# coding: utf-8
"""
Module to convert from (Bliss) .h5 to (Nexus Tomo-compliant) .nx format.
"""
[docs]class Tomo:
[docs] class H5:
"""HDF5 settings for tomography"""
VALID_CAMERA_NAMES = None
# Camera names are now deduced using the `get_nx_detectors` and
# `guess_nx_detector` functions. Alternatively, a list of detector
# names can be provided (supports Unix shell-style wildcards), such as:
# ("pcolinux*", "basler", "frelon*", ...)
ROT_ANGLE_KEYS = (
"rotm",
"mhsrot",
"hsrot",
"mrsrot",
"hrsrot",
"srot",
"srot_eh2",
"diffrz",
"hrrz_trig",
"rot",
)
"""Keys used to find rotation angles."""
TRANSLATION_Y_KEYS = ("yrot", "diffty", "hry")
"""Keys used to find the Y translation below the center of rotation."""
TRANSLATION_Z_KEYS = ("sz", "difftz", "hrz", "pz", "ntz", "samtz", "mrsz")
"""Keys used to find the Z translation below or above the center of rotation."""
SAMPLE_X_KEYS = ("samx", "psx", "sax", "fake_sx")
"""Keys used to find the X translation above the center of rotation (direction is independent of the rotation angle)."""
SAMPLE_Y_KEYS = ("samy", "psv", "say", "fake_sy")
"""Keys used to find the Y translation above the center of rotation (direction is independent of the rotation angle)."""
SAMPLE_U_KEYS = ("sau", "sx", "px", "ntx", "shtx", "hrx", "fake_su")
"""Keys used to find the U translation above the center of rotation (direction is dependent of the rotation angle)."""
SAMPLE_V_KEYS = ("sav", "sy", "py", "nty", "shty", "hry2", "fake_sv")
"""Keys used to find the V translation above the center of rotation (direction is dependent of the rotation angle)."""
DIODE_KEYS = ("fpico3",)
"""Keys used to store diode dataset."""
ACQ_EXPO_TIME_KEYS = ("acq_expo_time",)
"""Keys used to store acquisition exposure time."""
INIT_TITLES = (
"tomo:basic",
"tomo:fullturn",
"sequence_of_scans",
"tomo:halfturn",
"tomo:multiturn",
"tomo:helical",
"tomo:holotomo",
)
"""Initialization scan titles."""
ZSERIE_INIT_TITLES = ("tomo:zseries",)
"""Specific titles for z-series scans."""
PCOTOMO_INIT_TITLES = ("tomo:pcotomo", "pcotomo:")
"""Specific titles for PCOTomo scans."""
DARK_TITLES = ("dark images", "dark")
"""Titles for dark scans."""
FLAT_TITLES = ("flat", "reference images", "ref", "refend")
"""Titles for reference scans (flat field images)."""
PROJ_TITLES = ("projections", "ascan rot 0", "ascan diffrz 0 180 1600 0.1")
"""Titles for projection scans."""
ALIGNMENT_TITLES = ("static images", "ascan diffrz 180 0 4 0.1")
"""Titles for alignment scans."""
X_PIXEL_SIZE = (
"technique/optic/sample_pixel_size",
"technique/detector/pixel_size",
)
"""Possible paths to the pixel size along the x-axis."""
Y_PIXEL_SIZE = (
"technique/optic/sample_pixel_size",
"technique/detector/pixel_size",
)
"""Possible paths to the pixel size along the y-axis."""
SAMPLE_DETECTOR_DISTANCE_KEYS = ("technique/scan/sample_detector_distance",)
"""Keys used to store the sample to detector distance."""
SOURCE_SAMPLE_DISTANCE_KEYS = ("technique/scan/source_sample_distance",)
"""Keys used to store the source to sample distance."""
MACHINE_ELECTRIC_CURRENT_KEYS = ("current",)
"""Keys used to store machine electric current values."""
[docs] class EDF:
"""EDF settings for tomography"""
MOTOR_POS = ("motor_pos",)
"""Keys for motor positions."""
MOTOR_MNE = ("motor_mne",)
"""Keys for motor names (mnemonics)."""
ROT_ANGLE = ("srot", "somega")
"""Keys used to find the rotation angle."""
X_TRANS = ("sx",)
"""Keys used to find x translation in EDF format."""
Y_TRANS = ("sy",)
"""Keys used to find y translation in EDF format."""
Z_TRANS = ("sz",)
"""Keys used to find z translation in EDF format."""
MACHINE_ELECTRIC_CURRENT = ("srcur", "srcurrent")
"""Keys used to store machine electric current values."""
TO_IGNORE = ("_slice_",)
"""Fields to ignore when processing EDF files."""
DARK_NAMES = ("darkend", "dark")
"""Names identifying dark images in EDF files."""
REFS_NAMES = ("ref", "refHST")
"""Names identifying reference images in EDF files."""
