Here we report the meta data generated by tomography instruments installed at different synchrotron facilities.
At the Advanced Photon Source (APS) experimental meta-data are stored in the HDF file together with the raw data.
A meta-data reader is available at hdf reder
Meta-data are saved automatically for each scan by reading the beamline configuration (motor positions) of all beamline components, this includes lens, scintillator, energy, sample to detector distance, etc. Other parameters, like user and proposal information, are collected by automatically accessing the APS user proposal data base. Tomography scan parameters are automatically added by the tomoScan engine.
The full and up-to-date list of meta-data stored at the APS tomography beamlines is available at DXfile. A python script to extract as a text file the APS meta-data from the raw data HDF file is available at meta cli.
The APS meta-data also include all parameters required to complete a tomographic reconstruction including sample to detector distance, x-ray energy, pixel size, etc.; these parameters are extracted automatically and used by the beamline reconstruction software tomoPy and tomocuPy .
Additionally, when using tomopy cli, all reconstruction parameters like the center of rotation, the ring removal filter used as well as the version of the software used are stored in the HDF file. This guarantees full data collection and data analysis pipe-line repeatability.
The full and up-to-date list of meta-data stored at the APS beamline 2-BM is available at DXfile. A meta-data reader is available at hdf reder
| Meta data name | Value | Units |
| /measurement/instrument/attenuator/name | 2-BM-A user filters | |
| /measurement/instrument/attenuator/setup/down_stream | 0 | |
| /measurement/instrument/attenuator/setup/down_stream_list | 0:600um Al; 1: 50um Al; 2:300um C; 3:50um C; 4:None; 5:LowLimit | |
| /measurement/instrument/attenuator/setup/up_stream | 0 | |
| /measurement/instrument/attenuator/setup/up_stream_list | 0:1mm C; 1:150um Al; 2:600um Al; 3:1mm Al; 4:None; 5:LowLimit | |
| /measurement/instrument/attenuator_1/description | ||
| /measurement/instrument/attenuator_1/name | Manually added filters | |
| /measurement/instrument/detection_system/objective/magnification | 2.0 | |
| /measurement/instrument/detection_system/objective/resolution | 1.725 | μm |
| /measurement/instrument/detection_system/objective/tube_length | 1.0 | mm |
| /measurement/instrument/detection_system/scintillator/active_thickness | 50.0 | μm |
| /measurement/instrument/detection_system/scintillator/type | LuAG | |
| /measurement/instrument/detector/acquire_period | 0.030257840000000005 | s |
| /measurement/instrument/detector/adcore_version | 3.12.1 | |
| /measurement/instrument/detector/array_counter | 311623 | |
| /measurement/instrument/detector/array_size_x | 3464 | pixel |
| /measurement/instrument/detector/array_size_y | 2652 | pixel |
| /measurement/instrument/detector/binning_x | 1 | |
| /measurement/instrument/detector/binning_y | 1 | |
| /measurement/instrument/detector/convert_pixel_format | Mono16 | |
| /measurement/instrument/detector/data_type | UInt16 | |
| /measurement/instrument/detector/driver_version | 3.3.0 | |
| /measurement/instrument/detector/exposure_auto | 0 | |
| /measurement/instrument/detector/exposure_time | 0.100001 | s |
| /measurement/instrument/detector/firmware_version | 1904.0.72.0 | |
| /measurement/instrument/detector/frame_rate | 33.04928573883661 fps | |
| /measurement/instrument/detector/frame_rate_enable | No | |
| /measurement/instrument/detector/gain | 0.9998811256880493 | |
| /measurement/instrument/detector/gain_auto | 0 | |
| /measurement/instrument/detector/hdf_plugin_version | NDFileHDF5 ver1.10.1 | |
| /measurement/instrument/detector/manufacturer | FLIR | |
| /measurement/instrument/detector/max_size_x | 6464 | pixel |
| /measurement/instrument/detector/max_size_y | 4852 | pixel |
| /measurement/instrument/detector/model | Oryx ORX-10G-310S9M | |
| /measurement/instrument/detector/pixel_format | Mono16 | |
| /measurement/instrument/detector/pixel_size | 3.45 | μm |
| /measurement/instrument/detector/roi/min_x | 1496 | pixel |
| /measurement/instrument/detector/roi/min_y | 1000 | pixel |
| /measurement/instrument/detector/roi/size_x | 3464 | pixel |
| /measurement/instrument/detector/roi/size_y | 2652 | pixel |
| /measurement/instrument/detector/sdk_version | 2.4.0.143 | |
| /measurement/instrument/detector/serial_number | 22150530 | |
| /measurement/instrument/detector/temperature | 44.625 | °C |
| /measurement/instrument/detector_motor_stack/name | 2-BM-A detector motor stack | |
| /measurement/instrument/detector_motor_stack/setup/roll | 0.7300625 | ° |
| /measurement/instrument/detector_motor_stack/setup/z | 50.0 | mm |
| /measurement/instrument/mirror/name | 2-BM Mirror | |
| /measurement/instrument/mirror/setup/angle | 2.657051349174385 | mrad |
| /measurement/instrument/mirror/setup/dsy | 1.5195162 | mm |
| /measurement/instrument/mirror/setup/stripe | 1 | |
| /measurement/instrument/mirror/setup/stripe_legend | 0:Cr; 1:Pt | |
| /measurement/instrument/mirror/setup/usy | -1.119467199999999 | mm |
| /measurement/instrument/mirror/setup/x | -17.000225 | mm |
| /measurement/instrument/mirror/setup/y | 0.2000245000000005 | mm |
| /measurement/instrument/monochromator/energy | 25.51 | keV |
| /measurement/instrument/monochromator/mode | 0 | |
| /measurement/instrument/monochromator/mode_legend | 0:mono; 1:pink; 2:white | |
| /measurement/instrument/monochromator/name | 2-BM-A double multilayer monochromator | |
| /measurement/instrument/monochromator/setup/ds_arm | 1.1400979000000007 | ° |
| /measurement/instrument/monochromator/setup/m2_y | 12.350145000000001 | mm |
| /measurement/instrument/monochromator/setup/m2_z | 600.00011 | mm |
| /measurement/instrument/monochromator/setup/table_ds_y | -0.10046250000000256 | mm |
| /measurement/instrument/monochromator/setup/table_usy_ib | -0.10050000000000026 | mm |
| /measurement/instrument/monochromator/setup/table_usy_ob | -0.1004875000000034 | mm |
| /measurement/instrument/monochromator/setup/us_arm | 1.06515328101057 | ° |
| /measurement/instrument/name | Micro-tomography | |
| /measurement/instrument/sample_motor_stack/name | microCT sample stage stack | |
| /measurement/instrument/sample_motor_stack/setup/pitch | 0.0 | ° |
| /measurement/instrument/sample_motor_stack/setup/roll | -0.019999999999999907 | ° |
| /measurement/instrument/sample_motor_stack/setup/rotary | 180.012 | ° |
| /measurement/instrument/sample_motor_stack/setup/top/x | 1.01 | mm |
| /measurement/instrument/sample_motor_stack/setup/top/z | -1.200000482 | mm |
| /measurement/instrument/sample_motor_stack/setup/x | 6.927791673660977e-14 | mm |
| /measurement/instrument/sample_motor_stack/setup/y | 5.4999999999999964 | mm |
| /measurement/instrument/slits/downstream/horizontal/setup/center | -0.050000000000000044 | mm |
| /measurement/instrument/slits/downstream/horizontal/setup/size | 7.1 | mm |
| /measurement/instrument/slits/downstream/vertical/setup/center | 15.199999999999966 | mm |
| /measurement/instrument/slits/downstream/vertical/setup/size | 3.8000000000000007 | mm |
| /measurement/instrument/slits/name | 2-BM slits | |
| /measurement/instrument/slits/upstream/horizontal/setup/center | 0.2093999999999987 | mm |
| /measurement/instrument/slits/upstream/horizontal/setup/size | 14.0 | mm |
| /measurement/instrument/slits/upstream/vertical/setup/center | 0.15559999999999974 | mm |
| /measurement/instrument/slits/upstream/vertical/setup/size | 8.6584 | mm |
| /measurement/instrument/source/beamline | 2-BM | |
| /measurement/instrument/source/current | 102.05313028920399 | mA |
| /measurement/instrument/source/fill_mode | 0+24x1 | |
| /measurement/instrument/source/name | Advanced Photon Source | |
| /measurement/instrument/source/top_up | Enable | |
| /measurement/sample/description_1 | ||
| /measurement/sample/description_2 | ||
| /measurement/sample/description_3 | ||
| /measurement/sample/environment/eurotherm1/d | nan | |
| /measurement/sample/environment/eurotherm1/i | nan | |
| /measurement/sample/environment/eurotherm1/p | nan | |
| /measurement/sample/environment/eurotherm1/pid_mode | nan | |
| /measurement/sample/environment/eurotherm1/pid_update_rate | nan | s |
| /measurement/sample/environment/eurotherm1/ramp_rate | nan | °C/s |
| /measurement/sample/environment/eurotherm1/set_point | nan | °C |
| /measurement/sample/environment/eurotherm1/status | nan | |
| /measurement/sample/environment/eurotherm1/thermocouple | nan | °C |
| /measurement/sample/environment/eurotherm1/update_rate | nan | s |
| /measurement/sample/environment/eurotherm2/d | nan | |
| /measurement/sample/environment/eurotherm2/i | nan | |
| /measurement/sample/environment/eurotherm2/p | nan | |
| /measurement/sample/environment/eurotherm2/pid_mode | nan | |
| /measurement/sample/environment/eurotherm2/pid_update_rate | nan | s |
| /measurement/sample/environment/eurotherm2/ramp_rate | nan | °C/s |
| /measurement/sample/environment/eurotherm2/set_point | nan | °C |
| /measurement/sample/environment/eurotherm2/status | nan | |
| /measurement/sample/environment/eurotherm2/thermocouple | nan | °C |
| /measurement/sample/environment/eurotherm2/update_rate | nan | s |
| /measurement/sample/environment/load_cell/load_calc | 48.9485636115582 | N |
| /measurement/sample/environment/load_cell/load_raw | -0.0477383047 | V |
| /measurement/sample/experiment/proposal | 74328 | |
| /measurement/sample/experiment/safety_id | ||
