<div dir="ltr">Dear List,<div>I found success in running AMICA within MATLAB and at the prompt after loading the scripts and binary onto a linux machine. Initially, I got a similar error message to the one in my initial list email. Going off of a friend's suggestion that there might be something up with permissions (thanks Scott Burwell!!!), I gave the 'amica12' binary file full -rwx permissions. After a MATLAB restart, I tried running runamica12.m again and it worked! </div>
<div><br></div><div style>I went back to the original Mac computer, and modified the permissions for the mac64 binary. However, I'm still not able to run the scripts, and I get the same error. I'm going to experiment more at another time, but perhaps there's an additional permission setting I could change to make it work. </div>
<div style><br></div><div style>That's what I know at this point.</div><div style>Cheers,</div><div style>Jake</div><div> <div class="gmail_extra"><br><div class="gmail_quote">On Thu, Jun 27, 2013 at 12:00 PM, Jacob Anderson <span dir="ltr"><<a href="mailto:jea@umn.edu" target="_blank">jea@umn.edu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div dir="ltr">Dear List,<div>I'm trying AMICA out for the first time, and I'm running into some problems. After downloading the mac64 binary and MATLAB functions from Jason's website, I tried passing a continuous, 128-channel dataset through the algorithm and got the error below. It looks like there is a Fortran error message that pops up from a failure to run the 'amica12mac64' binary. </div>
<div><br></div><div>I'm currently using EEGLAB 12.0.2.1b within Matlab 2013a on OSX (10.8.4). I've tried using both the GUI and command line methods to see if they work, both fail. The GUI just hangs, but I do get an error at the command line referencing that it can't access the "<span style="line-height:19.046875px;font-size:13px;font-family:sans-serif">libiomp5.dylib"</span><span style="line-height:19.046875px;font-size:13px;font-family:sans-serif"> library. Perhaps this library changed in the recent releases of OSX. I did a quick google search, and it looks like this library has something to do with Fortran and Intel, which corroborates the error message below. The </span><font color="#000000" face="sans-serif"><span style="line-height:19.046875px"><a href="http://sccn.ucsd.edu/wiki/Amica_Download" target="_blank">http://sccn.ucsd.edu/wiki/Amica_Download</a> page mentions moving this library into the directory the binary is run from, but I can't find the library for some reason.</span></font></div>
<div><font color="#000000" face="sans-serif"><span style="line-height:19.046875px"><br></span></font></div><div><font color="#000000" face="sans-serif"><span style="line-height:19.046875px">I'm going to find a Win7 machine to try these scripts on this afternoon, but I wanted to drop a note here to see if anyone else may have run into this same issue. </span></font></div>
<div><font color="#000000" face="sans-serif"><span style="line-height:19.046875px"><br></span></font></div><div><font color="#000000" face="sans-serif"><span style="line-height:19.046875px">Thanks,</span></font></div>
<div><font color="#000000" face="sans-serif"><span style="line-height:19.046875px">Jake</span></font></div><div><br></div><div>%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%</div><div><br></div><div><div>/bin/sh: qconf: command not found</div>
<div>/bin/sh: qconf: command not found</div><div>/bin/sh: qconf: command not found</div><div>No recognized parallel environment found. Run qconf -spl to get a list of available environments and use keyword use_pe.</div><div>
Running locally with maximum of 4 threads.</div><div>Writing data file: /Users/ande2523/Documents/MATLAB/amica/tmpdata12699.fdt</div><div>mkdir: /Users/ande2523/Documents/MATLAB/amica/amicaouttmp/: File exists</div><div>
1 processor name = </div>
<div> 1 host_num = 1917549169</div><div> This is MPI process 1 of 1 ; I am process 1 of</div><div> 1 on node: xxxxx</div>
<div> 1 : node root process 1 of 1</div><div>Processing arguments ...</div><div> num_files = 1</div><div> FILES: </div><div> /Users/ande2523/Documents/MATLAB/amica/tmpdata12699.fdt</div>
