In [2]:
%matplotlib inline
In [3]:
import pylab as plt
import numpy as np
from PIL import Image
In [7]:
import glob
import os
In [10]:
def log_progress(sequence, every=None, size=None):
from ipywidgets import IntProgress, HTML, VBox
from IPython.display import display
is_iterator = False
if size is None:
try:
size = len(sequence)
except TypeError:
is_iterator = True
if size is not None:
if every is None:
if size <= 200:
every = 1
else:
every = size / 200 # every 0.5%
else:
assert every is not None, 'sequence is iterator, set every'
if is_iterator:
progress = IntProgress(min=0, max=1, value=1)
progress.bar_style = 'info'
else:
progress = IntProgress(min=0, max=size, value=0)
label = HTML()
box = VBox(children=[label, progress])
display(box)
index = 0
try:
for index, record in enumerate(sequence, 1):
if index == 1 or index % every == 0:
if is_iterator:
label.value = '{index} / ?'.format(index=index)
else:
progress.value = index
label.value = u'{index} / {size}'.format(
index=index,
size=size
)
yield record
except:
progress.bar_style = 'danger'
raise
else:
progress.bar_style = 'success'
progress.value = index
label.value = unicode(index or '?')
In [14]:
out_dir = '/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1_zero/'
in_dir = '/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/'
os.mkdir(out_dir)
in_images = glob.glob(os.path.join(in_dir,'*.tif'))
in_images
Out[14]:
['/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1786.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1616.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1036.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0089.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0379.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0587.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1297.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0782.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1890.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1878.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0493.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0563.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1561.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0124.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1250.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0843.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1509.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0139.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1970.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1159.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1408.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1643.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0976.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0831.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1905.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1502.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1237.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1353.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1913.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0829.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1997.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0661.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1586.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0432.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1360.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1196.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0280.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0533.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1520.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0728.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0242.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1078.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0221.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0265.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0406.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1156.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0688.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1558.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0376.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0546.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0332.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1190.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0147.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1860.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1351.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0468.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0172.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0065.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1595.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0178.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1051.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0011.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1234.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1189.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1365.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0743.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0434.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0499.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1233.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1007.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1797.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0853.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0932.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0373.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1349.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_2026.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1002.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0325.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0210.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1448.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0503.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0605.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1238.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1342.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0359.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1311.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1282.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1456.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0441.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_2016.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1260.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1735.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1231.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0137.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0541.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0063.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0140.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1802.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1099.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1892.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0861.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1283.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1740.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0978.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1941.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0888.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1274.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1483.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0904.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1901.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0484.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1205.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1194.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0104.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1978.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1186.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1815.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0467.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1418.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0753.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0067.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1357.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1280.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0410.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1471.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0492.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1422.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1147.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0348.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1645.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0991.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0075.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0249.tif',
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'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0975.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1521.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1017.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1162.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1031.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1436.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0914.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1756.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1198.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0845.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0070.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1676.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1478.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1620.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0822.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0969.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_2014.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0534.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1227.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1314.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0532.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0679.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_1716.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0711.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0423.tif',
'/home/makov/diskmnt/big/yaivan/test_data/Sand/RS_4_1/Chieftain_Unc_2.8_0634.tif',
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...]
In [27]:
for im in log_progress(in_images):
name = os.path.split(im)[-1]
# print(name)
imt=Image.open(im,'r')
data = plt.imread(im)
# print(data.dtype)
# # # plt.figure(figsize=(15,15))
# # # plt.imshow(data, interpolation='nearest', cmap=plt.cm.gray)
# # # plt.show()
for i in range(0,700):
data[:,100+i:100+i+1] = i
# data[:,1:10] = 30000
# data[:,-12:-2] = 30000
# # # plt.figure(figsize=(15,15))
# # # plt.imshow(data, interpolation='nearest', cmap=plt.cm.gray)
# # # plt.show()
new_im = Image.fromarray(data)
new_im.tag = imt.tag
new_im.save(os.path.join(out_dir, name))
In [ ]:
Image.f
Content source: buzmakov/tomography_scripts
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