| /measurement/sample/experiment/title | Studying the role of fluoride in the formation of early-stage caries | |
| /measurement/sample/experimenter/email | sarahboyer2025@u.northwestern.edu | |
| /measurement/sample/experimenter/institution | Northwesteversity | |
| /measurement/sample/experimenter/name | Boyer | |
| /measurement/sample/experimenter/user_id | 313356 | |
| /measurement/sample/file/full_name | /local/data/2023-02/Boyer/295_2RMAN_089.h5 | |
| /measurement/sample/file/name 295_2RMAN | ||
| /measurement/sample/file/path | /local/data/2023-02/Boyer/ | |
| /measurement/sample/name | ||
| /process/acquisition/dark_fields/mode | Start | |
| /process/acquisition/dark_fields/number | 20 | |
| /process/acquisition/dark_fields/value | 0.0 | counts |
| /process/acquisition/end_date | 2023-02-10T08:49:14-0600 | |
| /process/acquisition/flat_fields/axis | X | |
| /process/acquisition/flat_fields/different_flat_exposure | Same | |
| /process/acquisition/flat_fields/flat_exposure_time | 0.08 | s |
| /process/acquisition/flat_fields/mode | Start | |
| /process/acquisition/flat_fields/number | 20 | |
| /process/acquisition/flat_fields/sample/in_x | 0.0 | mm |
| /process/acquisition/flat_fields/sample/in_y | 13.1 | mm |
| /process/acquisition/flat_fields/sample/out_x | 11.0 | mm |
| /process/acquisition/flat_fields/sample/out_y | 1.0 | mm |
| /process/acquisition/flat_fields/sample_out_angle | 0.000 | |
| /process/acquisition/flat_fields/sample_out_angle_enable | No | |
| /process/acquisition/flat_fields/value | 0.0 | counts |
| /process/acquisition/flip_stitch | No | |
| /process/acquisition/rotation/num_angles | 2001 | |
| /process/acquisition/rotation/return | Yes | |
| /process/acquisition/rotation/speed | 0.8181736364454536 | °/s |
| /process/acquisition/rotation/start | 0.0 | ° |
| /process/acquisition/rotation/step | 0.09 | ° |
| /process/acquisition/scan_type | Single | |
| /process/acquisition/start_date | 2023-02-10T08:45:01-0600 |
├── defaults
│ │
│ ├── ColorMode (2041,)
│ ├── HDF5FrameLocation (2041,)
│ ├── NDArrayEpicsTSSec (2041,)
│ ├── NDArrayEpicsTSnSec (2041,)
│ ├── NDArrayTimeStamp (2041,)
│ ├── NDArrayUniqueId (2041,)
│ └── timestamp (2041, 5)
├── exchange
│ │
│ ├── data (2001, 2652, 3464)
│ ├── data_dark (20, 2652, 3464)
│ ├── data_white (20, 2652, 3464)
│ ├── theta (2001,)
│ └── web_camera_frame (360, 640, 3)
├── measurement
│ │
│ ├── instrument
│ │ │
│ │ ├── attenuator
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── down_stream (1,)
│ │ │ ├── down_stream_list (1,)
│ │ │ ├── up_stream (1,)
│ │ │ └── up_stream_list (1,)
│ │ ├── attenuator_1
│ │ │ │
│ │ │ ├── description (1,)
│ │ │ └── name (1,)
│ │ ├── detection_system
│ │ │ │
│ │ │ ├── objective
│ │ │ │ │
│ │ │ │ ├── magnification (1,)
│ │ │ │ ├── resolution (1,)
│ │ │ │ └── tube_length (1,)
│ │ │ └── scintillator
│ │ │ │
│ │ │ ├── active_thickness (1,)
│ │ │ └── type (1,)
│ │ ├── detector
│ │ │ │
│ │ │ ├── acquire_period (1,)
│ │ │ ├── adcore_version (1,)
│ │ │ ├── array_counter (1,)
│ │ │ ├── array_size_x (1,)
│ │ │ ├── array_size_y (1,)
│ │ │ ├── binning_x (1,)
│ │ │ ├── binning_y (1,)
│ │ │ ├── convert_pixel_format (1,)
│ │ │ ├── data_type (1,)
│ │ │ ├── driver_version (1,)
│ │ │ ├── exposure_auto (1,)
│ │ │ ├── exposure_time (1,)
│ │ │ ├── firmware_version (1,)
│ │ │ ├── frame_rate (1,)
│ │ │ ├── frame_rate_enable (1,)
│ │ │ ├── gain (1,)
│ │ │ ├── gain_auto (1,)
│ │ │ ├── hdf_plugin_version (1,)
│ │ │ ├── manufacturer (1,)
│ │ │ ├── max_size_x (1,)
│ │ │ ├── max_size_y (1,)
│ │ │ ├── model (1,)
│ │ │ ├── pixel_format (1,)
│ │ │ ├── pixel_size (1,)
│ │ │ ├── roi
│ │ │ │ │
│ │ │ │ ├── min_x (1,)
│ │ │ │ ├── min_y (1,)
│ │ │ │ ├── size_x (1,)
│ │ │ │ └── size_y (1,)
│ │ │ ├── sdk_version (1,)
│ │ │ ├── serial_number (1,)
│ │ │ └── temperature (1,)
│ │ ├── detector_motor_stack
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── roll (1,)
│ │ │ └── z (1,)
│ │ ├── mirror
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── angle (1,)
│ │ │ ├── dsy (1,)
│ │ │ ├── stripe (1,)
│ │ │ ├── stripe_legend (1,)
│ │ │ ├── usy (1,)
│ │ │ ├── x (1,)
│ │ │ └── y (1,)
│ │ ├── monochromator
│ │ │ │
│ │ │ ├── energy (1,)
│ │ │ ├── mode (1,)
│ │ │ ├── mode_legend (1,)
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── ds_arm (1,)
│ │ │ ├── m2_y (1,)
│ │ │ ├── m2_z (1,)
│ │ │ ├── table_ds_y (1,)
│ │ │ ├── table_usy_ib (1,)
│ │ │ ├── table_usy_ob (1,)
│ │ │ └── us_arm (1,)
│ │ ├── name (1,)
│ │ ├── sample_motor_stack
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── pitch (1,)
│ │ │ ├── roll (1,)
│ │ │ ├── rotary (1,)
│ │ │ ├── top
│ │ │ │ │
│ │ │ │ ├── x (1,)
│ │ │ │ └── z (1,)
│ │ │ ├── x (1,)
│ │ │ └── y (1,)
│ │ ├── slits
│ │ │ │
│ │ │ ├── downstream
│ │ │ │ │
│ │ │ │ ├── horizontal
│ │ │ │ │ └── setup
│ │ │ │ │ │
│ │ │ │ │ ├── center (1,)
│ │ │ │ │ └── size (1,)
│ │ │ │ └── vertical
│ │ │ │ └── setup
│ │ │ │ │
│ │ │ │ ├── center (1,)
│ │ │ │ └── size (1,)
│ │ │ ├── name (1,)
│ │ │ └── upstream
│ │ │ │
│ │ │ ├── horizontal
│ │ │ │ └── setup
│ │ │ │ │
│ │ │ │ ├── center (1,)
│ │ │ │ └── size (1,)
│ │ │ └── vertical
│ │ │ └── setup
│ │ │ │
│ │ │ ├── center (1,)
│ │ │ └── size (1,)
│ │ └── source
│ │ │
│ │ ├── beamline (1,)
│ │ ├── current (1,)
│ │ ├── fill_mode (1,)
│ │ ├── name (1,)
│ │ └── top_up (1,)
│ └── sample
│ │
│ ├── description_1 (1,)
│ ├── description_2 (1,)
│ ├── description_3 (1,)
│ ├── environment
│ │ │
│ │ ├── eurotherm1
│ │ │ │
│ │ │ ├── d (1,)
│ │ │ ├── i (1,)
│ │ │ ├── p (1,)
│ │ │ ├── pid_mode (1,)
│ │ │ ├── pid_update_rate (1,)
│ │ │ ├── ramp_rate (1,)
│ │ │ ├── set_point (1,)
│ │ │ ├── status (1,)
│ │ │ ├── thermocouple (1,)
│ │ │ └── update_rate (1,)
│ │ ├── eurotherm2
│ │ │ │
│ │ │ ├── d (1,)
│ │ │ ├── i (1,)
│ │ │ ├── p (1,)
│ │ │ ├── pid_mode (1,)
│ │ │ ├── pid_update_rate (1,)
│ │ │ ├── ramp_rate (1,)
│ │ │ ├── set_point (1,)
│ │ │ ├── status (1,)
│ │ │ ├── thermocouple (1,)
│ │ │ └── update_rate (1,)
│ │ └── load_cell
│ │ │
│ │ ├── load_calc (1,)
│ │ └── load_raw (1,)
│ ├── experiment
│ │ │
│ │ ├── proposal (1,)
│ │ ├── safety_id (1,)
│ │ └── title (1,)
│ ├── experimenter
│ │ │
│ │ ├── email (1,)
│ │ ├── institution (1,)
│ │ ├── name (1,)
│ │ └── user_id (1,)
│ ├── file
│ │ │
│ │ ├── full_name (1,)
│ │ ├── name (1,)
│ │ └── path (1,)
│ └── name (1,)
└── process
└── acquisition
│
├── dark_fields
│ │
│ ├── mode (1,)
│ ├── number (1,)
│ └── value (1,)
├── end_date (1,)
├── flat_fields
│ │
│ ├── axis (1,)
│ ├── different_flat_exposure (1,)
│ ├── flat_exposure_time (1,)
│ ├── mode (1,)
│ ├── number (1,)
│ ├── sample
│ │ │
│ │ ├── in_x (1,)
│ │ ├── in_y (1,)
│ │ ├── out_x (1,)
│ │ └── out_y (1,)
│ ├── sample_out_angle (1,)
│ ├── sample_out_angle_enable (1,)
│ └── value (1,)
├── flip_stitch (1,)
├── rotation
│ │
│ ├── num_angles (1,)
│ ├── return (1,)
│ ├── speed (1,)
│ ├── start (1,)
│ └── step (1,)
├── scan_type (1,)
└── start_date (1,)
The full and up-to-date list of meta-data stored at the APS beamline 7-BM is available at DXfile. A meta-data reader is available at hdf reder
| Meta data name | Value | Units |
| /measurement/ancillary/BarometricPressure | 986.1626095155999 | mbar |
| /measurement/instrument/attenuator_1/description | Be | |
| /measurement/instrument/attenuator_1/name | 7-BM Be Windows | |
| /measurement/instrument/attenuator_1/thickness | 750 | |
| /measurement/instrument/attenuator_2/name | 7-BM-A Filter 1 | |
| /measurement/instrument/attenuator_2/setup/filter_unit_text | Open | |
| /measurement/instrument/attenuator_3/name 7-BM-A Filter | 2 | |
| /measurement/instrument/attenuator_3/setup/filter_unit_text | Cu_1000um | |
| /measurement/instrument/detection_system/objective/magnification | 5x | |
| /measurement/instrument/detection_system/objective/resolution | 1.3717421124828533 | μm |
| /measurement/instrument/detection_system/objective/tube_length | 0.0 | mm |
| /measurement/instrument/detection_system/scintillator/active_thickness | 25.0 | μm |
| /measurement/instrument/detection_system/scintillator/type | LuAG:Ce | |
| /measurement/instrument/detector/acquire_period | 0.009966864 | s |
| /measurement/instrument/detector/adcore_version | 3.12.1 | |
| /measurement/instrument/detector/array_counter | 6266125 | |
| /measurement/instrument/detector/array_size_x | 3232 | |
| /measurement/instrument/detector/array_size_y | 1200 | |
| /measurement/instrument/detector/binning_x | 2 | |
| /measurement/instrument/detector/binning_y | 2 | |
| /measurement/instrument/detector/convert_pixel_format | Mono16 | |
| /measurement/instrument/detector/data_type | UInt16 | |
| /measurement/instrument/detector/driver_version | 3.3.0 | |
| /measurement/instrument/detector/exposure_auto | 0 | |
| /measurement/instrument/detector/exposure_time | 0.060003 | s |
| /measurement/instrument/detector/firmware_version | 1904.0.72.0 | |
| /measurement/instrument/detector/frame_rate | 100.33246164490656 | fps |
| /measurement/instrument/detector/frame_rate_enable | No | |
| /measurement/instrument/detector/gain | 0.0 | |
| /measurement/instrument/detector/gain_auto | 0 | |
| /measurement/instrument/detector/hdf_plugin_version | NDFileHDF5 ver1.10.1 | |
| /measurement/instrument/detector/manufacturer | FLIR | |
| /measurement/instrument/detector/max_size_x | 3232 | |
| /measurement/instrument/detector/max_size_y | 2426 | |
| /measurement/instrument/detector/model | Oryx ORX-10G-310S9M | |
| /measurement/instrument/detector/pixel_format | Mono16 | |
| /measurement/instrument/detector/pixel_size | 6.9 | μm |
| /measurement/instrument/detector/roi/min_x | 0 | |
| /measurement/instrument/detector/roi/min_y | 600 | |
