<div dir="ltr"><div><div><div><div><div>Hi all,<br><br></div>Just to update, AMICA worked on my MEG data after set the 'numprocs' to 1 or 0. I am not sure how that happened as my computer has 4 physical processors. <br><br></div>Hi Jason,<br></div>Could explain how the argument 'numprocs' influences AMICA processing?<br><br></div>Thanks,<br></div>Yanan<br></div><div class="gmail_extra"><br><div class="gmail_quote">On 29 September 2015 at 16:59, 孙亚楠 <span dir="ltr"><<a href="mailto:sunyanan2008@gmail.com" target="_blank">sunyanan2008@gmail.com</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"><div><div>Hi eeglablist members,<br><br>I get the same bus error like what Michael got before. Has anyone solved this?<br></div><br>I can run amica successfully on the sample data (Memorized.fdt) and on my EEG data (64 channels) but not on my MEG data (160 channels Yokogawa) where showed "forrtl: severe (180): SIGBUS, bus error occurred". <br></div><div><br>The MEG data has standardized and it can be run successfully using the AMICA app but bus error happened when calling runamica12.m in MATLAB.<br><br>P.S. I am running runamica12 on R2014b, iMac 10.10.5.<br><br></div><div>Thanks,<br></div><div>Yanan<br></div></div><div class="gmail_extra"><br><div class="gmail_quote"><div><div class="h5">On 17 June 2015 at 14:20, Michael Spezio <span dir="ltr"><<a href="mailto:mspezio@scrippscollege.edu" target="_blank">mspezio@scrippscollege.edu</a>></span> wrote:<br></div></div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex"><div><div class="h5">
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Dear Jason, Makoto, and other AMICA users,<br>
<br>
I am able to successfully run AMICA in Matlab with runamica12 (R2014b, iMac 10.9.5) on the sample data Memorize.fdt.<br>
<br>
However, I get a bus error when I try to run AMICA on my own data. I've posted the error below.<br>
<br>
I've verified that the data rank is equal to the number of channels (202). I've also verified that the cnt is correct, 118 epochs, 900 points per epoch. The epochs are 4 nonoverlapping types, each having the -1 to 2 second default bounds.<br>
<br>
Can you provide any insight into what is going wrong? I'm following Makoto's pipeline.<br>
<br>
Are there additional checks I need to do on my data prior to AMICA?<br>
<br>
Thanks.<br>
<br>
Best,<br>
<br>
Michael<br>
<br>
[ EEG.icaweights, EEG.icasphere, mods ] = runamica12(EEG.data(:,:));<br>
<br>
Processing arguments ...<br>
num_files = 1<br>
FILES: <br>
/Users/mlspezio/Matlab/scripts/Projects/HLCC_EEG/HLCC_EEG_Preprocessing/tmpdata<br>
92389.fdt<br>
num_dir_files = 1<br>
initial matrix block_size = 256<br>
do_opt_block = 0<br>
number of models = 1<br>
number of density mixture components = 3<br>
pdf type = 0<br>
max_iter = 2000<br>
num_samples = 1<br>
data_dim = 202<br>
field_dim = 106200<br>
do_history = 0<br>
histstep = 10<br>
share_comps = 0<br>
share_start = 100<br>
comp_thresh = 0.990000000000000 <br>
share_int = 100<br>
initial lrate = 5.000000000000000E-002<br>
minimum lrate = 1.000000000000000E-008<br>
lrate factor = 0.500000000000000 <br>
initial rholrate = 5.000000000000000E-002<br>
rho0 = 1.50000000000000 <br>
min rho = 1.00000000000000 <br>
max rho = 2.00000000000000 <br>
rho lrate factor = 0.500000000000000 <br>
kurt_start = 3<br>
num kurt = 5<br>
kurt interval = 1<br>
do_newton = 1<br>
newt_start = 50<br>
newt_ramp = 10<br>
initial newton lrate = 1.00000000000000 <br>
