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Proc_CWA_data.m
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Proc_CWA_data.m
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%% Proc CWA data
addpath('E:\MOST-Renewal-II\AX3');
% data directories
matdir = 'E:\MOST-Renewal-II\AX3\AX3_MAT_Data\';
figdir = 'E:\MOST-Renewal-II\AX3\AX3_FIG_Data\';
pngdir = 'E:\MOST-Renewal-II\AX3\AX3_PNG_Data\';
dv = datevec(now);
yyyy = num2str(dv(1));
mm = zerofillstr(dv(2),2);
chkdir = matdir;
destdir_mat = horzcat(matdir,yyyy,mm,'01\');
destdir_fig = horzcat(figdir,yyyy,mm,'01\');
destdir_png = horzcat(pngdir,yyyy,mm,'01\');
if(~exist(destdir_mat)); mkdir(destdir_mat); end;
if(~exist(destdir_fig)); mkdir(destdir_fig); end;
if(~exist(destdir_png)); mkdir(destdir_png); end;
% get list of existing data files
[~,~,chk_list] = foldertroll(chkdir,'.mat');
% get list of .cwa files
[~,~,cwa_list1] = foldertroll('Z:\Clinics\UAB\Axivity-AX3','.cwa');
[~,~,cwa_list2] = foldertroll('Z:\Clinics\UIowa\Axivity-AX3','.cwa');
cwa_list3 = [[cwa_list1, repcell([size(cwa_list1,1),1],'SITE01')];...
[cwa_list2, repcell([size(cwa_list2,1),1],'SITE02')] ];
% loop through .cwa files and process new files
nlist = size(cwa_list3,1);
stopper = 0;
hw = waitbar(0,'0');
pause(0.25);
for ix=1:nlist
waitbar((ix/nlist),hw,num2str(ix));
try
% filename parts
tmpf = cwa_list3{ix,1};
tmpp = cwa_list3{ix,2};
tmpn = cwa_list3{ix,3};
tmps = cwa_list3{ix,4};
[~,tmp_dt,~] = fileparts(tmpp(1:end-1));
[~,tmpn_rt,~] = fileparts(tmpn);
% filename
chk_name = horzcat(tmps,'_',tmp_dt,'_',tmpn_rt,'\.mat');
% filepaths for saving
sv_mat = horzcat(destdir_mat,tmps,'_',tmp_dt,'_',tmpn_rt,'.mat');
sv_fig = horzcat(destdir_fig,tmps,'_',tmp_dt,'_',tmpn_rt,'.fig');
sv_png = horzcat(destdir_png,tmps,'_',tmp_dt,'_',tmpn_rt,'.png');
% check if data file already exists, continue if not
if(isempty(indcfind(chk_list(:,3),chk_name,'regexpi')))
% check if counter is too high, if so, stop and continue next time
if(stopper<=125)
stopper = stopper+1;
disp({ix, tmp_dt, tmpn});
tic;
% process and save data
[data,metadata]=AX3_quickdata(tmpf);
save(sv_mat,'data','metadata');
pause(0.25);
[wtv]=AX3_weartime(data,5,6);
save(sv_mat,'wtv','-append');
pause(0.25);
[udw]=AX3_upsidedown(data,wtv);
save(sv_mat,'udw','-append');
pause(0.25);
[wtv_instance]=AX3_WearInstances(wtv);
[udw_instance]=AX3_UDWInstances(udw);
[slprise4,blocks4]=AX3_SleepRise_4hr(wtv_instance,wtv);
[slprise2,blocks2]=AX3_SleepRise_2hr(wtv_instance,wtv);
[day_summary]=AX3_DaySummary(wtv,wtv_instance,udw_instance,slprise2,blocks2);
save(sv_mat,'wtv_instance','udw_instance','slprise4','blocks4','slprise2','blocks2','day_summary','-append');
pause(0.25);
% create and save figures/PNGs
hf = AX3_review_matlab(tmpf,data,wtv,udw,wtv_instance,udw_instance,slprise2,blocks2);
print(hf,sv_png,'-dpng');
savefig(hf,sv_fig);
close(hf);
pause(0.25);
clear data wtv udw wtv_instance udw_instance slprise4 blocks4 slprise2 blocks2 day_summary hf;
toc
end
end
catch ax3_err
disp(ax3_err.message);
end
pause(0.25);
end
close(hw);
%% Proc database file
% master mdb database file
master_mdbf = 'E:\MOST-Renewal-II\AX3\AX3_Database\AX3_UCSF_Master.accdb';
% savename for new copy
ds = datestr(now,'yyyymmdd');
copy_mdbf = horzcat('E:\MOST-Renewal-II\AX3\AX3_Database\AX3_UCSF_Master_',ds,'.accdb');
% get existing master mdbf data
[x_summary,f_summary] = MDBquery(master_mdbf,'SELECT * FROM tblAX3_Summary');
col_filename = indcfind(f_summary,'^Filename$','regexpi');
col_filedate = indcfind(f_summary,'^Filedate$','regexpi');
col_clinic = indcfind(f_summary,'^Clinic$','regexpi');
% get list of newly processed data and loop through each file
[~,~,file_list] = foldertroll(destdir_mat,'.mat');
for ix=1:size(file_list,1)
file_in = file_list{ix,1};
% check data file against existing mdbf data
[fp,fn,fe] = fileparts(file_in);
fn_parse = textscan(fn,'%s','Delimiter','_');
fn_parse = fn_parse{1};
tmp_site = fn_parse{1};
tmp_date = datestr(datenum(fn_parse{2},'yyyymmdd'),29);
tmp_cwaf = horzcat(fn_parse{3},'_',fn_parse{4},'\.cwa');
if(~isempty(tmp_site) && ~isempty(tmp_date) && ~isempty(tmp_cwaf))
jx1 = indcfind(x_summary(:,col_filename),tmp_cwaf,'regexpi');
jx2 = indcfind(x_summary(:,col_filedate),tmp_date,'regexpi');
jx3 = indcfind(x_summary(:,col_clinic),tmp_site,'regexpi');
jx4 = intersect(jx1,intersect(jx2,jx3));
% continue if file not already in mdbf database
if(isempty(jx4))
try
disp({ix, tmp_site, tmp_date, tmp_cwaf});
AX3_Upload_to_MDB(master_mdbf, file_in);
catch
disp(horzcat('Error with uploading, deleting file: ',fn));
delete(file_in);
end
end
end
end
pause(0.25);
% make a snapshot copy of the master mdbf
copyfile(master_mdbf, copy_mdbf, 'f');
pause(0.25);
exit;