| /measurement/instrument/detector/roi/size_x | 3232 | |
| /measurement/instrument/detector/roi/size_y | 1200 | |
| /measurement/instrument/detector/sdk_version | 2.4.0.143 | |
| /measurement/instrument/detector/serial_number | 21334235 | |
| /measurement/instrument/detector/temperature | 43.5 | °C |
| /measurement/instrument/detector_motor_stack/name | Camera motors | |
| /measurement/instrument/detector_motor_stack/setup/focus | -24.47989341085232 | mm |
| /measurement/instrument/detector_motor_stack/setup/rotation | -0.009512500000000479 | ° |
| /measurement/instrument/detector_motor_stack/setup/x | 6.000225000000015 | mm |
| /measurement/instrument/detector_motor_stack/setup/y | 0.0049999999999919 | mm |
| /measurement/instrument/name | White Beam Tomography | |
| /measurement/instrument/sample_motor_stack/detector_distance | 100.0 | mm |
| /measurement/instrument/sample_motor_stack/name | microCT sample stages | |
| /measurement/instrument/sample_motor_stack/setup/Center0Deg | -0.1442190000000192 | mm |
| /measurement/instrument/sample_motor_stack/setup/Center90Deg | 0.00015624999999719336 | mm |
| /measurement/instrument/sample_motor_stack/setup/x | -2.842170943040401e-14 | mm |
| /measurement/instrument/sample_motor_stack/setup/y | -12.0000000000001 | mm |
| /measurement/instrument/slits/name | 7-BM-A WB Slits | |
| /measurement/instrument/slits/setup/WB_Slit_H_Center | -0.4532406250002423 | mm |
| /measurement/instrument/slits/setup/WB_Slit_H_Size | 3.2944812500004845 | mm |
| /measurement/instrument/slits/setup/WB_Slit_V_Center | -0.299500000000001 | mm |
| /measurement/instrument/slits/setup/WB_Slit_V_Size | 2.60038125 | mm |
| /measurement/instrument/source/beamline | 7-BM | |
| /measurement/instrument/source/current | 102.52231928579201 | mA |
| /measurement/instrument/source/fill_mode | 24s RHB | |
| /measurement/instrument/source/name | Advanced Photon Source | |
| /measurement/instrument/source/top_up | Enable | |
| /measurement/instrument/table/name | Downstream Optical Table | |
| /measurement/instrument/table/setup/DS_Table_X0_Motor_Position | -7.51449031656 | mm |
| /measurement/instrument/table/setup/DS_Table_X2_Motor_Position | 21.207849999999993 | mm |
| /measurement/instrument/table/setup/DS_Table_Y0_Motor_Position | 7.86892 | mm |
| /measurement/instrument/table/setup/DS_Table_Y1_Motor_Position | 8.76427 | mm |
| /measurement/instrument/table/setup/DS_Table_Y2_Motor_Position | -27.828875 | mm |
| /measurement/instrument/table/setup/DS_Table_Z2_Motor_Position | 0.561975 | mm |
| /measurement/sample/description_1 | ||
| /measurement/sample/description_2 | ||
| /measurement/sample/description_3 | ||
| /measurement/sample/experiment/proposal | 80644 | |
| /measurement/sample/experiment/safety_id | Unknown | |
| /measurement/sample/experiment/title | Imaging microsacle structure in soil core | |
| /measurement/sample/experimenter/email | finfrock@anl.gov | |
| /measurement/sample/experimenter/institution | Argonne National Laboratory | |
| /measurement/sample/experimenter/name | Finfrock | |
| /measurement/sample/experimenter/user_id | 83126 | |
| /measurement/sample/file/full_name | /data/2022-10-Finfrock-80644/Center_Normal_Scan_Y_012_032.h5 | |
| /measurement/sample/file/name | Center_Normal_Scan_Y_012 | |
| /measurement/sample/file/path | /data/2022-10-Finfrock-80644/ | |
| /measurement/sample/name | ||
| /process/acquisition/dark_fields/mode | Start | |
| /process/acquisition/dark_fields/number | 20 | |
| /process/acquisition/dark_fields/value | 0.0 counts | |
| /process/acquisition/end_date | October 18, 2022 20:27:20 | |
| /process/acquisition/flat_fields/axis | Both | |
| /process/acquisition/flat_fields/different_flat_exposure | Different | |
| /process/acquisition/flat_fields/flat_exposure_time | 0.03 | s |
| /process/acquisition/flat_fields/mode | Start | |
| /process/acquisition/flat_fields/number | 20 | |
| /process/acquisition/flat_fields/sample/in_x | 0.0 | mm |
| /process/acquisition/flat_fields/sample/in_y | -12.0 | mm |
| /process/acquisition/flat_fields/sample/out_x | -15.0 | mm |
| /process/acquisition/flat_fields/sample/out_y | -12.9 | mm |
| /process/acquisition/flat_fields/sample_out_angle | 0.000 | |
| /process/acquisition/flat_fields/sample_out_angle_enable | No | |
| /process/acquisition/flat_fields/value | 0.0 | counts |
| /process/acquisition/flip_stitch | No | |
| /process/acquisition/helical_misalignment | 0.0 | |
| /process/acquisition/pixels_y_per_360_deg | 0.0 | |
| /process/acquisition/rotation/num_angles | 3201 | |
| /process/acquisition/rotation/return | Yes | |
| /process/acquisition/rotation/speed | 0.9072141670564328 | °/s |
| /process/acquisition/rotation/start | 0.0 | ° |
| /process/acquisition/rotation/step | 0.05625 | ° |
| /process/acquisition/scan_type | Single | |
| /process/acquisition/start_date | October 18, 2022 20:22:52 |
├── defaults
│ │
│ ├── ColorMode (3252,)
│ ├── HDF5FrameLocation (3252,)
│ ├── MW100_ADC_01_Desc (3252,)
│ ├── MW100_ADC_01_Unit (3252,)
│ ├── MW100_ADC_02_Desc (3252,)
│ ├── MW100_ADC_02_Unit (3252,)
│ ├── MW100_ADC_03_Desc (3252,)
│ ├── MW100_ADC_03_Unit (3252,)
│ ├── MW100_ADC_04_Desc (3252,)
│ ├── MW100_ADC_04_Unit (3252,)
│ ├── MW100_ADC_05_Desc (3252,)
│ ├── MW100_ADC_05_Unit (3252,)
│ ├── MW100_ADC_06_Desc (3252,)
│ ├── MW100_ADC_06_Unit (3252,)
│ ├── MW100_ADC_07_Desc (3252,)
│ ├── MW100_ADC_07_Unit (3252,)
│ ├── MW100_ADC_08_Desc (3252,)
│ ├── MW100_ADC_08_Unit (3252,)
│ ├── MW100_ADC_09_Desc (3252,)
│ ├── MW100_ADC_09_Unit (3252,)
│ ├── MW100_ADC_10_Desc (3252,)
│ ├── MW100_ADC_10_Unit (3252,)
│ ├── NDArrayEpicsTSSec (3252,)
│ ├── NDArrayEpicsTSnSec (3252,)
│ ├── NDArrayTimeStamp (3252,)
│ ├── NDArrayUniqueId (3252,)
│ └── timestamp (3252, 5)
├── exchange
│ │
│ ├── data (3201, 1200, 3232)
│ ├── data_dark (20, 1200, 3232)
│ ├── data_gains (11, 1200, 3232)
│ ├── data_white (20, 1200, 3232)
│ ├── gain_exp_times (11,)
│ └── theta (3201,)
├── measurement
│ │
│ ├── ancillary
│ │ │
│ │ ├── BarometricPressure (1,)
│ │ ├── MW100_ADC_01 (3252,)
│ │ ├── MW100_ADC_02 (3252,)
│ │ ├── MW100_ADC_03 (3252,)
│ │ ├── MW100_ADC_04 (3252,)
│ │ ├── MW100_ADC_05 (3252,)
│ │ ├── MW100_ADC_06 (3252,)
│ │ ├── MW100_ADC_07 (3252,)
│ │ ├── MW100_ADC_08 (3252,)
│ │ ├── MW100_ADC_09 (3252,)
│ │ └── MW100_ADC_10 (3252,)
│ ├── instrument
│ │ │
│ │ ├── attenuator_1
│ │ │ │
│ │ │ ├── description (1,)
│ │ │ ├── name (1,)
│ │ │ └── thickness (1,)
│ │ ├── attenuator_2
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ └── filter_unit_text (1,)
│ │ ├── attenuator_3
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ └── filter_unit_text (1,)
│ │ ├── detection_system
│ │ │ │
│ │ │ ├── objective
│ │ │ │ │
│ │ │ │ ├── magnification (1,)
│ │ │ │ ├── resolution (1,)
│ │ │ │ └── tube_length (1,)
│ │ │ └── scintillator
│ │ │ │
│ │ │ ├── active_thickness (1,)
│ │ │ └── type (1,)
│ │ ├── detector
│ │ │ │
│ │ │ ├── acquire_period (1,)
│ │ │ ├── adcore_version (1,)
│ │ │ ├── array_counter (1,)
│ │ │ ├── array_size_x (1,)
│ │ │ ├── array_size_y (1,)
│ │ │ ├── binning_x (1,)
│ │ │ ├── binning_y (1,)
│ │ │ ├── convert_pixel_format (1,)
│ │ │ ├── data_type (1,)
│ │ │ ├── driver_version (1,)
│ │ │ ├── exposure_auto (1,)
│ │ │ ├── exposure_time (1,)
│ │ │ ├── firmware_version (1,)
│ │ │ ├── frame_rate (1,)
│ │ │ ├── frame_rate_enable (1,)
│ │ │ ├── gain (1,)
│ │ │ ├── gain_auto (1,)
│ │ │ ├── hdf_plugin_version (1,)
│ │ │ ├── manufacturer (1,)
│ │ │ ├── max_size_x (1,)
│ │ │ ├── max_size_y (1,)
│ │ │ ├── model (1,)
│ │ │ ├── pixel_format (1,)
│ │ │ ├── pixel_size (1,)
│ │ │ ├── roi
│ │ │ │ │
│ │ │ │ ├── min_x (1,)
│ │ │ │ ├── min_y (1,)
│ │ │ │ ├── size_x (1,)
│ │ │ │ └── size_y (1,)
│ │ │ ├── sdk_version (1,)
│ │ │ ├── serial_number (1,)
│ │ │ └── temperature (1,)
│ │ ├── detector_motor_stack
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── focus (1,)
│ │ │ ├── rotation (1,)
│ │ │ ├── x (1,)
│ │ │ └── y (1,)
│ │ ├── name (1,)
│ │ ├── sample_motor_stack
│ │ │ │
│ │ │ ├── detector_distance (1,)
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── Center0Deg (1,)
│ │ │ ├── Center90Deg (1,)
│ │ │ ├── x (1,)
│ │ │ └── y (1,)
│ │ ├── slits
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── WB_Slit_H_Center (1,)
│ │ │ ├── WB_Slit_H_Size (1,)
│ │ │ ├── WB_Slit_V_Center (1,)
│ │ │ └── WB_Slit_V_Size (1,)
│ │ ├── source
│ │ │ │
│ │ │ ├── beamline (1,)
│ │ │ ├── current (1,)
│ │ │ ├── fill_mode (1,)
│ │ │ ├── name (1,)
│ │ │ └── top_up (1,)
│ │ └── table
│ │ │
│ │ ├── name (1,)
│ │ └── setup
│ │ │
│ │ ├── DS_Table_X0_Motor_Position (1,)
│ │ ├── DS_Table_X2_Motor_Position (1,)
│ │ ├── DS_Table_Y0_Motor_Position (1,)
│ │ ├── DS_Table_Y1_Motor_Position (1,)
│ │ ├── DS_Table_Y2_Motor_Position (1,)
│ │ └── DS_Table_Z2_Motor_Position (1,)
│ └── sample
│ │
│ ├── description_1 (1,)
│ ├── description_2 (1,)
│ ├── description_3 (1,)
│ ├── experiment
│ │ │
│ │ ├── proposal (1,)
│ │ ├── safety_id (1,)
│ │ └── title (1,)
│ ├── experimenter
│ │ │
│ │ ├── email (1,)
│ │ ├── institution (1,)
│ │ ├── name (1,)
│ │ └── user_id (1,)
│ ├── file
│ │ │
│ │ ├── full_name (1,)
│ │ ├── name (1,)
│ │ └── path (1,)
│ └── name (1,)
└── process
└── acquisition
│
├── dark_fields
│ │
│ ├── mode (1,)
│ ├── number (1,)
│ └── value (1,)
├── end_date (1,)
├── flat_fields
│ │
│ ├── axis (1,)
│ ├── different_flat_exposure (1,)
│ ├── flat_exposure_time (1,)
│ ├── mode (1,)
│ ├── number (1,)
│ ├── sample
│ │ │
│ │ ├── in_x (1,)
│ │ ├── in_y (1,)
│ │ ├── out_x (1,)
│ │ └── out_y (1,)
│ ├── sample_out_angle (1,)
│ ├── sample_out_angle_enable (1,)
│ └── value (1,)
├── flip_stitch (1,)
├── helical_misalignment (1,)
