def script_init(sbj_id, day, disconnect_file):
#Colors
green = (0,200,0)
labels, ratios, fig, pixel_points = rc.main(sbj_id, day)
all_markers = {}
start_time, end_time, start, end = get_disconnected_times(disconnect_file)
for i in xrange(len(labels)):
marker_cur = Marker(labels[i], ratios[i], pixel_points[i], start_time + timedelta(seconds=i))
if int(pixel_points[i][0]) not in all_markers:
all_markers[int(pixel_points[i][0])] = {}
if int(pixel_points[i][1]) not in all_markers[int(pixel_points[i][0])]:
all_markers[int(pixel_points[i][0])][int(pixel_points[i][1])] = []
all_markers[int(pixel_points[i][0])][int(pixel_points[i][1])].append(marker_cur)
canvas = agg.FigureCanvasAgg(fig)
canvas.draw()
renderer = canvas.get_renderer()
raw_data = renderer.tostring_rgb()
window = pygame.display.set_mode((1280, 480), pygame.locals.DOUBLEBUF)
screen = pygame.display.get_surface()
size = canvas.get_width_height()
surf = pygame.image.fromstring(raw_data, size, "RGB")
screen.blit(surf, (0,0))
pygame.draw.rect(screen, green,(0,0,80,40))
TextSurf, TextRect = text_objects("Restart", pygame.font.Font('freesansbold.ttf',20))
TextRect.center = ((40),(20))
screen.blit(TextSurf, TextRect)
pygame.display.flip()
return all_markers, screen
def script_init(sbj_id, day, disconnect_file):
#Colors
green = (0,200,0)
labels, ratios, fig, pixel_points = rc.main(sbj_id, day)
all_markers = {}
start_time, end_time, start, end = get_disconnected_times(disconnect_file)
for i in xrange(len(labels)):
marker_cur = Marker(labels[i], ratios[i], pixel_points[i], start_time + timedelta(seconds=i))
if int(pixel_points[i][0]) not in all_markers:
all_markers[int(pixel_points[i][0])] = {}
if int(pixel_points[i][1]) not in all_markers[int(pixel_points[i][0])]:
all_markers[int(pixel_points[i][0])][int(pixel_points[i][1])] = []
all_markers[int(pixel_points[i][0])][int(pixel_points[i][1])].append(marker_cur)
canvas = agg.FigureCanvasAgg(fig)
canvas.draw()
renderer = canvas.get_renderer()
raw_data = renderer.tostring_rgb()
window = pygame.display.set_mode((1280, 480), pygame.locals.DOUBLEBUF)
screen = pygame.display.get_surface()
size = canvas.get_width_height()
surf = pygame.image.fromstring(raw_data, size, "RGB")
screen.blit(surf, (0,0))
pygame.draw.rect(screen, green,(0,0,80,40))
TextSurf, TextRect = text_objects("Restart", pygame.font.Font('freesansbold.ttf',20))
TextRect.center = ((40),(20))
screen.blit(TextSurf, TextRect)
pygame.display.flip()
return all_markers, screen
def display_image(selected, video_loc, vid_start_end, disconnect_file):
start_time, end_time, start, end = get_disconnected_times(disconnect_file)
video_starts = pickle.load(open("%s\%s_%i.p" % (vid_start_end, sbj_id, day), "rb"))
if not disconnected(start, end, selected.time):
vid_counter = len(video_starts)
for i, video_start in enumerate(video_starts["start"]):
if selected.time<=video_start:
vid_counter=i-1
break
vid_time = (selected.time-video_starts["start"][vid_counter]).seconds
subprocess.call("ffmpeg -ss %i -i %s/%s_%i_%04i.avi -t 1 -f image2 -update 1 tmp.png" % (vid_time, video_loc, sbj_id, day, vid_counter), shell=True)
#window = pygame.display.set_mode((1400, 600), pygame.locals.DOUBLEBUF)
screen = pygame.display.get_surface()
try:
surf = pygame.image.load("tmp.png")
os.remove("tmp.png")
screen.blit(surf, (640,0))
pygame.display.update()
except:
print "image not found"
def display_image(selected, video_loc, vid_start_end, disconnect_file):
start_time, end_time, start, end = get_disconnected_times(disconnect_file)
video_starts = pickle.load(open("%s\%s_%i.p" % (vid_start_end, sbj_id, day), "rb"))
if not disconnected(start, end, selected.time):
vid_counter = len(video_starts)
for i, video_start in enumerate(video_starts["start"]):
if selected.time<=video_start:
vid_counter=i-1
break
