaData/BH_parseParameterFile.m so I guess I'm missing some steps in setting the path variable for matlab.

Best, Gaoxing

[bHimes]

Hi Gaoxing,

The matrix dimension exceeded error is indicating that something is not entered correctly in your parameter file. Most likely, it is probably a ";" replaced with a ","

There are a number of places where higher rank matrices appear on a single line. For example a 2 x 3 (rows X columns) might look like this

someParameter=[ 0, 2 ; 1, 3 ]

When you ran the initialization did you run

$ emClarity init param0.m

And was this from a shell using a compiled version?

Please send me your logfile and your param0.m to inspect.

[bHimes]

Hi @hgxy15 , did my response above address your problems?

[hgxy15]

Hi Ben, Sorry for the delay of this reply, I recently visited Switzerland for the tomography conference and didn't have access to the internet. I solved the init problem by exchanging the appearance order of different condition statments. The RawAlign problem I encountered reported the following: ***

emClarity version 1680e2f run starting on 21-Sep-2018 21:21:29 cmd avg param0.m 0 RawAlignment

    ***************************************

ans =

"The parameter file to be parsed is param0.m"

Error using emClarity>emC_testParse (line 471) error parsing parameter file param0.m

Error in emClarity (line 60) Also, what is your mostly frequently used email address? I will send the log file and the param0.m file to your email if possible. Best, Gaoxing