├── pixels_y_per_360_deg (1,)
├── rotation
│ │
│ ├── num_angles (1,)
│ ├── return (1,)
│ ├── speed (1,)
│ ├── start (1,)
│ └── step (1,)
├── scan_type (1,)
└── start_date (1,)
The full and up-to-date list of meta-data stored at the APS beamline 32-ID is available at DXfile. A meta-data reader is available at hdf reder
| Meta data name | Value | Units |
| /measurement/instrument/beam_monitor/name | Beam Monitor | |
| /measurement/instrument/beam_monitor/setup/x | 39.66749999999998 | mm |
| /measurement/instrument/beam_monitor/setup/x_dial | 39.66749999999998 | mm |
| /measurement/instrument/beam_monitor/setup/y | 67.20000000000012 | mm |
| /measurement/instrument/beam_monitor/setup/y_dial | 53.09200000000011 | mm |
| /measurement/instrument/beam_stop/name | TXM beam stop | |
| /measurement/instrument/beam_stop/setup/x | -0.23899800000000004 | mm |
| /measurement/instrument/beam_stop/setup/x_dial | 1.9064169999999998 | mm |
| /measurement/instrument/beam_stop/setup/y | 1.1102230246251565e-16 | mm |
| /measurement/instrument/beam_stop/setup/y_dial | -0.7870079999999999 | mm |
| /measurement/instrument/condenser/name | TXM Condenser | |
| /measurement/instrument/condenser/setup/pitch | -0.00081999999999967 | mm |
| /measurement/instrument/condenser/setup/pitch_dial | -1.8e-05 | mm |
| /measurement/instrument/condenser/setup/x | 1.839349 | mm |
| /measurement/instrument/condenser/setup/x_dial | 2.8180609999999997 | mm |
| /measurement/instrument/condenser/setup/y | 0.7686649 | mm |
| /measurement/instrument/condenser/setup/y_dial | -2.4999999999999998e-05 | mm |
| /measurement/instrument/condenser/setup/yaw | -0.3125449999999999 | mm |
| /measurement/instrument/condenser/setup/yaw_dial | 0.3111 | mm |
| /measurement/instrument/condenser/setup/z | -287.0 | mm |
| /measurement/instrument/condenser/setup/z_dial | -17.504999999999995 | mm |
| /measurement/instrument/crl/name | Compound Refractive Lenses | |
| /measurement/instrument/crl/setup/pitch | 1.7511875000000146 | mm |
| /measurement/instrument/crl/setup/pitch_dial | -30.327062499999982 | mm |
| /measurement/instrument/crl/setup/table_y | -39.19999999999996 | mm |
| /measurement/instrument/crl/setup/x | -2.288000000000001 | mm |
| /measurement/instrument/crl/setup/x_dial | -2.288000000000001 | mm |
| /measurement/instrument/crl/setup/y | -4.684500000000078 | mm |
| /measurement/instrument/crl/setup/y_dial | 43.446999999999925 | mm |
| /measurement/instrument/crl/setup/yaw | 0.8499999999999375 | mm |
| /measurement/instrument/crl/setup/yaw_dial | 236.38759999999994 | mm |
| /measurement/instrument/detection_system/objective/magnification | 10xhr | |
| /measurement/instrument/detection_system/objective/resolution | 20.6 | nm |
| /measurement/instrument/detection_system/objective/tube_length | 0.0 | mm |
| /measurement/instrument/detection_system/scintillator/active_thickness | 23.0 | μm |
| /measurement/instrument/detection_system/scintillator/type | GGG:Eu | |
| /measurement/instrument/detector/acquire_period | 0.042339784000000005 | s |
| /measurement/instrument/detector/adcore_version | 3.11.0 | |
| /measurement/instrument/detector/array_counter | 2057111 | |
| /measurement/instrument/detector/array_size_x | 2048 | pixel |
| /measurement/instrument/detector/array_size_y | 1516 | pixel |
| /measurement/instrument/detector/binning_x | 2 | |
| /measurement/instrument/detector/binning_y | 2 | |
| /measurement/instrument/detector/convert_pixel_format | Mono16 | |
| /measurement/instrument/detector/data_type | UInt16 | |
| /measurement/instrument/detector/driver_version | 3.3.0 | |
| /measurement/instrument/detector/exposure_auto | 0 | |
| /measurement/instrument/detector/exposure_time | 0.499994 | s |
| /measurement/instrument/detector/firmware_version | 2011.4.16.0 | |
| /measurement/instrument/detector/frame_rate | 23.618448313293236 | fps |
| /measurement/instrument/detector/frame_rate_enable | 0 | |
| /measurement/instrument/detector/gain | 0.0 | |
| /measurement/instrument/detector/gain_auto | 0 | |
| /measurement/instrument/detector/hdf_plugin_version | NDFileHDF5 ver1.10.1 | |
| /measurement/instrument/detector/manufacturer | FLIR | |
| /measurement/instrument/detector/max_size_x | 2660 | pixel |
| /measurement/instrument/detector/max_size_y | 1516 | pixel |
| /measurement/instrument/detector/model | Blackfly S BFS-PGE-161S7M | |
| /measurement/instrument/detector/pixel_format | Mono12Packed | |
| /measurement/instrument/detector/pixel_size | 1.51 | μm |
| /measurement/instrument/detector/roi/min_x | 612 | pixel |
| /measurement/instrument/detector/roi/min_y | 0 | pixel |
| /measurement/instrument/detector/roi/size_x | 2048 | pixel |
| /measurement/instrument/detector/roi/size_y | 1516 | pixel |
| /measurement/instrument/detector/sdk_version | 2.4.0.143 | |
| /measurement/instrument/detector/serial_number | 21109025 | |
| /measurement/instrument/detector/temperature | 31.0 | °C |
| /measurement/instrument/detector_motor_stack/name | 32-ID detector motor stack | |
| /measurement/instrument/detector_motor_stack/setup/x | 0.0 | mm |
| /measurement/instrument/detector_motor_stack/setup/x_dial | -3.0095 | mm |
| /measurement/instrument/detector_motor_stack/setup/y | 0.0 | mm |
| /measurement/instrument/detector_motor_stack/setup/y_dial | -38.3315 | mm |
| /measurement/instrument/detector_motor_stack/setup/yaw | 0.44 | mm |
| /measurement/instrument/detector_motor_stack/setup/yaw_dial | 0.44 | mm |
| /measurement/instrument/detector_motor_stack/setup/z | 3300.0 | mm |
| /measurement/instrument/detector_motor_stack/setup/z_dial | 5754.27225 | mm |
| /measurement/instrument/diffuser/name | TXM diffuser | |
| /measurement/instrument/diffuser/setup/x | 0.0 | mm |
| /measurement/instrument/diffuser/setup/x_dial | 42.4953 | mm |
| /measurement/instrument/flight_tube/name | Flight_tube | |
| /measurement/instrument/flight_tube/setup/z | 117.25999999999976 | mm |
| /measurement/instrument/flight_tube/setup/z_dial | -1619.0175000000004 | mm |
| /measurement/instrument/mirror/name | 32-ID Mirror | |
| /measurement/instrument/mirror/setup/stripe | Si stripe selected | |
| /measurement/instrument/mirror/setup/x | -33.000035000000025 | mm |
| /measurement/instrument/mirror/setup/y | 0.0 | um |
| /measurement/instrument/monochromator/energy | 8.0 | keV |
| /measurement/instrument/monochromator/name | Si Double Crystal | |
| /measurement/instrument/monochromator/setup/chi2 | -0.05149750000000708 | ° |
| /measurement/instrument/monochromator/setup/chi2_dial | -10.173733100000007 | ° |
| /measurement/instrument/monochromator/setup/flag | 15.0 | mm |
| /measurement/instrument/monochromator/setup/flag_dial | 35.055 | mm |
| /measurement/instrument/monochromator/setup/theta | 14.307760457362393 | ° |
| /measurement/instrument/monochromator/setup/theta2 | -0.3794784094000212 | ° |
| /measurement/instrument/monochromator/setup/theta2_dial | -6.212574196400022 | ° |
| /measurement/instrument/monochromator/setup/theta_dial | 14.307716061238043 | ° |
| /measurement/instrument/monochromator/setup/x | 0.4000000000000057 | mm |
| /measurement/instrument/monochromator/setup/x2 | 3.9998 | mm |
| /measurement/instrument/monochromator/setup/x2_dial | 3.4998 | mm |
| /measurement/instrument/monochromator/setup/x_dial | 32.50000000000001 | mm |
| /measurement/instrument/monochromator/setup/y | 0.0 | mm |
| /measurement/instrument/monochromator/setup/y1 | -13.2456320541973 | mm |
| /measurement/instrument/monochromator/setup/y1_dial | -13.2456320541973 | mm |
| /measurement/instrument/monochromator/setup/y_dial | 2.40008 | mm |
| /measurement/instrument/monochromator/setup/z2 | 124.99999237060547 | mm |
| /measurement/instrument/monochromator/setup/z2_dial | 124.0 | mm |
| /measurement/instrument/name | TXM | |
| /measurement/instrument/phase_ring/name | TXM Phase Ring | |
| /measurement/instrument/phase_ring/setup/x | 460.0 | mm |
| /measurement/instrument/phase_ring/setup/x_dial | 475.85225 | mm |
| /measurement/instrument/phase_ring/setup/y | -6.0 | mm |
| /measurement/instrument/phase_ring/setup/y_dial | 0.7357909999999999 | mm |
| /measurement/instrument/phase_ring/setup/z | 117.25999999999976 | mm |
| /measurement/instrument/phase_ring/setup/z_dial | -1619.0175000000004 | mm |
| /measurement/instrument/pin_hole/name | TXM Pin Hole | |
| /measurement/instrument/pin_hole/setup/x | -6.990000000000146 | mm |
| /measurement/instrument/pin_hole/setup/x_dial | 2.839700000000146 | mm |
| /measurement/instrument/pin_hole/setup/y | 0.0 | mm |
| /measurement/instrument/pin_hole/setup/y_dial | -0.8716250000000048 | mm |
| /measurement/instrument/sample_environment/furnace/d | 0.0 | |
| /measurement/instrument/sample_environment/furnace/i | 0.0 | |
| /measurement/instrument/sample_environment/furnace/p | 0.0 | |
| /measurement/instrument/sample_environment/furnace/pid_mode | 0 | |
| /measurement/instrument/sample_environment/furnace/ramp_rate | 0.0 | °C/s |
| /measurement/instrument/sample_environment/furnace/ramp_temperature | 0.0 | °C |
| /measurement/instrument/sample_environment/furnace/set_point | 0.0 | °C |
| /measurement/instrument/sample_environment/furnace/temperature | 0.0 | °C |
| /measurement/instrument/sample_environment/furnace/thermocouple | 888888.0 | °C |
| /measurement/instrument/sample_environment/furnace/update_rate | 7 | s |
| /measurement/instrument/sample_motor_stack/name | TXM sample stages stack | |
| /measurement/instrument/sample_motor_stack/setup/rotary | 180.31080508474574 | mm |
| /measurement/instrument/sample_motor_stack/setup/rotary_dial | 50.62080508474574 | mm |
