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fix monitor bug #336

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merged 2 commits into from
Oct 15, 2024
Merged

fix monitor bug #336

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f7399c0
allow user to select the filter
Oct 15, 2024
9b0669b
bugfix
Oct 15, 2024
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2 changes: 1 addition & 1 deletion ImageD11/sinograms/dataset.py
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Original file line number Diff line number Diff line change
Expand Up @@ -523,7 +523,7 @@ def get_monitor(self, name="fpico6"):
lo, hi = [int(v) for v in slc[1:-1].split(":")]
mon = hin[snum]["measurement"][name][lo:hi]
else:
mon = hin[snum]["measurement"][name][:]
mon = hin[scan]["measurement"][name][:]
monitor.append(mon)
self.monitor = np.concatenate(monitor).reshape(self.shape)
return self.monitor
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11 changes: 8 additions & 3 deletions ImageD11/sinograms/roi_iradon.py
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Expand Up @@ -526,8 +526,13 @@ def correct_recon_central_zingers(recon, radius=25):


def run_iradon(sino, angles, pad=20, shift=0,
workers=1, mask=None,
apply_halfmask=False, mask_central_zingers=False, central_mask_radius=25):
workers=1,
mask=None,
apply_halfmask=False,
mask_central_zingers=False,
central_mask_radius=25,
filter_name='hamming',
):
"""Applies an iradon to a sinogram, with an optional pad
Calculates scaled-up output size from pad value
Applies projection shifts of shift
Expand All @@ -550,7 +555,7 @@ def run_iradon(sino, angles, pad=20, shift=0,
mask=mask,
output_size=outsize,
projection_shifts=np.full(sino.shape, shift),
filter_name='hamming',
filter_name=filter_name,
interpolation='linear',
workers=workers)

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5 changes: 4 additions & 1 deletion ImageD11/sinograms/sinogram.py
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Original file line number Diff line number Diff line change
Expand Up @@ -252,7 +252,10 @@ def recon(self,

iradon -> ImageD11.sinograms.roi_iradon.run_iradon
{ pad=20, shift=0, workers=1, mask=None,
apply_halfmask=False, mask_central_zingers=False, central_mask_radius=25 }
apply_halfmask=False,
mask_central_zingers=False,
central_mask_radius=25,
filter_name='hamming'}
mlem : ImageD11.sinograms.roi_iradon.run_mlem
{ mask=None, pad=20, shift=0, workers=1, niter=20, apply_halfmask=False,
mask_central_zingers=False, central_mask_radius=25 }
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