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Allow NSP reader to automatically choose Nyquist dwell times #154

Merged
merged 19 commits into from
Jul 5, 2024
Merged
13 changes: 9 additions & 4 deletions src/mrinufft/io/nsp.py
Original file line number Diff line number Diff line change
Expand Up @@ -255,7 +255,7 @@ def write_trajectory(

def read_trajectory(
grad_filename: str,
dwell_time: float = DEFAULT_RASTER_TIME,
dwell_time: float | str = DEFAULT_RASTER_TIME,
num_adc_samples: int = None,
gamma: Gammas | float = Gammas.HYDROGEN,
raster_time: float = DEFAULT_RASTER_TIME,
Expand All @@ -268,8 +268,11 @@ def read_trajectory(
----------
grad_filename : str
Gradient filename.
dwell_time : float, optional
dwell_time : float | str, optional
Dwell time of ADC in ms, by default 0.01
It can also be string 'min_osf' to select dwell time
based on minimum OSF needed to get Nyquist sampling
(This is obtained from SPARKLING trajectory header).
num_adc_samples : int, optional
Number of ADC samples, by default None
gamma : float, optional
Expand All @@ -288,8 +291,6 @@ def read_trajectory(
kspace_loc : np.ndarray
K-space locations. Shape (num_shots, num_adc_samples, dimension).
"""
dwell_time_ns = dwell_time * 1e6
gradient_raster_time_ns = raster_time * 1e6
with open(grad_filename, "rb") as binfile:
data = np.fromfile(binfile, dtype=np.float32)
if float(data[0]) > 4:
Expand All @@ -304,6 +305,8 @@ def read_trajectory(
min_osf, data = _pop_elements(data, type="int")
gamma, data = _pop_elements(data)
gamma = gamma / 1000
if dwell_time == "min_osf":
dwell_time = raster_time / min_osf
(num_shots, num_samples_per_shot), data = _pop_elements(data, 2, type="int")
if num_adc_samples is None:
if read_shots:
Expand All @@ -323,6 +326,8 @@ def read_trajectory(
_, data = _pop_elements(data, left_over)
initial_positions, data = _pop_elements(data, dimension * num_shots)
initial_positions = np.reshape(initial_positions, (num_shots, dimension))
dwell_time_ns = dwell_time * 1e6
gradient_raster_time_ns = raster_time * 1e6
if version < 4.1:
grad_max, data = _pop_elements(data)
gradients, data = _pop_elements(
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