Felix Hoffstaedter
4cb7bac1ca
=== Do not change lines below ===
{
"chain": [],
"cmd": "singularity exec -B {pwd} --cleanenv code/repronim_containers/images/bids/bids-mriqc--24.0.2.sing /singularity inputs/ds005479 MRIQC participant --participant-label sub-23 --no-datalad-get --notrack --no-sub --verbose --nprocs 1 --mem 3000 --work-dir /tmp --float32 --verbose-reports",
"dsid": "e162781a-4517-445d-ac1b-a1b80f4e35a6",
"exit": 0,
"extra_inputs": [
"code/repronim_containers/images/bids/bids-mriqc--24.0.2.sing"
],
"inputs": [
"inputs/ds005479/sub-23"
],
"outputs": [
"MRIQC"
],
"pwd": "."
}
^^^ Do not change lines above ^^^
177 lines
4.7 KiB
JSON
177 lines
4.7 KiB
JSON
{
|
|
"bids_meta": {
|
|
"AcquisitionMatrixPE": 240,
|
|
"AcquisitionNumber": 1,
|
|
"AcquisitionTime": "16:13:28.937500",
|
|
"BaseResolution": 256,
|
|
"BodyPartExamined": "BRAIN",
|
|
"CoilCombinationMethod": "Adaptive Combine",
|
|
"CoilString": "Head_32",
|
|
"ConversionSoftware": "dcm2niix",
|
|
"ConversionSoftwareVersion": "v1.0.20220720",
|
|
"DeviceSerialNumber": "167119",
|
|
"DwellTime": 8.1e-6,
|
|
"EchoTime": 0.00296,
|
|
"FileSize": 0.00935176108032465,
|
|
"FileSizeUnits": "GB",
|
|
"FlipAngle": 9,
|
|
"ImageOrientationPatientDICOM": [
|
|
0.0277779,
|
|
0.953964,
|
|
0.298632,
|
|
0.0823586,
|
|
0.295547,
|
|
-0.951771
|
|
],
|
|
"ImageType": [
|
|
"ORIGINAL",
|
|
"PRIMARY",
|
|
"M",
|
|
"NONE"
|
|
],
|
|
"ImageTypeText": [
|
|
"ORIGINAL",
|
|
"PRIMARY",
|
|
"M",
|
|
"NORM",
|
|
"DIS3D",
|
|
"DIS2D"
|
|
],
|
|
"ImagingFrequency": 123.239,
|
|
"InPlanePhaseEncodingDirectionDICOM": "ROW",
|
|
"InstitutionAddress": "Pasteura 3,Warszawa,District,PL,02093",
|
|
"InstitutionName": "Instytut Biologii Doswiadczalnej",
|
|
"InversionTime": 0.9,
|
|
"MRAcquisitionType": "3D",
|
|
"MTState": false,
|
|
"MagneticFieldStrength": 3,
|
|
"Manufacturer": "Siemens",
|
|
"ManufacturersModelName": "MAGNETOM Prisma Fit",
|
|
"MatrixCoilMode": "GRAPPA",
|
|
"Modality": "MR",
|
|
"NonlinearGradientCorrection": true,
|
|
"NumberOfVolumes": 1,
|
|
"ParallelAcquisitionTechnique": "GRAPPA",
|
|
"ParallelReductionFactorInPlane": 2,
|
|
"PartialFourier": 1,
|
|
"PatientPosition": "HFS",
|
|
"PercentPhaseFOV": 93.75,
|
|
"PercentSampling": 100,
|
|
"PhaseResolution": 1,
|
|
"PixelBandwidth": 241,
|
|
"ProcedureStepDescription": "Head32$ PS23a",
|
|
"ProtocolName": "anat_t1w",
|
|
"PulseSequenceDetails": "%SiemensSeq%\\tfl",
|
|
"PulseSequenceName": "*tfl3d1_16ns",
|
|
"ReceiveCoilActiveElements": "HEA;HEP",
|
|
"ReceiveCoilName": "Head_32",
|
|
"ReconMatrixPE": 240,
|
|
"RefLinesPE": 32,
|
|
"RepetitionTime": 2.3,
|
|
"ScanOptions": "IR",
|
|
"ScanningSequence": "GR\\IR",
|
|
"SequenceVariant": "SK\\SP\\MP",
|
|
"SeriesDescription": "anat_t1w",
|
|
"SeriesNumber": 5,
|