| /measurement/instrument/sample_motor_stack/setup/top/x | 0.0 | mm |
| /measurement/instrument/sample_motor_stack/setup/top/x_dial | 2.0489669999999944 | mm |
| /measurement/instrument/sample_motor_stack/setup/top/z | 0.0 | mm |
| /measurement/instrument/sample_motor_stack/setup/top/z_dial | -0.35613400000000706 | mm |
| /measurement/instrument/sample_motor_stack/setup/x | -9761.289999999997 | mm |
| /measurement/instrument/sample_motor_stack/setup/x_dial | 14321.829999999998 | mm |
| /measurement/instrument/sample_motor_stack/setup/y | 6.154020999999631 | mm |
| /measurement/instrument/sample_motor_stack/setup/y_dial | 125.25354720000038 | mm |
| /measurement/instrument/slits/horizontal/setup/Center | 0.04041788149999978 | mm |
| /measurement/instrument/slits/horizontal/setup/size | 2.2496012794794025 | mm |
| /measurement/instrument/slits/name | 32-ID slits | |
| /measurement/instrument/slits/vertical/setup/center | -0.47999999999999954 | mm |
| /measurement/instrument/slits/vertical/setup/size | 0.7990000494718017 | mm |
| /measurement/instrument/source/beamline | 32-ID | |
| /measurement/instrument/source/current | 101.723080369204 | mA |
| /measurement/instrument/source/energy | 25.746719360351562 | keV |
| /measurement/instrument/source/fill_mode | 0+24x1 RHB | |
| /measurement/instrument/source/gap | 179.99975 | mm |
| /measurement/instrument/source/name | Advanced Photon Source | |
| /measurement/instrument/source/top_up | Enable | |
| /measurement/instrument/zone_plate/description | FZP2 | |
| /measurement/instrument/zone_plate/outermost_zone_width | 50 | |
| /measurement/instrument/zone_plate/setup/x | -3.1100590000000263 | mm |
| /measurement/instrument/zone_plate/setup/x_dial | 3.769401000000016 | mm |
| /measurement/instrument/zone_plate/setup/y | 0.0 | mm |
| /measurement/instrument/zone_plate/setup/y_dial | 0.8195010000000017 | mm |
| /measurement/instrument/zone_plate/setup/z | 59.124 | mm |
| /measurement/instrument/zone_plate/setup/z_dial | -43.51546299999998 | mm |
| /measurement/sample/description_1 | Unknown | |
| /measurement/sample/description_2 | Unknown | |
| /measurement/sample/description_3 | Unknown | |
| /measurement/sample/experiment/proposal | 74240 | |
| /measurement/sample/experiment/safety_id | Unknown | |
| /measurement/sample/experiment/title | Replacement of calcium carbonate (CaCO3) polymorphs by lead, zinc, and cadmium carbonates | |
| /measurement/sample/experimenter/email | fenter@anl.gov | |
| /measurement/sample/experimenter/institution | Argonne National Laboratory | |
| /measurement/sample/experimenter/name | Fenter | |
| /measurement/sample/experimenter/user_id | 50607 | |
| /measurement/sample/file/full_name | /local/dataraid/2023-03/Fenter/Calcite_sr5per_2_abs_192.h5 | |
| /measurement/sample/file/name | Calcite_sr5per_2_abs | |
| /measurement/sample/file/path | /local/dataraid/2023-03/Fenter/ | |
| /measurement/sample/name | Unknown | |
| /process/acquisition/dark_fields/mode | None | |
| /process/acquisition/dark_fields/number | 20 | |
| /process/acquisition/dark_fields/value | 0.0 | counts |
| /process/acquisition/end_date | 2023-03-22T11:28:11-0500 | |
| /process/acquisition/flat_fields/axis | Y | |
| /process/acquisition/flat_fields/different_flat_exposure | Same | |
| /process/acquisition/flat_fields/flat_exposure_time | 0.0 | s |
| /process/acquisition/flat_fields/mode | Start | |
| /process/acquisition/flat_fields/number | 20 | |
| /process/acquisition/flat_fields/sample/in_x | 0.0 | mm |
| /process/acquisition/flat_fields/sample/in_y | 0.0 | mm |
| /process/acquisition/flat_fields/sample/out_x | 2.0 | mm |
| /process/acquisition/flat_fields/sample/out_y | 2.0 | mm |
| /process/acquisition/flat_fields/sample_out_angle | 90.000 | |
| /process/acquisition/flat_fields/sample_out_angle_enable | Yes | |
| /process/acquisition/flat_fields/value | 0.0 | counts |
| /process/acquisition/flip_stitch | No | |
| /process/acquisition/rotation/num_angles | 1501 | |
| /process/acquisition/rotation/return | No | |
| /process/acquisition/rotation/speed | 0.23213248345273438 | °/s |
| /process/acquisition/rotation/start | 0.0 | ° |
| /process/acquisition/rotation/step | 0.12012711864406779 | ° |
| /process/acquisition/scan_type | Single | |
| /process/acquisition/start_date | 2023-03-22T11:14:49-0500 |
├── defaults
│ │
│ ├── ColorMode (1521,)
│ ├── HDF5FrameLocation (1521,)
│ ├── NDArrayEpicsTSSec (1521,)
│ ├── NDArrayEpicsTSnSec (1521,)
│ ├── NDArrayTimeStamp (1521,)
│ ├── NDArrayUniqueId (1521,)
│ └── timestamp (1521, 5)
├── exchange
│ │
│ ├── data (1501, 1516, 2048)
│ ├── data2 (1516, 2048)
│ ├── data_dark (1, 1516, 2048)
│ ├── data_white (20, 1516, 2048)
│ └── theta (1501,)
├── measurement
│ │
│ ├── instrument
│ │ │
│ │ ├── beam_monitor
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── x (1,)
│ │ │ ├── x_dial (1,)
│ │ │ ├── y (1,)
│ │ │ └── y_dial (1,)
│ │ ├── beam_stop
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── x (1,)
│ │ │ ├── x_dial (1,)
│ │ │ ├── y (1,)
│ │ │ └── y_dial (1,)
│ │ ├── condenser
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── pitch (1,)
│ │ │ ├── pitch_dial (1,)
│ │ │ ├── x (1,)
│ │ │ ├── x_dial (1,)
│ │ │ ├── y (1,)
│ │ │ ├── y_dial (1,)
│ │ │ ├── yaw (1,)
│ │ │ ├── yaw_dial (1,)
│ │ │ ├── z (1,)
│ │ │ └── z_dial (1,)
│ │ ├── crl
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── pitch (1,)
│ │ │ ├── pitch_dial (1,)
│ │ │ ├── table_y (1,)
│ │ │ ├── x (1,)
│ │ │ ├── x_dial (1,)
│ │ │ ├── y (1,)
│ │ │ ├── y_dial (1,)
│ │ │ ├── yaw (1,)
│ │ │ └── yaw_dial (1,)
│ │ ├── detection_system
│ │ │ │
│ │ │ ├── objective
│ │ │ │ │
│ │ │ │ ├── magnification (1,)
│ │ │ │ ├── resolution (1,)
│ │ │ │ └── tube_length (1,)
│ │ │ └── scintillator
│ │ │ │
│ │ │ ├── active_thickness (1,)
│ │ │ └── type (1,)
│ │ ├── detector
│ │ │ │
│ │ │ ├── acquire_period (1,)
│ │ │ ├── adcore_version (1,)
│ │ │ ├── array_counter (1,)
│ │ │ ├── array_size_x (1,)
│ │ │ ├── array_size_y (1,)
│ │ │ ├── binning_x (1,)
│ │ │ ├── binning_y (1,)
│ │ │ ├── convert_pixel_format (1,)
│ │ │ ├── data_type (1,)
│ │ │ ├── driver_version (1,)
│ │ │ ├── exposure_auto (1,)
│ │ │ ├── exposure_time (1,)
│ │ │ ├── firmware_version (1,)
│ │ │ ├── frame_rate (1,)
│ │ │ ├── frame_rate_enable (1,)
│ │ │ ├── gain (1,)
│ │ │ ├── gain_auto (1,)
│ │ │ ├── hdf_plugin_version (1,)
│ │ │ ├── manufacturer (1,)
│ │ │ ├── max_size_x (1,)
│ │ │ ├── max_size_y (1,)
│ │ │ ├── model (1,)
│ │ │ ├── pixel_format (1,)
│ │ │ ├── pixel_size (1,)
│ │ │ ├── roi
│ │ │ │ │
│ │ │ │ ├── min_x (1,)
│ │ │ │ ├── min_y (1,)
│ │ │ │ ├── size_x (1,)
│ │ │ │ └── size_y (1,)
│ │ │ ├── sdk_version (1,)
│ │ │ ├── serial_number (1,)
│ │ │ └── temperature (1,)
│ │ ├── detector_motor_stack
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── x (1,)
│ │ │ ├── x_dial (1,)
│ │ │ ├── y (1,)
│ │ │ ├── y_dial (1,)
│ │ │ ├── yaw (1,)
│ │ │ ├── yaw_dial (1,)
│ │ │ ├── z (1,)
│ │ │ └── z_dial (1,)
│ │ ├── diffuser
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── x (1,)
│ │ │ └── x_dial (1,)
│ │ ├── flight_tube
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── z (1,)
│ │ │ └── z_dial (1,)
│ │ ├── mirror
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── stripe (1,)
│ │ │ ├── x (1,)
│ │ │ └── y (1,)
│ │ ├── monochromator
│ │ │ │
│ │ │ ├── energy (1,)
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── chi2 (1,)
│ │ │ ├── chi2_dial (1,)
│ │ │ ├── flag (1,)
│ │ │ ├── flag_dial (1,)
│ │ │ ├── theta (1,)
│ │ │ ├── theta2 (1,)
│ │ │ ├── theta2_dial (1,)
│ │ │ ├── theta_dial (1,)
│ │ │ ├── x (1,)
│ │ │ ├── x2 (1,)
│ │ │ ├── x2_dial (1,)
│ │ │ ├── x_dial (1,)
│ │ │ ├── y (1,)
│ │ │ ├── y1 (1,)
│ │ │ ├── y1_dial (1,)
│ │ │ ├── y_dial (1,)
│ │ │ ├── z2 (1,)
│ │ │ └── z2_dial (1,)
│ │ ├── name (1,)
│ │ ├── phase_ring
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── x (1,)
│ │ │ ├── x_dial (1,)
│ │ │ ├── y (1,)
│ │ │ ├── y_dial (1,)
│ │ │ ├── z (1,)
│ │ │ └── z_dial (1,)
│ │ ├── pin_hole
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── x (1,)
│ │ │ ├── x_dial (1,)
│ │ │ ├── y (1,)
│ │ │ └── y_dial (1,)
│ │ ├── sample_environment
│ │ │ └── furnace
│ │ │ │
│ │ │ ├── d (1,)
│ │ │ ├── i (1,)
│ │ │ ├── p (1,)
│ │ │ ├── pid_mode (1,)
│ │ │ ├── ramp_rate (1,)
│ │ │ ├── ramp_temperature (1,)
│ │ │ ├── set_point (1,)
│ │ │ ├── temperature (1,)
│ │ │ ├── thermocouple (1,)
│ │ │ └── update_rate (1,)
│ │ ├── sample_motor_stack
│ │ │ │
│ │ │ ├── name (1,)
│ │ │ └── setup
│ │ │ │
│ │ │ ├── rotary (1,)
│ │ │ ├── rotary_dial (1,)
│ │ │ ├── top
│ │ │ │ │
│ │ │ │ ├── x (1,)
│ │ │ │ ├── x_dial (1,)
│ │ │ │ ├── z (1,)
│ │ │ │ └── z_dial (1,)
│ │ │ ├── x (1,)
│ │ │ ├── x_dial (1,)
│ │ │ ├── y (1,)
│ │ │ └── y_dial (1,)
│ │ ├── slits
│ │ │ │
│ │ │ ├── horizontal
│ │ │ │ └── setup
│ │ │ │ │
│ │ │ │ ├── Center (1,)
│ │ │ │ └── size (1,)
│ │ │ ├── name (1,)
│ │ │ └── vertical
│ │ │ └── setup
│ │ │ │
│ │ │ ├── center (1,)
│ │ │ └── size (1,)
│ │ ├── source
│ │ │ │
│ │ │ ├── beamline (1,)
│ │ │ ├── current (1,)
│ │ │ ├── energy (1,)
│ │ │ ├── fill_mode (1,)
│ │ │ ├── gap (1,)
│ │ │ ├── name (1,)
│ │ │ └── top_up (1,)
│ │ └── zone_plate
│ │ │
│ │ ├── description (1,)
│ │ ├── outermost_zone_width (1,)
│ │ └── setup
│ │ │
│ │ ├── x (1,)
│ │ ├── x_dial (1,)
│ │ ├── y (1,)
│ │ ├── y_dial (1,)
│ │ ├── z (1,)
│ │ └── z_dial (1,)
│ └── sample
│ │
│ ├── description_1 (1,)
│ ├── description_2 (1,)
│ ├── description_3 (1,)
│ ├── experiment
│ │ │
│ │ ├── proposal (1,)
│ │ ├── safety_id (1,)
│ │ └── title (1,)
│ ├── experimenter
│ │ │
│ │ ├── email (1,)
│ │ ├── institution (1,)
│ │ ├── name (1,)
│ │ └── user_id (1,)
│ ├── file