<div> num_dir_files = 1</div><div> matrix block_size = 256</div><div> number of models = 1</div><div> number of density mixture components = 3</div><div> pdf type = 0</div>
<div> max_iter = 2000</div><div> num_samples = 1</div><div> data_dim = 128</div><div> field_dim = 459165</div><div> do_history = 0</div><div> histstep = 10</div><div>
share_comps = 0</div><div> share_start = 100</div><div> comp_thresh = 0.990000000000000 </div><div> share_int = 100</div><div> initial lrate = 5.000000000000000E-002</div><div> minimum lrate = 1.000000000000000E-008</div>
<div> lrate factor = 0.500000000000000 </div><div> initial rholrate = 5.000000000000000E-002</div><div> rho0 = 1.50000000000000 </div><div> min rho = 1.00000000000000 </div><div> max rho = 2.00000000000000 </div>
<div> rho lrate factor = 0.500000000000000 </div><div> kurt_start = 3</div><div> num kurt = 5</div><div> kurt interval = 1</div><div> do_newton = 1</div><div> newt_start = 50</div>
<div> newt_ramp = 10</div><div> initial newton lrate = 1.00000000000000 </div><div> do_reject = 0</div><div> num reject = 3</div><div> reject sigma = 3.00000000000000 </div><div>
reject start = 2</div><div> reject interval = 3</div><div> max_thrds = 2</div><div> write step = 10</div><div> write_nd = 0</div><div> write_LLt = 1</div>
<div>
dec window = 1</div><div> max_decs = 3</div><div> fix_init = 0</div><div> update_A = 1</div><div> update_c = 1</div><div> update_gm = 1</div><div> update_alpha = 1</div>
<div> update_mu = 1</div><div> update_beta = 1</div><div> invsigmax = 100.000000000000 </div><div> invsigmin = 0.000000000000000E+000</div><div> do_rho = 1</div><div> load_rej = 0</div>
<div> load_c = 0</div><div> load_gm = 0</div><div> load_alpha = 0</div><div> load_mu = 0</div><div> load_beta = 0</div><div> load_rho = 0</div><div> load_comp_list = 0</div>
<div> do_mean = 1</div><div> do_sphere = 1</div><div> doPCA = 1</div><div> pcakeep = 128</div><div> pcadb = 30.0000000000000 </div><div> byte_size = 4</div><div>
doscaling = 1</div><div> scalestep = 1</div><div>mkdir: /Users/ande2523/Documents/MATLAB/amica/amicaouttmp/: File exists</div><div> output directory = /Users/ande2523/Documents/MATLAB/amica/amicaouttmp/</div>
<div> 1 : setting num_thrds to 2 ...</div><div> 1 : using 2 threads.</div><div> 1 : node_thrds = 2</div><div> getting segment list ...</div><div> blocks in sample = 459165</div>
<div> total blocks = 459165</div><div> node blocks = 459165</div><div> node 1 start: file 1 sample 1 index </div><div> 1</div><div> node 1 stop : file 1 sample 1 index </div>
<div> 459165</div><div>forrtl: severe (36): attempt to access non-existent record, unit 8, file /Users/ande2523/Documents/MATLAB/amica/tmpdata12699.fdt</div><div>Image PC Routine Line Source </div>
<div>amica12mac64 0039A6C8 Unknown Unknown Unknown</div><div>amica12mac64 003990A9 Unknown Unknown Unknown</div><div>amica12mac64 0037099F Unknown Unknown Unknown</div>
<div>amica12mac64 00336294 Unknown Unknown Unknown</div><div>amica12mac64 00335967 Unknown Unknown Unknown</div><div>amica12mac64 0034CB44 Unknown Unknown Unknown</div>
<div>amica12mac64 0034B413 Unknown Unknown Unknown</div><div>amica12mac64 00229E34 Unknown Unknown Unknown</div><div>amica12mac64 001FC4D2 Unknown Unknown Unknown</div>
<div>amica12mac64 0000218D Unknown Unknown Unknown</div><div>amica12mac64 00002145 Unknown Unknown Unknown</div><div>Unknown 00000002 Unknown Unknown Unknown</div>
<div>No gm present, setting num_models to 1</div><div>No W present, exiting</div><div>Reference to non-existent field 'W'.</div><div><br></div><div>Error in runamica12 (line 854)</div><div> weights = mods.W(:,:,1);</div>
<div><br></div><div>Error in amica_test (line 3)</div><div>[ EEG.icaweights, EEG.icasphere, mods ] = runamica12(EEG.data(:,:));</div></div><span><font color="#888888"><div><br></div><div><br></div><div><br>
<div><br></div><div><br></div><div>
<br></div>-- <br>
<div dir="ltr">*************************************************<br>Jacob E. Anderson, MA<br>
Doctoral Student<br>
Institute of Child Development<br>51 East River Rd.<br>Minneapolis, MN 55455<br><br>E-mail: <a href="mailto:jea@umn.edu" target="_blank">jea@umn.edu</a><br>Web: <a href="http://www.cehd.umn.edu/icd/people/gradstudents/andersonJ.html" target="_blank">Click Here</a><br>
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