|
"ShimSetting": [
|
|
3083,
|
|
-11591,
|
|
6606,
|
|
38,
|
|
14,
|
|
-26,
|
|
-20,
|
|
-25
|
|
],
|
|
"SliceThickness": 1,
|
|
"SoftwareVersions": "syngo MR XA30",
|
|
"StationName": "AWP167119",
|
|
"TxRefAmp": 278.213,
|
|
"dataset": "<unset>",
|
|
"datatype": "anat",
|
|
"extension": ".nii.gz",
|
|
"modality": "T1w",
|
|
"subject": "23",
|
|
"suffix": "T1w"
|
|
},
|
|
"cjv": 0.5931643153526971,
|
|
"cnr": 1.7008192820094032,
|
|
"efc": 0.5837,
|
|
"fber": -1.0,
|
|
"fwhm_avg": 3.7747166666666665,
|
|
"fwhm_x": 3.78809,
|
|
"fwhm_y": 3.96997,
|
|
"fwhm_z": 3.56609,
|
|
"icvs_csf": 0.2651078383220664,
|
|
"icvs_gm": 0.38315538917098496,
|
|
"icvs_wm": 0.3517367725069486,
|
|
"inu_med": 0.5331812798976898,
|
|
"inu_range": 0.1978173226118088,
|
|
"provenance": {
|
|
"md5sum": "ceddb5029b6546f8fad6494488a09951",
|
|
"settings": {
|
|
"testing": false
|
|
},
|
|
"software": "mriqc",
|
|
"version": "24.1.0.dev0+gd5b13cb5.d20240826",
|
|
"warnings": {
|
|
"large_rot_frame": true,
|
|
"small_air_mask": false
|
|
}
|
|
},
|
|
"qi_1": 0.0,
|
|
"qi_2": 0.002659591974322465,
|
|
"rpve_csf": 7.591345200967653,
|
|
"rpve_gm": 7.503408740164201,
|
|
"rpve_wm": 7.608251038459096,
|
|
"size_x": 208,
|
|
"size_y": 240,
|
|
"size_z": 256,
|
|
"snr_csf": 2.4091224661665325,
|
|
"snr_gm": 6.291740467360892,
|
|
"snr_total": 6.685947059250071,
|
|
"snr_wm": 11.356978244222786,
|
|
"snrd_csf": 61.231247967558176,
|
|
"snrd_gm": 90.58176352225547,
|
|
"snrd_total": 90.96129605098001,
|
|
"snrd_wm": 121.0708766631264,
|
|
"spacing_x": 1.0,
|
|
"spacing_y": 1.0,
|
|
"spacing_z": 1.0,
|
|
"summary_bg_k": 13.8627,
|
|
"summary_bg_mad": 0.0,
|
|
"summary_bg_mean": 2.2304,
|
|
"summary_bg_median": 0.0,
|
|
"summary_bg_n": 3766905.0,
|
|
"summary_bg_p05": 0.0,
|
|
"summary_bg_p95": 14.0,
|
|
"summary_bg_stdv": 5.1785,
|
|
"summary_csf_k": 0.8345,
|
|
"summary_csf_mad": 133.4161,
|
|
"summary_csf_mean": 483.3329,
|
|
"summary_csf_median": 484.0,
|
|
"summary_csf_n": 439198.32360082073,
|
|
"summary_csf_p05": 154.0,
|
|
"summary_csf_p95": 792.0,
|
|
"summary_csf_stdv": 200.9028,
|
|
"summary_gm_k": -0.4422,
|
|
"summary_gm_mad": 79.7623,
|
|
"summary_gm_mean": 720.6396,
|
|
"summary_gm_median": 716.0,
|
|
"summary_gm_n": 634765.1041463367,
|
|
"summary_gm_p05": 539.0,
|
|
"summary_gm_p95": 933.0,
|
|
"summary_gm_stdv": 113.7999,
|
|
"summary_wm_k": 0.4825,
|
|
"summary_wm_mad": 63.1903,
|
|
"summary_wm_mean": 939.6727,
|
|
"summary_wm_median": 957.0,
|
|
"summary_wm_n": 582714.5731019175,
|
|
"summary_wm_p05": 774.0,
|
|
"summary_wm_p95": 1051.0,
|
|
"summary_wm_stdv": 84.2653,
|
|
"tpm_overlap_csf": 0.22685238740209165,
|
|
"tpm_overlap_gm": 0.5482982483769966,
|
|
"tpm_overlap_wm": 0.5550908418870041,
|
|
"wm2max": 0.47589335104423486
|
|
}
|