│ │ │
│ │ ├── full_name (1,)
│ │ ├── name (1,)
│ │ └── path (1,)
│ └── name (1,)
└── process
└── acquisition
│
├── dark_fields
│ │
│ ├── mode (1,)
│ ├── number (1,)
│ └── value (1,)
├── end_date (1,)
├── flat_fields
│ │
│ ├── axis (1,)
│ ├── different_flat_exposure (1,)
│ ├── flat_exposure_time (1,)
│ ├── mode (1,)
│ ├── number (1,)
│ ├── sample
│ │ │
│ │ ├── in_x (1,)
│ │ ├── in_y (1,)
│ │ ├── out_x (1,)
│ │ └── out_y (1,)
│ ├── sample_out_angle (1,)
│ ├── sample_out_angle_enable (1,)
│ └── value (1,)
├── flip_stitch (1,)
├── rotation
│ │
│ ├── num_angles (1,)
│ ├── return (1,)
│ ├── speed (1,)
│ ├── start (1,)
│ └── step (1,)
├── scan_type (1,)
└── start_date (1,)
The National Synchrotron Light Source II (NSLS-II) nano tomography instrument generates HDF files. A meta-data reader is available at hdf reder
| Meta data name | Value | Units |
| Magnification | 297.74961267203344 | |
| Pixel Size | 43.66084604892265 | nm |
| X_eng | 8.290000000000001 | |
| acquisition_period | 0.05 | |
| ang_range | 200 | |
| binning | 1 | |
| exposure_time | 0.04 | |
| filters | None | |
| note | 47_VGCF_NMC3D_xanesNi_63_energy=8.29 | |
| r_ini | 0.0 | |
| scan_id | 2877 | |
| scan_time | 2022-10-18 14:19:00.445353 | |
| slew_velocity | 6 | |
| start_angle | None | |
| uid | 25ef5452-b0f3-4a3c-a6a0-80d3e040cd5c | |
| x_ini | -1859.9990000000003 | |
| y_ini | -1778.9999999999998 | |
| z_ini | -615.0000000000001 |
│
├── Magnification ()
├── Pixel Size ()
├── X_eng ()
├── acquisition_period ()
├── ang_range ()
├── angle (601,)
├── binning ()
├── exposure_time ()
├── filters ()
├── img_bkg (20, 1080, 1280)
├── img_bkg_avg (1, 1080, 1280)
├── img_dark (20, 1080, 1280)
├── img_dark_avg (1, 1080, 1280)
├── img_tomo (601, 1080, 1280)
├── note ()
├── r_ini ()
├── scan_id ()
├── scan_time ()
├── slew_velocity ()
├── start_angle ()
├── uid ()
├── x_ini ()
├── y_ini ()
└── z_ini ()
European Synchrotron Radiation Facility (ESRF) uses NeXus NXTomo definition to store data and meta-data in a HDF file. The raw data file collected at the beamline are converted in a NeXus file using nxtomomill. Below is the output of nxtomomill version a3173f887d97ede9b4947bc984d34b913a7cc255. A meta-data reader is available at hdf reder
| Meta data name | Value | Units |
| /entry0000/bliss_original_files | /data/2023-08/decarlo/ESRF/align/in1089_align.h5 | |
| /entry0000/end_time | 2023-03-01T10:23:56.262594+01:00 | |
| /entry0000/instrument/beam/incident_energy | 19.5 | keV |
| /entry0000/instrument/detector/distance | 1.1965000000000001 | m |
| /entry0000/instrument/detector/estimated_cor_from_motor | 699.7356554190684 | pixel |
| /entry0000/instrument/detector/field_of_view | Half | |
| /entry0000/instrument/detector/tomo_n | 4600 | |
| /entry0000/instrument/detector/x_flipped | False | |
| /entry0000/instrument/detector/x_pixel_size | 6.430999999999999e-07 | m |
| /entry0000/instrument/detector/y_flipped | True | |
| /entry0000/instrument/detector/y_pixel_size | 6.430999999999999e-07 | m |
| /entry0000/instrument/source/name | ESRF | |
| /entry0000/instrument/source/probe | x-ray | |
| /entry0000/instrument/source/type | Synchrotron X-ray Source | |
| /entry0000/sample/name | align | |
| /entry0000/start_time | 2023-03-01T10:15:11.366386+01:00 | |
| /entry0000/title | 0001 |
entry0000
│
├── beam
│ └── incident_energy ()
├── bliss_original_files (1,)
├── control
│ └── data (4840,)
├── data
│ │
│ ├── data (4840, 2160, 2560)
│ ├── image_key (4840,)
│ ├── image_key_control (4840,)
│ └── rotation_angle (4840,)
├── end_time ()
├── instrument
│ │
│ ├── beam
│ │ └── incident_energy ()
│ ├── detector
│ │ │
│ │ ├── count_time (4840,)
│ │ ├── data (4840, 2160, 2560)
│ │ ├── distance ()
│ │ ├── estimated_cor_from_motor ()
│ │ ├── field_of_view ()
│ │ ├── image_key (4840,)
│ │ ├── image_key_control (4840,)
│ │ ├── tomo_n ()
│ │ ├── x_flipped ()
│ │ ├── x_pixel_size ()
│ │ ├── y_flipped ()
│ │ └── y_pixel_size ()
│ └── source
│ │
│ ├── name ()
│ ├── probe ()
│ └── type ()
├── sample
│ │
│ ├── name ()
│ ├── rotation_angle (4840,)
│ ├── x_translation (4840,)
│ ├── y_translation (4840,)
│ └── z_translation (4840,)
├── start_time ()
└── title ()
Deutsches Elektronen-Synchrotron (DESY) Petra III beamline P07 uses NeXus NXTomo definition to store data and meta-data in a HDF file. A meta-data reader is available at hdf reder
| Meta data name | Value | Units |
| /entry/beamline/experiment | microtomography | |
| /entry/beamline/name | P07 HEMS EH4 | |
| /entry/hardware/camera/bin | 1.0 | |
| /entry/hardware/camera/exptime | 120.0 | |
| /entry/hardware/camera/magnification | 5.040330410003662 | |
| /entry/hardware/camera/pixelsize | 0.006399999838322401 | |
| /entry/hardware/camera/resolution | 3.8918843269348145 | |
| /entry/hardware/camera/roi_height | 2151.0 | |
| /entry/hardware/camera/roi_width | 5120.0 | |
| /entry/hardware/camera/sensorsize_x | 5120 | |
| /entry/hardware/camera/sensorsize_y | 3840 | |
| /entry/scan/mode | 360.72 | |
| /entry/scan/n_angle | 501.0 | |
| /entry/scan/n_dark | 4.0 | |
| /entry/scan/n_ref | 5.0 | |
| /entry/scan/setup/o_ccd_dist | 799.9865 | |
| /entry/scan/setup/p07_energy | 67000.0 | |
| /entry/scan/setup/s_stage_x | 7.627620410546353 | |
| /entry/scan/setup/s_stage_z | -28.405404649222458 |
entry
│
├── beamline
│ │
│ ├── experiment (1,)
│ └── name (1,)
├── hardware
│ │
│ ├── P07_EH4_MAPPER
│ │ └── thermohygro_mapper
│ │ │
│ │ ├── Humidity
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── Pressure
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ └── Temperature
│ │ │
│ │ ├── time (149,)
│ │ └── value (149,)
│ ├── P07_EH4_TOMO
│ │ └── thermohygro_tomo
│ │ │
│ │ ├── Humidity
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── Pressure
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ └── Temperature
│ │ │
│ │ ├── time (149,)
│ │ └── value (149,)
│ ├── P07_Frontend
│ │ │
│ │ ├── gap
│ │ │ └── Gap
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── pr_slit1_vgap
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── pr_slit1_voffset
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── pr_slit2_hleft
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── pr_slit2_hright
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── pr_slit2_vgap
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── pr_slit2_voffset
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── shutter_x
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ └── shutter_z
│ │ └── Position
│ │ │
│ │ ├── time (149,)
│ │ └── value (149,)
│ ├── P07_OH1
│ │ │
│ │ ├── dcm_1st_bend
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── dcm_1st_pitch
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── dcm_1st_roll
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── dcm_1st_yaw
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── dcm_2nd_bend
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── dcm_2nd_lateral
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── dcm_2nd_longitudinal
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── dcm_2nd_pitch
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── dcm_2nd_roll
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── dcm_2nd_yaw
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_IntMon_Motor
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_lat1
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_lat2
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_pitch1_rx
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_pitch2_rx
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_roll1_ry
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_roll2_ry
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_vert1
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_vert2
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_yaw1_rz
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── oh1_LT_yaw2_rz
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── sbm_lateral
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── sbm_pitch
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── sbm_roll
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ └── sbm_yaw
│ │ └── Position
│ │ │
│ │ ├── time (149,)
│ │ └── value (149,)
│ ├── P07_OH3_EH3
│ │ │
│ │ ├── slit_tomo_bottom
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── slit_tomo_left
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ ├── slit_tomo_right
│ │ │ └── Position
│ │ │ │
│ │ │ ├── time (149,)
│ │ │ └── value (149,)
│ │ └── slit_tomo_top
│ │ └── Position
│ │ │
│ │ ├── time (149,)
│ │ └── value (149,)
│ ├── beam_current
│ │ └── current
│ │ │
│ │ ├── time (594,)
│ │ └── value (594,)
│ └── camera
│ │
│ ├── bin (1,)
│ ├── exptime (1,)
│ ├── magnification (1,)
│ ├── pixelsize (1,)
│ ├── resolution (1,)
│ ├── roi_height (1,)
│ ├── roi_width (1,)
│ ├── sensorsize_x (1,)
│ └── sensorsize_y (1,)
└── scan
│
├── data
│ │
│ ├── image_file
│ │ │
│ │ ├── time (515,)
│ │ └── value (515,)
│ ├── image_key
│ │ │
│ │ ├── time (515,)
│ │ └── value (515,)
│ ├── s_rot
│ │ │
│ │ ├── time (511,)
│ │ └── value (511,)
│ ├── s_stage_x
│ │ │
│ │ ├── time (511,)
│ │ └── value (511,)
│ └── s_stage_z
│ │
│ ├── time (501,)
│ └── value (501,)
├── mode (1,)
├── n_angle (1,)
├── n_dark (1,)
├── n_ref (1,)
└── setup
│
├── o_ccd_dist (1,)
├── p07_energy (1,)
├── s_stage_x (1,)
└── s_stage_z (1,)
Diamond Light Source uses NeXus NXTomo definition to store data and meta-data in a HDF file. A meta-data reader is available at hdf reder
| Meta data name | Value | Units |
| /entry1/before_scan/cam1/cam1_roll | -0.00300197 | |
| /entry1/before_scan/cam1/cam1_x | 140.56 | |
