Hi Theodor,
Can you please upload one of the problematic datasets (including bvecs,bvals
and brain mask) using
http://www.fmrib.ox.ac.uk/cgi-bin/upload.cgi
and let me know the reference number?
Stam
----- Original Message -----
From: "Theodor R?ber" <[log in to unmask]>
To: <[log in to unmask]>
Sent: Thursday, May 26, 2011 1:15 AM
Subject: Re: [FSL] problem wit bedpostx
Hi Stam,
thanks a lot for your answer!
We use FSL 4.1.8
Best,
Theodor
------------------------------
Date: Wed, 25 May 2011 21:46:59 +0100
From: Stamatios Sotiropoulos <[log in to unmask]>
Subject: Re: problem wit bedpostx
Hi Theodor,
which FSL version you are using?
Stam
------------------------------
Dear FSL-experts,
We have a problem running bedpostx which causes the
nodif_brain_mask and the mean/merged volumina
(mean_f1samples.) to be in a different format. The
nodif_brain_mask is always correct and binarized but there
are a random number of slices missing in the mean/merged
volumina (i.e. between 0-60 out of 72 slices). In approx.
a third of the subjects, zero slices are missing and
everything is fine.
Running > grep ror * < in the logs/ directory we get the
attached output (the number of lines varies between
subjects and depends on the number of slices missing).
The bedpostx is parallelised on our SGE-capable system.
Do you have any idea what is going on here?
Your help would be greatly appreciated!
Best,
Theodor
Output of two exemplary subjects:
Subject 1:
bedpostx.e329.1:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.12:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.13:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.14:Logic error:- detected by Newmat:
incompatible dimensions
bedpostx.e329.15:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.16:Logic error:- detected by Newmat:
incompatible dimensions
bedpostx.e329.19:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.2:Logic error:- detected by Newmat:
incompatible dimensions
bedpostx.e329.20:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.21:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.23:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.25:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.26:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.27:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.28:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.31:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.32:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.33:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.34:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.36:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.37:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.38:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.39:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.4:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.40:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.44:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.45:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.46:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.47:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.48:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.5:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.50:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.51:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.52:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.53:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.54:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.55:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.56:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.57:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.58:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.59:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.6:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.60:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.61:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.62:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.63:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.64:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.65:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.66:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.67:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.68:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.69:Logic error:- detected by Newmat: index
error: requested indices = 1, 1
bedpostx.e329.8:Logic error:- detected by Newmat:
incompatible dimensions
bedpostx.e329.9:Logic error:- detected by Newmat:
incompatible dimensions
Subject 2:
bedpostx.e299.14:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.15:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.16:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.17:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.18:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.22:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.23:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.24:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.25:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.26:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.29:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.30:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.31:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.32:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.33:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.34:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.35:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.36:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.37:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.38:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.39:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.40:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.41:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.42:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.43:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.44:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.45:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.46:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.47:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.48:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.49:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.50:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.51:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.52:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.53:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.54:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.55:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.56:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.57:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.58:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.59:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.60:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.61:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.62:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.63:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.64:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.65:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.66:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.67:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.68:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.69:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.70:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.71:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.72:Logic error:- detected by Newmat: index
error: requested index = 1
bedpostx.e299.8:Logic error:- detected by Newmat: index
error: requested index = 1
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