Write image orientation to MRD file

[h3lg3]

The raw_data/kspace orientation is based on the channel assignment for RO, PE1 and PE2 gradients of the PyPulseq sequence. This information is written to the MRD file, such that during later image reconstruction, the image can be properly saved to DICOM or Nifti using the correct orientation.
A remaining issue might be that the implemented mapping from console channel to physical orientation depends on the cabling of the console and can vary between different setups. One could add the "console-channel - physical gradient" mapping to the system configuration "system_info" in

nexus-console/src/console/interfaces/acquisition_data.py

Line 177 in 4d84571

system_info = get_nexus_acquisition_system(

Also note that the proposed change adds a new parameter to write_acquisition_to_mrd why the tests currently fail.

[github-actions]

Coverage Report

File	Stmts	Miss	Cover	Missing
src/console
__init__.py	10	1	90%	11
src/console/interfaces
acquisition_data.py	123	25	80%	96–99, 110–111, 129–130, 145–148, 158–159, 188–189, 193–199, 216–217, 228, 232, 250
acquisition_parameter.py	107	4	96%	126, 163, 178, 213
device_configuration.py	72	10	86%	34–36, 38, 46–47, 55–56, 83–85, 87
dimensions.py	96	22	77%	45–46, 67–68, 71, 79, 89, 95, 101, 107, 113–115, 125–127, 137–139, 149–151
rx_data.py	79	14	82%	66–70, 78, 90, 94, 96, 104, 115, 123, 126, 129
src/console/pulseq_interpreter
sequence_provider.py	287	50	83%	155, 160, 174–176, 307–308, 395–396, 475–518, 551, 601–602, 671, 696–697, 713, 722, 726
src/console/spcm_control
abstract_device.py	79	79	0%	2–149
acquisition_control.py	146	146	0%	3–342
rx_device.py	205	205	0%	2–484
tx_device.py	179	179	0%	2–468
src/console/spcm_control/spcm
pyspcm.py	161	161	0%	3–295
tools.py	54	54	0%	3–128
src/console/utilities
json_encoder.py	8	3	62%	22–24
load_configuration.py	20	6	70%	18–20, 28–30
plot.py	17	17	0%	2–26
src/console/utilities/data
mrd_helper.py	43	8	81%	37, 43, 49, 52, 60, 63, 68, 71
write_acquisition_to_mrd.py	52	5	90%	69–70, 89, 107, 112
src/console/utilities/sequences/calibration
fid_tx_adjust.py	22	1	95%	66
se_tx_adjust.py	29	2	93%	62–64
src/console/utilities/sequences/spectrometry
fid.py	15	15	0%	2–75
se_spectrum.py	25	2	92%	51, 85
src/console/utilities/sequences/tse
tse_3d.py	241	75	69%	108–109, 111–112, 114–115, 122–123, 125–127, 129–132, 143–146, 151–154, 161–172, 189, 211–218, 224, 255, 318–335, 342–343, 410, 413–425, 533–544
TOTAL	5322	1084	80%

Tests	Skipped	Failures	Errors	Time
190	0 💤	6 ❌	0 🔥	15.355s ⏱️