| /entry1/before_scan/cam1/cam1_z | -96.12984375 | |
| /entry1/before_scan/dcm1_cap_1/dcm1_cap_1 | 73.03 | |
| /entry1/before_scan/dcm1_cap_2/dcm1_cap_2 | 74.235 | |
| /entry1/before_scan/det_cfg/cam_adc_mode | One ADC | |
| /entry1/before_scan/det_cfg/cam_bin_x | 1 | |
| /entry1/before_scan/det_cfg/cam_bin_y | 1 | |
| /entry1/before_scan/det_cfg/cam_img_size_x | 2560 | |
| /entry1/before_scan/det_cfg/cam_img_size_y | 2160 | |
| /entry1/before_scan/det_cfg/cam_model | pco.edge | |
| /entry1/before_scan/det_cfg/cam_pixel_rate | 286000000 Hz | |
| /entry1/before_scan/det_cfg/cam_roi_min_x | 0 | |
| /entry1/before_scan/det_cfg/cam_roi_min_y | 0 | |
| /entry1/before_scan/det_cfg/cam_roi_size_x | 2560 | |
| /entry1/before_scan/det_cfg/cam_roi_size_y | 2160 | |
| /entry1/before_scan/det_cfg/cam_sensor_size_x | 2560 | |
| /entry1/before_scan/det_cfg/cam_sensor_size_y | 2160 | |
| /entry1/before_scan/det_cfg/cam_timestamp_mode | BCD+ASCII | |
| /entry1/before_scan/det_cfg/readout_time_sec | 0.011 | |
| /entry1/before_scan/f1 | clear | |
| /entry1/before_scan/f2 | clear | |
| /entry1/before_scan/flyscan_cfg/tomography_cmd | i12tomoFlyScan(closeShutterAfterScan=True, description=frame_M2, exposureTime=0.025, extraFlatsAtEnd=False, helical_axis_stage=None, imagesPerDark=20, imagesPerFlat=50, inBeamPosition=0.8, outOfBeamPosition=30.0, start=0.0, step=0.1, stop=180, vetoFlatsDarksAtStart=False, zebra3_cfg_fpath=/dls_sw/i12/epics/zebra/pilatus_flyscan_time_compare.zeb) | |
| /entry1/before_scan/flyscan_cfg/tomography_flyscan_det | flyScanDetector | |
| /entry1/before_scan/flyscan_cfg/tomography_flyscan_theta | zebraSM1 | |
| /entry1/before_scan/flyscan_cfg/tomography_shutter | eh1shtr | |
| /entry1/before_scan/flyscan_cfg/tomography_translation | ss1_x | |
| /entry1/before_scan/mc1_bragg/mc1_bragg | -937.60672678678 | |
| /entry1/before_scan/mc2/mc2_bragg | -956.60716546391 | |
| /entry1/before_scan/mc2/mc2_z | 1456.0001347856 | |
| /entry1/before_scan/mc2_bragg/mc2_bragg | -956.60716546391 | |
| /entry1/before_scan/s1/s1_bottom | -0.99995 | |
| /entry1/before_scan/s1/s1_in | -4.4989 | |
| /entry1/before_scan/s1/s1_out | 4.49955 | |
| /entry1/before_scan/s1/s1_t1 | 22.1 | |
| /entry1/before_scan/s1/s1_t2 | 21.6 | |
| /entry1/before_scan/s1/s1_top | 1.00005 | |
| /entry1/before_scan/s1/s1_xc | 0.000375 | |
| /entry1/before_scan/s1/s1_xs | 8.9985 | |
| /entry1/before_scan/s1/s1_yc | 5e-05 | |
| /entry1/before_scan/s1/s1_ys | 2.0 | |
| /entry1/before_scan/s2/s2_bottom | 47.045 | |
| /entry1/before_scan/s2/s2_in | -7.7895 | |
| /entry1/before_scan/s2/s2_out | 7.2105 | |
| /entry1/before_scan/s2/s2_top | 54.034 | |
| /entry1/before_scan/s2/s2_xc | 0.0 | |
| /entry1/before_scan/s2/s2_xs | 15.0 | |
| /entry1/before_scan/s2/s2_yc | 50.0 | |
| /entry1/before_scan/s2/s2_ys | 6.999 | |
| /entry1/before_scan/s3/s3_bottom | -1.0 | |
| /entry1/before_scan/s3/s3_in | -1.0 | |
| /entry1/before_scan/s3/s3_out | 1.0 | |
| /entry1/before_scan/s3/s3_top | 1.0 | |
| /entry1/before_scan/s3/s3_xc | 0.0 | |
| /entry1/before_scan/s3/s3_xs | 2.0 | |
| /entry1/before_scan/s3/s3_y | -150.0 | |
| /entry1/before_scan/s3/s3_yc | 0.0 | |
| /entry1/before_scan/s3/s3_ys | 2.0 | |
| /entry1/before_scan/ss1/ss1_phi | 0.000135 | |
| /entry1/before_scan/ss1/ss1_rx | 0.001172834396 | |
| /entry1/before_scan/ss1/ss1_rz | -0.01147762649 | |
| /entry1/before_scan/ss1/ss1_theta | 0.0 | |
| /entry1/before_scan/ss1/ss1_tx | 0.1 | |
| /entry1/before_scan/ss1/ss1_tz | -2.7 | |
| /entry1/before_scan/ss1/ss1_x | 0.8 | |
| /entry1/before_scan/ss1/ss1_y1 | 48.9986 | |
| /entry1/before_scan/ss1/ss1_y2 | -0.0001 | |
| /entry1/before_scan/ss1/ss1_y3 | 13.4 | |
| /entry1/before_scan/ss2/ss2_rx | 0.0 | |
| /entry1/before_scan/ss2/ss2_theta | -0.003000000026 | |
| /entry1/before_scan/ss2/ss2_x | -0.003001199802 | |
| /entry1/before_scan/ss2/ss2_y | -400.001007080078 | |
| /entry1/before_scan/ss2/ss2_z | -0.001000000047 | |
| /entry1/before_scan/t3/t3_m1y | 40.096 | |
| /entry1/before_scan/t3/t3_m1z | 1000.00078125 | |
| /entry1/before_scan/t3/t3_m2y | 50.998 | |
| /entry1/before_scan/t3/t3_m2z | 1399.9995 | |
| /entry1/before_scan/t3/t3_m3rx | 0.0 | |
| /entry1/before_scan/t3/t3_m3ry | 45.0 | |
| /entry1/before_scan/t3/t3_m3rz | 0.0 | |
| /entry1/before_scan/t3/t3_m3y | -0.025 | |
| /entry1/before_scan/t3/t3_m3z | 1549.99918125 | |
| /entry1/before_scan/t3/t3_m4rx | 1.19998 | |
| /entry1/before_scan/t3/t3_m4ry | -0.40002 | |
| /entry1/before_scan/t3/t3_m4x | 95.147 | |
| /entry1/before_scan/t3/t3_m4y | 8.9 | |
| /entry1/before_scan/t3/t3_x | 1349.393 | |
| /entry1/before_scan/t7/t7_m1z | 1200.0 | |
| /entry1/before_scan/t7/t7_m2rx | 0.324 | |
| /entry1/before_scan/t7/t7_m2ry | 0.87496875 | |
| /entry1/before_scan/t7/t7_m2x | -23.901 | |
| /entry1/before_scan/t7/t7_m2y | -11.053 | |
| /entry1/before_scan/t7/t7_m2z | -0.5 | |
| /entry1/before_scan/t7/t7_m3rx | 0.0 | |
| /entry1/before_scan/t7/t7_m3ry | 0.0 | |
| /entry1/before_scan/t7/t7_m3rz | 0.0 | |
| /entry1/before_scan/t7/t7_m3z | 1331.0 | |
| /entry1/before_scan/t7/t7_x | -0.008 | |
| /entry1/before_scan/t7/t7_y | 42.977 | |
| /entry1/end_time | 2022-05-09T19:40:22.244627+01:00 | |
| /entry1/entry_identifier | 110809 | |
| /entry1/experiment_identifier | cm31132-2 | |
| /entry1/instrument/flyScanDetector/local_name | flyScanDetector | |
| /entry1/instrument/name | i12 | |
| /entry1/instrument/source/current | 298.1787 | mA |
| /entry1/instrument/source/energy | 3.0009 | GeV |
| /entry1/instrument/source/name | DLS | |
| /entry1/instrument/source/probe | x-ray | |
| /entry1/instrument/source/type | Synchrotron X-Ray Source | |
| /entry1/program_name | GDA 9.20.0 | |
| /entry1/scan_command | scan zebraSM1 (0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0, 0.0) image_key zebraContinuousMoveController flyScanDetector 0.025 | |
| /entry1/scan_dimensions | 1871 | |
| /entry1/scan_identifier | 207a99a0-fe96-4db3-9611-796b9eb06719 | |
| /entry1/start_time | 2022-05-09T19:38:44.223666+01:00 | |
| /entry1/title | frame_M2 | |
| /entry1/tomo_entry/definition | NXtomo | |
| /entry1/tomo_entry/instrument/detector/distance | nan undefined | |
| /entry1/tomo_entry/instrument/detector/x_pixel_size | nan undefined | |
| /entry1/tomo_entry/instrument/detector/x_rotation_axis_pixel_position | nan pixel | |
| /entry1/tomo_entry/instrument/detector/y_pixel_size | nan undefined | |
| /entry1/tomo_entry/instrument/detector/y_rotation_axis_pixel_position | nan pixel | |
| /entry1/user01/username | lpq70547 |
entry1
│
├── before_scan
│ │
│ ├── cam1
│ │ │
│ │ ├── cam1_roll ()
│ │ ├── cam1_x ()
│ │ └── cam1_z ()
│ ├── dcm1_cap_1
│ │ └── dcm1_cap_1 ()
│ ├── dcm1_cap_2
│ │ └── dcm1_cap_2 ()
│ ├── det_cfg
│ │ │
│ │ ├── cam_adc_mode ()
│ │ ├── cam_bin_x ()
│ │ ├── cam_bin_y ()
│ │ ├── cam_img_size_x ()
│ │ ├── cam_img_size_y ()
│ │ ├── cam_model ()
│ │ ├── cam_pixel_rate ()
│ │ ├── cam_roi_min_x ()
│ │ ├── cam_roi_min_y ()
│ │ ├── cam_roi_size_x ()
│ │ ├── cam_roi_size_y ()
│ │ ├── cam_sensor_size_x ()
│ │ ├── cam_sensor_size_y ()
│ │ ├── cam_timestamp_mode ()
│ │ └── readout_time_sec ()
│ ├── f1 (1,)
│ ├── f2 (1,)
│ ├── flyscan_cfg
│ │ │
│ │ ├── tomography_cmd ()
│ │ ├── tomography_flyscan_det ()
│ │ ├── tomography_flyscan_theta ()
│ │ ├── tomography_shutter ()
│ │ └── tomography_translation ()
│ ├── mc1_bragg
│ │ └── mc1_bragg ()
│ ├── mc2
│ │ │
│ │ ├── mc2_bragg ()
│ │ └── mc2_z ()
│ ├── mc2_bragg
│ │ └── mc2_bragg ()
│ ├── s1
│ │ │
│ │ ├── s1_bottom ()
│ │ ├── s1_in ()
│ │ ├── s1_out ()
│ │ ├── s1_t1 ()
│ │ ├── s1_t2 ()
│ │ ├── s1_top ()
│ │ ├── s1_xc ()
│ │ ├── s1_xs ()
│ │ ├── s1_yc ()
│ │ └── s1_ys ()
│ ├── s2
│ │ │
│ │ ├── s2_bottom ()
│ │ ├── s2_in ()
│ │ ├── s2_out ()
│ │ ├── s2_top ()
│ │ ├── s2_xc ()
│ │ ├── s2_xs ()
│ │ ├── s2_yc ()
│ │ └── s2_ys ()
│ ├── s3
│ │ │
│ │ ├── s3_bottom ()
│ │ ├── s3_in ()
│ │ ├── s3_out ()
│ │ ├── s3_top ()
│ │ ├── s3_xc ()
│ │ ├── s3_xs ()
│ │ ├── s3_y ()
│ │ ├── s3_yc ()
│ │ └── s3_ys ()
│ ├── ss1
│ │ │
│ │ ├── ss1_phi ()
│ │ ├── ss1_rx ()
│ │ ├── ss1_rz ()
│ │ ├── ss1_theta ()
│ │ ├── ss1_tx ()
│ │ ├── ss1_tz ()
│ │ ├── ss1_x ()
│ │ ├── ss1_y1 ()
│ │ ├── ss1_y2 ()
│ │ └── ss1_y3 ()
│ ├── ss2
│ │ │
│ │ ├── ss2_rx ()
│ │ ├── ss2_theta ()
│ │ ├── ss2_x ()
│ │ ├── ss2_y ()
│ │ └── ss2_z ()
│ ├── t3
│ │ │
│ │ ├── t3_m1y ()
│ │ ├── t3_m1z ()
│ │ ├── t3_m2y ()
│ │ ├── t3_m2z ()
│ │ ├── t3_m3rx ()
│ │ ├── t3_m3ry ()
│ │ ├── t3_m3rz ()
│ │ ├── t3_m3y ()
│ │ ├── t3_m3z ()
│ │ ├── t3_m4rx ()
│ │ ├── t3_m4ry ()
│ │ ├── t3_m4x ()
│ │ ├── t3_m4y ()
│ │ └── t3_x ()
│ └── t7
│ │
│ ├── t7_m1z ()
│ ├── t7_m2rx ()
│ ├── t7_m2ry ()
│ ├── t7_m2x ()
│ ├── t7_m2y ()
│ ├── t7_m2z ()
│ ├── t7_m3rx ()
│ ├── t7_m3ry ()
│ ├── t7_m3rz ()
│ ├── t7_m3z ()
│ ├── t7_x ()
│ └── t7_y ()
├── end_time (1,)
├── entry_identifier ()
├── experiment_identifier ()
├── flyScanDetector
│ │
│ ├── CaptureTime (1871,)
│ ├── data (1871, 2160, 2560)
│ ├── image_key (1871,)
│ └── zebraSM1 (1871,)
├── instrument
│ │
│ ├── flyScanDetector
│ │ │
│ │ ├── count_time (1871,)
│ │ ├── data (1871, 2160, 2560)
│ │ └── local_name ()
│ ├── image_key
│ │ └── image_key (1871,)
│ ├── name ()
│ ├── source
│ │ │
│ │ ├── current ()
│ │ ├── energy ()
│ │ ├── name ()
│ │ ├── probe ()
│ │ └── type ()
│ ├── zebraContinuousMoveController
│ │ └── CaptureTime (1871,)
│ └── zebraSM1
│ └── zebraSM1 (1871,)
├── program_name ()
├── scan_command ()
├── scan_dimensions (1,)
├── scan_identifier ()
├── start_time ()
├── title ()
├── tomo_entry
│ │
│ ├── control
│ │ └── data ()
│ ├── data
│ │ │
│ │ ├── data (1871, 2160, 2560)
│ │ └── rotation_angle (1871,)
