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Bug 1162 - Previous structure not saved
| Status | CLOSED FIXED |
| Reported | 2011-11-17 09:03:00 +0100 |
| Modified | 2014-03-13 10:26:50 +0100 |
| Product: | FieldTrip |
| Component: | core |
| Version: | unspecified |
| Hardware: | PC |
| Operating System: | Windows |
| Importance: | P3 major |
| Assigned to: | Jan-Mathijs Schoffelen |
| URL: | |
| Tags: | |
| Depends on: | |
| Blocks: | |
| See also: |
Mark - 2011-11-17 09:03:16 +0100
In the recent fieldtrip versions the 'previous' structure is not saved when calling ft_timelockgrandaverage, with the option cfg.keepindividual='yes'. I think something is wrong in the section below: % do the general cleanup and bookkeeping at the end of the function ft_postamble trackconfig ft_postamble callinfo ft_postamble previous varargin ft_postamble history grandavg ft_postamble savevar grandavg Best, Mark Noordenbos
Boris Reuderink - 2011-11-17 10:46:32 +0100
Changed the status of bugs without a specific owner to UNCONFIRMED. I'll try to replicate these bugs (potentially involving the submitter), and change confirmed bugs to NEW. Boris
Boris Reuderink - 2011-11-17 10:55:04 +0100
Dear Mark, Could you also in this case provide a test script? Best, Boris
Mark - 2011-11-17 11:27:46 +0100
(In reply to comment #2) Dear Boris, If I just call the function ft_timelockgrandaverage with cfg.keepindividuals='yes' The following Data struct is returned: Data = label: {30x1 cell} time: [1x400 double] individual: [19x30x400 double] dimord: 'subj_chan_time' cfg: [1x1 struct] With Data.cfg ans = keepindividual: 'yes' trackconfig: 'off' checkconfig: 'loose' checksize: 100000 channel: {30x1 cell} latency: [-0.2000 0.5980] normalizevar: 'N-1' callinfo: [1x1 struct] version: [1x1 struct] previous: [] As you can see the Data.cfg.previous is empty Best, Mark
Robert Oostenveld - 2011-11-17 13:58:59 +0100
The problem can be confirmed with the following example code, that I added to the test repository as test_bug1162.m timelock1 = []; timelock1.label = {'1' '2'}; timelock1.time = 1:5; timelock1.dimord = 'rpt_chan_time'; timelock1.avg = randn(2,5); timelock1.cfg = 'this is number 1'; timelock2 = []; timelock2.label = {'1' '2'}; timelock2.time = 1:5; timelock2.dimord = 'rpt_chan_time'; timelock2.avg = randn(2,5); timelock2.cfg = 'this is number 2'; cfg = []; grandavg = ft_timelockgrandaverage(cfg, timelock1, timelock2); % grandavg.cfg.previous{1} should be 'this is number 1' % grandavg.cfg.previous{2} should be 'this is number 1' disp(grandavg.cfg.previous); assert(iscell(grandavg.cfg.previous)); assert(~isempty(grandavg.cfg.previous)); assert(~isempty(grandavg.cfg.previous{1})); assert(~isempty(grandavg.cfg.previous{2}));
Boris Reuderink - 2011-11-18 14:58:56 +0100
Robert confirmed this bug, changing status to NEW.
Jan-Mathijs Schoffelen - 2011-11-23 15:38:22 +0100
OK, this is the problem: ft_postamble_previous evaluates for the strings (pointing to variables in the caller function) whether they have a cfg-field, and then stores it in cfg.previous{tmpindx}. In the case of the string being 'varargin' the 'eval(ft_default.postamble{tmpindx});' (ft_default.postamble{tmpindx} being 'varargin') yields a cell-array, rather than the expected structure. I suggest to make ft_postamble_previous a bit smarter to also deal with the cell array (which will typically occur if the call in the caller function is 'ft_postamble previous varargin' (as opposed to 'ft_postamble previous data1 data2'
Jan-Mathijs Schoffelen - 2011-11-23 15:44:23 +0100
fixed it the code now reads as follows (revision 4805): % FT_POSTAMBLE_PREVIOUS adds the cfg structure from the input data % structure(s) to the current configuration structure as cfg.previous % % Use as % ft_postamble previous inputvar % ft_postamble previous inputvar1 inputvar2 % ft_postamble previous varargin global ft_default % remember the cfg history of the input data structures cfg.previous = {}; cnt = 0; for tmpindx=1:length(ft_default.postamble) if exist(ft_default.postamble{tmpindx}, 'var') tmpvar = eval(ft_default.postamble{tmpindx}); else tmpvar = []; end if isa(tmpvar, 'struct') % the variable is a data structure cnt=cnt+1; if isfield(tmpvar, 'cfg') cfg.previous{cnt} = tmpvar.cfg; else cfg.previous{cnt} = []; end elseif isa(tmpvar, 'cell') % the variable is a cell-array (i.e. most likely a varargin) for cellindx=1:numel(tmpvar) cnt=cnt+1; if isfield(tmpvar{cellindx}, 'cfg') cfg.previous{cnt} = tmpvar{cellindx}.cfg; else cfg.previous{cnt} = []; end end end end clear tmpindx tmpvar cellindx cnt if length(cfg.previous)==1 % replace the cell-array by the single struct cfg.previous = cfg.previous{1}; end