do_reject = 0<br>
num reject = 3<br>
reject sigma = 3.00000000000000 <br>
reject start = 2<br>
reject interval = 3<br>
max_thrds = 2<br>
write step = 10<br>
write_nd = 0<br>
write_LLt = 1<br>
dec window = 1<br>
max_decs = 3<br>
fix_init = 0<br>
update_A = 1<br>
update_c = 1<br>
update_gm = 1<br>
update_alpha = 1<br>
update_mu = 1<br>
update_beta = 1<br>
invsigmax = 100.000000000000 <br>
invsigmin = 0.000000000000000E+000<br>
do_rho = 1<br>
load_rej = 0<br>
load_c = 0<br>
load_gm = 0<br>
load_alpha = 0<br>
load_mu = 0<br>
load_beta = 0<br>
load_rho = 0<br>
load_comp_list = 0<br>
do_mean = 1<br>
do_sphere = 1<br>
doPCA = 1<br>
pcakeep = 202<br>
pcadb = 30.0000000000000 <br>
byte_size = 4<br>
doscaling = 1<br>
scalestep = 1<br>
mkdir: /Users/mlspezio/Matlab/scripts/Projects/HLCC_EEG/HLCC_EEG_Preprocessing/amicaouttmp/: File exists<br>
output directory = <br>
/Users/mlspezio/Matlab/scripts/Projects/HLCC_EEG/HLCC_EEG_Preprocessing/amicaou<br>
ttmp/<br>
1 : setting num_thrds to 2 ...<br>
1 : using 2 threads.<br>
1 : node_thrds = 2<br>
i = 1 real ierr = 0<br>
bytes in real = 1<br>
1 : REAL nbyte = 1<br>
getting segment list ...<br>
blocks in sample = 106200<br>
total blocks = 106200<br>
node blocks = 106200<br>
node 1 start: file 1 sample 1 index <br>
1<br>
node 1 stop : file 1 sample 1 index <br>
106200<br>
1 : data = -7.69530153274536 -17.7782669067383 <br>
getting the mean ...<br>
mean = -0.427972755604667 -0.451065303007086 <br>
-0.407206153567977 <br>
subtracting the mean ...<br>
getting the sphering matrix ...<br>
cnt = 106200<br>
doing eig nx = 202 lwork = 408040<br>
minimum eigenvalues = 9.293485032426282E-002 0.123639438673911 <br>
0.145761886209716 <br>
maximum eigenvalues = 76318.4901712733 22041.<a href="tel:6054108954" value="+16054108954" target="_blank">6054108954</a> <br>
4928.60680527982 <br>
num eigs kept = 202<br>
numeigs = 202<br>
sphering the data ...<br>
1 Allocating variables ...<br>
1 : Initializing variables ...<br>
1 : block size = 256<br>
1 : entering the main loop ...<br>
forrtl: severe (180): SIGBUS, bus error occurred<br>
/Users/mlspezio/Matlab/toolboxes/UseAMICA/amica12mac64 /Users/mlspezio/Matlab/scripts/Projects/HLCC_EEG/HLCC_EEG_Preprocessing/amicaouttmp/input.param: Signal 52<br>
No gm present, setting num_models to 1<br>
No W present, exiting<br>
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</blockquote></div><br><br clear="all"><br>-- <br><div class="gmail_signature"><div>Yanan Sun</div><div>PHD Student<br><div><div><div style="font-family:arial,sans-serif;font-size:13px;background-color:rgb(255,255,255)">ARC Centre of Excellence in Cognition and its Disorders<br></div><span style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px;background-color:rgb(255,255,255)">& Department of Cognitive Science, </span></div><div><span style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px;background-color:rgb(255,255,255)">Faculty of Human Sciences,</span></div></div><div><span style="color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px;background-color:rgb(255,255,255)">Macquarie University, </span></div><div><span style="background-color:rgb(255,255,255);color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px">NSW, 2109, </span><span style="background-color:rgb(255,255,255);color:rgb(34,34,34);font-family:arial,sans-serif;font-size:13px">Australia</span></div></div></div>
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