Merge branch '_TMP_RELEASE_BRANCH_' into niak-cog

Author: poquirion

commands/misc/niak_gb_vars.m

@@ -143,7 +143,7 @@
 %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
 
 %% NIAK version
-GB_NIAK.version = 'v1.0.0';
+GB_NIAK.version = 'v1.0.1';
 
 %% Target for tests
 GB_NIAK.target_test = 'ah';

reports/connectome/niak_brick_report_connectome.m

@@ -10,7 +10,8 @@
 % IN.NETWORK    (string) a .mat file with the quantization data for the 
 %     network overlay.
 %
-% OUT (string) the name of the rmap.html report. 
+% OUT.RMAP (string) the name of the rmap.html report. 
+% OUT.NETWORK (string) the name of the javascript data for the networks.
 % 
 % OPT.LABEL_NETWORK (cell of strings) string labels for each network.
 % OPT.LABEL_SUBJECT (cell of strings) string labels for each network.
@@ -43,9 +44,8 @@
 
 %% Defaults
 in = psom_struct_defaults ( in , { 'individual' , 'average' , 'network'} , { 'gb_niak_omitted' , 'gb_niak_omitted' , 'gb_niak_omitted' });
-if ~ischar(out)
-    error('FILES_OUT should be a string')
-end
+out = psom_struct_defaults ( out , {  'rmap' , 'network' } , {  NaN , NaN });
+
 
 if nargin < 3
     opt = struct;
@@ -94,9 +94,23 @@
 str_rmap = strrep(str_rmap,'$SUBJECT',list_subject{1});
 
 %% Write report
-[hf,msg] = fopen(out,'w');
+[hf,msg] = fopen(out.rmap,'w');
 if hf == -1
     error(msg)
 end
 fprintf(hf,'%s',str_rmap);
-fclose(hf);
+fclose(hf);
+
+%% save a json/javascript list of networks
+text_network = sprintf('var listNetwork = [\n');
+for ss = 1:(length(list_network)-1)
+    text_network = [text_network sprintf('{id: %i, text: ''%s'' },\n',ss,list_network{ss})];
+end
+text_network = sprintf('%s{id: %i, text: ''%s'' }\n];\n',text_network,length(list_network),list_network{end});
+
+[hf,msg] = fopen(out.network,'w');
+if hf == -1
+    error(msg)
+end
+fprintf(hf,'%s',text_network);
+fclose(hf);

reports/connectome/niak_report_connectome.m

@@ -195,7 +195,8 @@
 jin.individual = ind_quantization;
 jin.average    = avg_quantization;
 jin.network    = net_quantization;
-jout = [opt.folder_out 'rmap.html'];
+jout.rmap = [opt.folder_out 'rmap.html'];
+jout.network = [opt.folder_out 'summary' filesep 'listNetwork.js'];
 jopt.label_network = list_seed;
 jopt.label_subject = list_subject;
 pipeline = psom_add_job(pipeline,'rmap_report','niak_brick_report_connectome',jin,jout,jopt);