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Dynamic mask #23

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Merged
meghdadyazdi merged 2 commits into from
Jan 12, 2026
Merged

Dynamic mask #23

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91f7796
add dinamic maks for integration
megyaz Jan 9, 2026
e08112f
fix "RuntimeWarning: invalid value encountered in sqrt" issue #11
megyaz Jan 9, 2026
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24 changes: 22 additions & 2 deletions azint/azint.py
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Original file line number Diff line number Diff line change
Expand Up @@ -247,7 +247,9 @@ def __init__(self,


def integrate(self,
img: np.ndarray) -> tuple[np.ndarray, np.ndarray]:
img: np.ndarray,
mask=None) -> tuple[np.ndarray, np.ndarray] \
| tuple[np.ndarray, np.ndarray, np.ndarray, np.ndarray]:
"""
Performs azimuthal integration on the input image.

Expand All @@ -257,6 +259,7 @@ def integrate(self,

Args:
img (ndarray): Input image to be integrated. Must match expected input size.
mask (ndarray or str, optional): Mask array or path to mask file. Pixels marked with 1 will be excluded from the integration.

Returns:
tuple:
Expand All @@ -272,6 +275,22 @@ def integrate(self,

if img.size != self.input_size:
raise RuntimeError('Size of image is wrong!\nExpected %d\nActual size %d' %(self.input_size, img.size))

if mask is not None:
if not isinstance(mask, np.ndarray):
if mask is not None:
if mask == '':
mask = None
else:
fname = mask
self.mask_path = fname
ending = os.path.splitext(fname)[1]
if ending == '.npy':
mask = np.load(fname)
else:
mask = fabio.open(fname).data
self.mask = mask

if self.mask is None:
norm = self.norm
else:
Expand All @@ -287,7 +306,8 @@ def integrate(self,
errors_2d = None
if self.error_model:
# poisson error model
errors = np.sqrt(self.sparse_matrix.spmv_corrected2(img)).reshape(self.output_shape)
sparse = np.clip(self.sparse_matrix.spmv_corrected2(img), a_min=0, a_max=None)
errors = np.sqrt(sparse).reshape(self.output_shape)
if self.normalized:
errors = np.divide(errors, norm, out=np.zeros_like(errors), where=norm!=0.0)

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