│ ├── definition ()
│ ├── instrument
│ │ │
│ │ ├── detector
│ │ │ │
│ │ │ ├── data (1871, 2160, 2560)
│ │ │ ├── distance ()
│ │ │ ├── image_key (1871,)
│ │ │ ├── x_pixel_size ()
│ │ │ ├── x_rotation_axis_pixel_position ()
│ │ │ ├── y_pixel_size ()
│ │ │ └── y_rotation_axis_pixel_position ()
│ │ └── source
│ │ │
│ │ ├── current ()
│ │ ├── energy ()
│ │ ├── name ()
│ │ ├── probe ()
│ │ └── type ()
│ ├── sample
│ │ │
│ │ ├── rotation_angle (1871,)
│ │ ├── x_translation ()
│ │ ├── y_translation ()
│ │ └── z_translation ()
│ └── title ()
└── user01
└── username ()
The Tomcat beamline at the Swiss Light Source (SLS) at the Paul Scherrer Institut meta-data are reported below:
| Meta data name | Value |
| sample_name | Blakely |
| experimenter_name | Federica Marone |
| experimenter_affiliation | Swiss Light Source |
| experimenter_email | federica.marone@psi.ch |
| instrument_name | TOMCAT microCT |
| source_name | SLS |
| source_beamline | TOMCAT |
| source_current | 401.096 |
| source_current_unit | mA |
| sample_name | /sls/X02DA/data/e11218/Data20/disk3/sample_name |
| detector_name | N/A |
| objective_magnification | 10x |
| scintillator_name | LAG 20mu |
| detector_exposure_time | 170 |
| detector_exposure_time_unit | ms |
| monochromator_mono_stripe | Ru/C |
| monochromator_energy | 19.260 |
| monochromator_energy_unit | keV |
| start_date | 2010-11-08T13:51:56Z |
| number_of_projections | 1441 |
| number_of_darks | 20 |
| number_of_flats | 200 |
| sample_in | 0 |
| sample_in_unit | deg |
| sample_out | 3000 |
| sample_out_unit | deg |
| start_angle | 0 |
| start_angle_unit | deg |
| end_angle | 180 |
| end_angle_unit | deg |
| angular_step | 0.125 |
| angular_step_unit | deg |
| sample_x | 66.60 |
| sample_y | 4382.00 |
| sample_z | 5506.00 |
| sample_xx | -810.12 |
| sample_zz | 1612.80 |
{
"accessGroups": [
"slstomcat",
"p19555"
],
"classification": "IN=medium,AV=low,CO=low",
"contactEmail": "ElseMarie.Friis@nrm.se, peter.crane@yale.edu, krp@geo.au.dk",
"createdAt": "2023-03-02T16:19:26.096Z",
"createdBy": "slstomcat",
"creationTime": "2023-02-23T22:59:34.782Z",
"datasetName": "S266379\_10x\_",
"datasetlifecycle": {
"archivable": false,
"archiveRetentionTime": "2033-03-02T00:00:00.000Z",
"archiveStatusMessage": "datasetOnArchiveDisk",
"dateOfPublishing": "2026-03-02T00:00:00.000Z",
"isOnCentralDisk": true,
"publishable": false,
"publishedOn": "2023-07-10T14:14:21.940Z",
"retrievable": true,
"retrieveIntegrityCheck": false,
"retrieveStatusMessage": ""
},
"description": "SRXTM insights into major evolutionary transitions",
"history": [
{
"datasetlifecycle": {
"currentValue": {
"archivable": "false",
"archiveStatusMessage": "started",
"retrievable": "false"
},
"previousValue": {
"archivable": false,
"archiveRetentionTime": "2033-03-02T00:00:00.000Z",
"archiveStatusMessage": "scheduledForArchiving",
"dateOfPublishing": "2026-03-02T00:00:00.000Z",
"isOnCentralDisk": true,
"publishable": false,
"retrievable": false,
"retrieveIntegrityCheck": false,
"retrieveStatusMessage": ""
}
},
"id": "e8553257-c37c-4b39-922a-0c83a35c3c39",
"updatedAt": "2023-03-02T19:36:05.542Z",
"updatedBy": "archiveManager"
},
{
"datasetlifecycle": {
"currentValue": {
"archivable": "false",
"archiveStatusMessage": "datasetOnArchiveDisk",
"retrievable": "true"
},
"previousValue": {
"archivable": false,
"archiveRetentionTime": "2033-03-02T00:00:00.000Z",
"archiveStatusMessage": "started",
"dateOfPublishing": "2026-03-02T00:00:00.000Z",
"isOnCentralDisk": true,
"publishable": false,
"retrievable": false,
"retrieveIntegrityCheck": false,
"retrieveStatusMessage": ""
}
},
"id": "cb9a2fe8-009a-4088-81b4-755180088dd8",
"updatedAt": "2023-03-02T19:43:36.763Z",
"updatedBy": "archiveManager"
},
{
"datasetlifecycle": {
"currentValue": {
"publishedOn": "2023-07-10T14:14:21.940Z"
},
"previousValue": {
"archivable": false,
"archiveRetentionTime": "2033-03-02T00:00:00.000Z",
"archiveStatusMessage": "datasetOnArchiveDisk",
"dateOfPublishing": "2026-03-02T00:00:00.000Z",
"isOnCentralDisk": true,
"publishable": false,
"retrievable": true,
"retrieveIntegrityCheck": false,
"retrieveStatusMessage": ""
}
},
"id": "12fb47ee-5129-47e9-8540-daa925411764",
"isPublished": {
"currentValue": true,
"previousValue": false
},
"updatedAt": "2023-07-10T14:14:21.945Z",
"updatedBy": "anonymous"
}
],
"inputDatasets": [
"20.500.11935/9e9db9ec-413a-4dcf-8b43-bb6a7663a902"
],
"investigator": "ElseMarie.Friis@nrm.se, peter.crane@yale.edu, krp@geo.au.dk",
"isPublished": true,
"license": "CC BY-SA 4.0",
"numberOfFiles": 2161,
"numberOfFilesArchived": 2162,
"owner": "Else Marie Friis, Peter R. Crane, Kaj Raunsgaard Pedersen",
"ownerEmail": "ElseMarie.Friis@nrm.se, peter.crane@yale.edu, krp@geo.au.dk",
"ownerGroup": "p19555",
"packedSize": 5276518400,
"pid": "20.500.11935/c8fae0ad-270b-46d9-9daf-38fe625f4073",
"scientificMetadata": {
"beamlineParameters": {
"Beam energy": {
"u": "keV",
"unitSI": "(kg m^2) / s^2",
"v": 10,
"valueSI": 1.602176565e-15
},
"FE-Filter": "No Filter 100%",
"Monostripe": "Ru/C",
"OP-Filter1": "No Filter",
"OP-Filter2": "No Filter",
"OP-Filter3": "No Filter",
"Ring current": {
"u": "mA",
"unitSI": "A",
"v": 401.409,
"valueSI": 0.401409
}
},
"detectorParameters": {
"Actual pixel size": {
"u": "um",
"unitSI": "m",
"v": 0.65,
"valueSI": 6.5e-07
},
"Camera": "PCO.Edge 5.5",
"Delay time": {
"u": "ms",
"unitSI": "s",
"v": 0,
"valueSI": 0
},
"Exposure time": {
"u": "ms",
"unitSI": "s",
"v": 150,
"valueSI": 0.15
},
"Microscope": "Opt.Peter MB op",
"Microscope x position": {
"u": "mm",
"unitSI": "m",
"v": 138.26,
"valueSI": 0.13826
},
"Microscope y position": {
"u": "mm",
"unitSI": "m",
"v": -23.71,
"valueSI": -0.023710000000000002
},
"Microscope z position": {
"u": "mm",
"unitSI": "m",
"v": 52,
"valueSI": 0.052000000000000005
},
"Millisecond shutter": "not used",
"Objective": 10,
"Scintillator": "LuAg:Ce 20um (C20-76)",
"X-ROI End": 2560,
"X-ROI Start": 1,
"Y-ROI End": 2160,
"Y-ROI Start": 1
},
"postProcessingParameters": [
{
"commandLineArgument": {
"angle": "0",
"angleShift": 0,
"anglesFile": "",
"axisPositionIn2piScan": "",
"binSize": "1,1",
"centerOfRotation": "1231.2",
"corBandParams": "0.125,0.5,0.5,0.875",
"correctionOnly": false,
"correctionType": 7,
"createMissing": true,
"cutoff": "0.5",
"darkMedian": false,
"decompositionLevel": "0:0",
"differenceInStandardDeviation": 0,
"doFBPA": false,
"doNotCropReconstructions": false,
"doSimulateImages": false,
"doTestRun": false,
"filter": "parz",
"firstIndex": 1,
"flatMedian": false,
"geometry": "6",
"gridRecRoiParameters": "726,198,1838,2390",
"imageSize": "",
"inputSource": "/sls/X02DA/Data10/e19555/disk2/S266379_10x_/S266379_10x_.h5",
"inputType": "2",
"jsonFile": false,
"jsonMetaDataFile": "",
"keepSinograms": "0",
"logFile": "/sls/X02DA/data/e19555/Data10/disk2/S266379_10x_/S266379_10x_.log",
"maxRingWidth": 0,
"maxTif": "2.622e-03",
"mbaFilterParams": "",
"minTif": " -2.594e-03",
"moosmannFilterParams": "",
"numberOfGPUs": 0,
"pSWF_LUT_length": 0,
"paganinFilterParams": "",
"pathToPixelmaskFile": "",
"preFlatsOnly": false,
"prefix": "S266379_10x_",
"pswf": 0,
"recOnlySelect": "0,0",
"recOutputDir": "",
"reconstruct": "abs",
"ringRemoval": "0",
"roiParameters": "0,0,0,0",
"scaleImageFactor": 1,
"scanparameters": "1500,10,100,0,0",
"senderReceiverRatio": "8",
"separateAngles": "/sls/X02DA/data/e19555/Data10/disk2/S266379_10x_/S266379_10x_.h5",
"separateCorrection": "",
"shiftCorrection": false,
"sigmaInGaussFilter": "0",
"sinogramDirectory": "/sls/X02DA/Data10/e19555/disk2/S266379_10x_/sin",
"skipPiProj": true,
"stepLines": 1,
"stitching": "N",
"stripeOrientation": "v",
"stripeRemoval": "",
"thresholdInZinger": 0.95,
"tifConversionType": "8",
"underSampleSinoFactor": 1,
"verbose": 0,
"waveletPaddingMode": "0",
"waveletType": "0",
"widthOfSmoothingKernel": 9,
"zeroPadding": "0.5",
"zinger": ""
},
"gitRepositoryLink": "f9e3d5f356f014a4d55c53901f2ba9c5dbdea97e",
"postProcessingTimestamp": "2023-02-23T22:59:34.782Z"
}
],
"scanParameters": {
"Angular step": {
"u": "deg",
"unitSI": "rad",
"v": 0.12,
"valueSI": 0.0020943951023931952
},
"File Prefix": "S266379_10x_",
"Flat frequency": 0,
"Number of darks": 10,
"Number of flats": 100,
"Number of inter-flats": 0,
"Number of projections": 1500,
"Raw Source": "/sls/X02DA/Data10/e19555/disk2/S266379_10x_/",
"Rot Y max position": {
"u": "deg",
"unitSI": "rad",
"v": 180,
"valueSI": 3.141592653589793
},
"Rot Y min position": {
"u": "deg",
"unitSI": "rad",
"v": 0,
"valueSI": 0
},
"Rotation axis position": "Standard",
"Sample In": {
"u": "um",
"unitSI": "m",
"v": 0,
"valueSI": 0
},
"Sample Out": {
"u": "um",
"unitSI": "m",
"v": 5000,
"valueSI": 0.005
},
"Sample folder": "/sls/X02DA/data/e19555/Data10/disk2/S266379_10x_/",
"Sample holder X-position": {
"u": "um",
"unitSI": "m",
"v": 7835.4,
"valueSI": 0.0078354
},
"Sample holder Y-position": {
"u": "um",
"unitSI": "m",
"v": 2560.1,
"valueSI": 0.0025600999999999996
}
}
},
"size": 5272583164,
"sourceFolder": "/sls/X02DA/Data10/e19555/disk2/S266379_10x_/rec_8bit_abs",
"sourceFolderHost": "x02da-cons-bl-9.psi.ch",
"techniques": [],
"type": "derived",
"updatedAt": "2023-07-10T14:14:23.015Z",
"updatedBy": "anonymous",
"usedSoftware": [
"Schindelin, J.; Arganda-Carreras, I. & Frise, E. et al. (2012), \"Fiji: an open-source platform for biological-image analysis\", Nature methods 9(7): 676-682, PMID 22743772, doi:10.1038/nmeth.2019",
"Marone, F. et al. (2017), \"Towards on-the-fly data post-processing for real-time tomographic imaging at TOMCAT\", Advanced Structural and Chemical Imaging 3(1): 1, doi:10.1186/s40679-016-0035-9"
],
"version": "3.1.0"
}