def __init__(self, threshs=None, chest_regions=None, chest_types=None, pairs=None):
if chest_regions is not None:
if len(chest_regions.shape) != 1:
raise ValueError("chest_regions must be a 1D array with elements in [0, 255]")
if np.max(chest_regions) > 255 or np.min(chest_regions) < 0:
raise ValueError("chest_regions must be a 1D array with elements in [0, 255]")
if chest_types is not None:
if len(chest_types.shape) != 1:
raise ValueError("chest_types must be a 1D array with elements in [0, 255]")
if np.max(chest_types) > 255 or np.min(chest_types) < 0:
raise ValueError("chest_types must be a 1D array with elements in [0, 255]")
if pairs is not None:
if len(pairs.shape) != 2:
raise ValueError("cpairs must be a 1D array with elements in [0, 255]")
if np.max(chest_types) > 255 or np.min(chest_types) < 0:
raise ValueError("chest_types must be a 1D array with elements in [0, 255]")
self.chest_regions_ = chest_regions
self.chest_types_ = chest_types
self.pairs_ = pairs
self.threshs_ = None
if threshs is None:
self.threshs_ = np.array([-950, -910, -856], dtype=int)
else:
self.threshs_ = threshs
Phenotypes.__init__(self)
def __init__(self, chest_regions=None, chest_types=None, pairs=None,
pheno_names=None):
c = ChestConventions()
self.chest_regions_ = None
if chest_regions is not None:
tmp = []
for m in xrange(0, len(chest_regions)):
tmp.append(c.GetChestRegionValueFromName(chest_regions[m]))
self.chest_regions_ = np.array(tmp)
self.chest_types_ = None
if chest_types is not None:
tmp = []
for m in xrange(0, len(chest_types)):
tmp.append(c.GetChestTypeValueFromName(chest_types[m]))
self.chest_types_ = np.array(tmp)
self.pairs_ = None
if pairs is not None:
self.pairs_ = np.zeros([len(pairs), 2])
inc = 0
for p in pairs:
assert len(p)%2 == 0, \
"Specified region-type pairs not understood"
r = c.GetChestRegionValueFromName(p[0])
t = c.GetChestTypeValueFromName(p[1])
self.pairs_[inc, 0] = r
self.pairs_[inc, 1] = t
inc += 1
self.requested_pheno_names = pheno_names
Phenotypes.__init__(self)
def __init__(self,
chest_regions=None,
chest_types=None,
pairs=None,
pheno_names=None):
#rola changed len(chest_regions.shape) to len(shape(chest_regions))
if chest_regions is not None:
if len(chest_regions.shape) != 1:
raise ValueError(\
'chest_regions must be a 1D array with elements in [0, 255]')
if np.max(chest_regions) > 255 or np.min(chest_regions) < 0:
raise ValueError(\
'chest_regions must be a 1D array with elements in [0, 255]')
if chest_types is not None:
chest_types = map(int, chest_types) #rola
print(type(chest_types))
if len(np.shape(chest_types)) != 1:
raise ValueError(\
'chest_types must be a 1D array with elements in [0, 255]')
if np.max(np.array(chest_types)) > 255 or np.min(
np.array(chest_types)) < 0:
raise ValueError(\
'chest_types must be a 1D array with elements in [0, 255]')
if pairs is not None:
if len(pairs.shape) != 2:
raise ValueError(\
'cpairs must be a 1D array with elements in [0, 255]')
if np.max(chest_types) > 255 or np.min(chest_types) < 0:
raise ValueError(\
'chest_types must be a 1D array with elements in [0, 255]')
self.chest_regions_ = chest_regions
self.chest_types_ = chest_types
self.pairs_ = pairs
self.requested_pheno_names = pheno_names
Phenotypes.__init__(self)
def __init__(self,
threshs=None,
chest_regions=None,
chest_types=None,
pairs=None):
if chest_regions is not None:
if len(chest_regions.shape) != 1:
raise ValueError(\
'chest_regions must be a 1D array with elements in [0, 255]')
if np.max(chest_regions) > 255 or np.min(chest_regions) < 0:
raise ValueError(\
'chest_regions must be a 1D array with elements in [0, 255]')
if chest_types is not None:
if len(chest_types.shape) != 1:
raise ValueError(\
'chest_types must be a 1D array with elements in [0, 255]')
if np.max(chest_types) > 255 or np.min(chest_types) < 0:
raise ValueError(\
'chest_types must be a 1D array with elements in [0, 255]')
if pairs is not None:
if len(pairs.shape) != 2:
raise ValueError(\
'cpairs must be a 1D array with elements in [0, 255]')
if np.max(chest_types) > 255 or np.min(chest_types) < 0:
raise ValueError(\
'chest_types must be a 1D array with elements in [0, 255]')
self.chest_regions_ = chest_regions
self.chest_types_ = chest_types
self.pairs_ = pairs
self.threshs_ = None
if threshs is None:
self.threshs_ = np.array([-950, -910, -856], dtype=int)
else:
self.threshs_ = threshs
Phenotypes.__init__(self)
def __init__(self, chest_regions=None, chest_types=None, pairs=None,
pheno_names=None):
if chest_regions is not None:
if len(np.shape(chest_regions)) != 1:
raise ValueError(\
'chest_regions must be a 1D array with elements in [0, 255]')
print(chest_regions)
print(type(chest_regions))
print(np.max(chest_regions))
print(np.min(chest_regions))
if np.max(chest_regions) > 255 or np.min(chest_regions) < 0:
raise ValueError(\
'chest_regions must be a 1D array with elements in [0, 255]')
if chest_types is not None:
print(chest_types)
print(type(chest_types))
if len(np.shape(chest_types)) != 1:
raise ValueError(\
'chest_types must be a 1D array with elements in [0, 255]')
if np.max(chest_types) > 255 or np.min(chest_types) < 0:
raise ValueError(\
'chest_types must be a 1D array with elements in [0, 255]')
if pairs is not None:
if len(np.shape(pairs)) != 2:
raise ValueError(\
'cpairs must be a 1D array with elements in [0, 255]')
if np.max(pairs) > 255 or np.min(pairs) < 0:
raise ValueError(\
'chest_types must be a 1D array with elements in [0, 255]')
self.chest_regions_ = chest_regions
self.chest_types_ = chest_types
self.pairs_ = pairs
self.requested_pheno_names = pheno_names
Phenotypes.__init__(self)
