diff --git a/aa_engine/aa_doprocessing_onetask.m b/aa_engine/aa_doprocessing_onetask.m
index 8831ba70f..33ca5adc9 100644
--- a/aa_engine/aa_doprocessing_onetask.m
+++ b/aa_engine/aa_doprocessing_onetask.m
@@ -152,6 +152,20 @@
                         catch
                             aas_log(aap,true,sprintf('Could not find module in remote aap file with stage tag %s',inp.sourcestagename));
                         end
+                        indexMap = aas_mapindices_betweenAAPs(aap,sourceaap); % Map remote and local aap indices
+                        backup_deps = deps; % Take a backup of current dependencies for us to use after correct mapping.
+                        for d = 1:numel(deps)
+                           if strcmp(deps{d}{1},'subject')
+                                subj_id = deps{d}{2};
+                                deps{d}{2} = indexMap.subject(subj_id); % find the correct subj index
+                           end
+                           if strcmp(deps{d}{1},'session')
+                                subj_id = deps{d}{2}(1);
+                                session_id = deps{d}{2}(2);
+                                deps{d}{2}(1) = indexMap.subject(subj_id); % find the correct subj index
+                                deps{d}{2}(2) = indexMap.session(session_id); % find the correct session index
+                           end
+                        end
                     end
                     for d = 1:numel(deps)
                         if ~strcmp(deps{d}{1},inp.sourcedomain) ||... % only relevant modules
@@ -170,6 +184,11 @@
                         return
                     end
 
+                    if exist('backup_deps','var') % Do we have a backup of the remote mapped dependency array?
+                        deps = backup_deps; % Use the remote mapped dependency array if it exists
+                        clear backup_deps % clear them after use
+                    end
+
                     [gotinputs, streamfiles{inpind}]=aas_retrieve_inputs_part1(aap,inp,allinputs,deps);
                     if isempty(setdiff(gotinputs,allinputs)) && inp.isessential % no new inputs found
                         aas_log(aap,true,sprintf('No inputs obtained for stream %s!\n\tModule %s might not have created it.',inp.name,inp.sourcestagename));
diff --git a/external/XML_IO_Tools/xml_write.m b/external/XML_IO_Tools/xml_write.m
index 2d7aa5e28..b6d205e5b 100644
--- a/external/XML_IO_Tools/xml_write.m
+++ b/external/XML_IO_Tools/xml_write.m
@@ -86,7 +86,7 @@
 
 %% Check Matlab Version
 v = ver('MATLAB');
-v = str2double(regexp(v.Version, '\d.\d','match','once'));
+v = str2double(regexp(v.Version, '\d+.\d+','match','once'));
 if (v<7)
   error('Your MATLAB version is too old. You need version 7.0 or newer.');
 end