vid_time = (selected.time-video_starts["start"][vid_counter]).seconds
subprocess.call("ffmpeg -ss %i -i %s/%s_%i_%04i.avi -t 1 -f image2 -update 1 tmp.png" % (vid_time, video_loc, sbj_id, day, vid_counter), shell=True)
#window = pygame.display.set_mode((1400, 600), pygame.locals.DOUBLEBUF)
screen = pygame.display.get_surface()
try:
surf = pygame.image.load("tmp.png")
os.remove("tmp.png")
screen.blit(surf, (640,0))
pygame.display.update()
except:
print "image not found"
def main():
root_folder = "D:\\NancyStudyData\\ecog\\raw\\"
sbj_ids = ['a86a4375', 'be66b17c', 'cb46fd46', 'da3971ee', 'fcb01f7a']
days = ['3','4','5','6','7','8','9','10']
sbj_ids = ['a86a4375']
days = ['2']
save_folder = "C:\\Users\\wangnxr\\Documents\\rao_lab\\video_analysis\\vid_real_time\\"
for sbj_id in sbj_ids:
for day in days:
result = []
start_time, end_time, start, end = get_disconnected_times("C:\\Users\\wangnxr\\Documents" + \
"\\rao_lab\\video_analysis\\disconnect_times\\" \
+ sbj_id + "_" + str(day) + ".txt")
vid_count = 0
cur_time = start_time
vid_name = root_folder + sbj_id + "\\" + sbj_id + "_" + day + \
"\\" + sbj_id + "_" + day + "_" + str(vid_count).zfill(4) + ".avi"
with open(save_folder + sbj_id + "_" + day + ".csv", "wb") as csvfile:
timewriter = csv.writer(csvfile)
while os.path.exists(vid_name):
pos = check_disconnect(cur_time, timedelta(seconds = 1), start)
for t in pos:
cur_time += end[t] - start[t] - timedelta(seconds = 0.5)
timewriter.writerow([str(vid_count), cur_time.year, cur_time.month,
cur_time.day, cur_time.hour, cur_time.minute, cur_time.second])
result.append([vid_count, cur_time])
vid_len = timedelta(seconds = get_len(root_folder + sbj_id + "\\" + sbj_id + "_" + day +
"\\" + sbj_id + "_" + day + "_" + str(vid_count).zfill(4) + ".avi"))
pos = check_disconnect(cur_time, vid_len, start)
cur_time += vid_len
for t in pos:
cur_time += end[t] - start[t] - timedelta(seconds = 0.5)
vid_count += 1
vid_name = root_folder + sbj_id + "\\" + sbj_id + "_" + day + \
"\\" + sbj_id + "_" + day + "_" + str(vid_count).zfill(4) + ".avi"
pickle.dump(result, open(save_folder + sbj_id + "_" + day + ".p", "wb"))
import gc
sbj_id = "d6532718"
conversion_file = "/home/nancy/Documents/data_release/%s.csv" % sbj_id
disconnect_times_dir = "/home/nancy/Documents/disconnect_times/"
orig_edf_dir = "/data/decrypted_edf/%s/" % sbj_id
save_dir = "/space/nancy/data_by_day/"
def get_sample_len(time1, time2):
return max(0, int((time2-time1).total_seconds()*1000))
conversion = pandas.read_csv(conversion_file)
for d in range(conversion.shape[0]):
orig_files = ["%s/%s.edf" % (orig_edf_dir, orig_file) for orig_file in [conversion["file1"][d],conversion["file2"][d],conversion["file3"][d]] if not isinstance(orig_file, float)]
start_end_times = [get_disconnected_times("%s/%s.txt" % (disconnect_times_dir, orig_file))[:2]
for orig_file in [conversion["file1"][d],conversion["file2"][d],conversion["file3"][d]] if not isinstance(orig_file, float)]
final_start_time = datetime.strptime("01-%02i-1000 " % conversion["day"][d] + conversion["start_time"][d], '%m-%d-%Y %H:%M:%S:%f')
final_end_time = datetime.strptime("01-%02i-1000 " % conversion["day"][d] + conversion["end_time"][d], '%m-%d-%Y %H:%M:%S:%f')
final_start_time_orig = datetime.strptime(conversion["date"][d] + " " + conversion["start_time"][d], '%m/%d/%Y %H:%M:%S:%f')
final_end_time_orig = datetime.strptime(conversion["date"][d] + " " + conversion["end_time"][d], '%m/%d/%Y %H:%M:%S:%f')
# Set up final edf file
edf_files = [pyedflib.EdfReader(file) for file in orig_files]
n_channels = edf_files[0].getSignalLabels().index('ECGR')
edf_out = pyedflib.EdfWriter("%s/%s_day_%i.edf" % (save_dir, sbj_id, conversion["day"][d]), n_channels)
# De-identify date of patient stay and update start time
edf_out.setHeader(edf_files[0].getHeader())