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Bug 1725 - replace ft_prepare_atlas by ft_read_atlas

Reported 2012-09-19 22:48:00 +0200
Modified 2014-03-06 15:39:16 +0100
Product: FieldTrip
Component: fileio
Version: unspecified
Hardware: PC
Operating System: Mac OS
Importance: P3 normal
Assigned to: Jan-Mathijs Schoffelen
Depends on:
Blocks: 165220242083
See also:

Robert Oostenveld - 2012-09-19 22:48:05 +0200

see bug 1652. The idea is that either a template/individual segmentation or parcellation is read from disk and can be used by ft_volumelookup and related HCP functions.

Robert Oostenveld - 2012-09-19 23:46:16 +0200

ft_prepare_atlas is being called by ft_sourceplot and by ft_volumelookup furthermore, there are private/atlas_init.m private/atlas_lookup.m private/atlas_mask.m

Robert Oostenveld - 2012-10-03 17:59:40 +0200

Some improvements have been made. However, I just noticed ft_sourceplot failing because the input was a segmentartion, not a volume. I fixed it here, but probably a more general solution is needed since a segmentation is always a volume. manzana> svn commit ft_sourceplot.m Sending ft_sourceplot.m Transmitting file data . Committed revision 6658. I propose the following test script atlas= ft_read_atlas('TTatlas+tlrc.BRIK'); assert(ft_datatype(atlas, 'segmentation')); assert(ft_datatype(atlas, 'volume)); % this one now fails

Robert Oostenveld - 2012-10-03 21:38:22 +0200

(In reply to comment #2) I have changed ft_datatype such that it returns true when the user requests a desired type of - volume, and the input is segmentation - source, and the input is parcellation - raw, and the input is comp

Lilla Magyari - 2012-11-24 19:21:39 +0100

(In reply to comment #3) and also reference to ft_prepare_atlas should be replaced by ft_read_atlas in the following documentation: reference docu of ft_sourceplot, ft_volumelookup and in FAQ:[]=atlas Lilla

Robert Oostenveld - 2013-01-09 09:13:08 +0100

mac001> svn commit atlas/ Adding atlas Adding atlas/afni Adding (bin) atlas/afni/TTatlas+tlrc.BRIK Adding atlas/afni/TTatlas+tlrc.HEAD Transmitting file data .. Committed revision 7282. I also wrote

Jan-Mathijs Schoffelen - 2014-01-25 09:15:10 +0100

I think this has been largely done. I'll do a final check, and change status of this bug, if appropriate

Jan-Mathijs Schoffelen - 2014-01-29 15:40:38 +0100

As far as I can see, this one has been resolved. ft_prepare_atlas is not called anymore.