diff --git a/sub-01/ses-001/dwi/sub-01_ses-001_dir-AP_sbref.json b/sub-01/ses-001/dwi/sub-01_ses-001_dir-AP_sbref.json index 7b8650bf55..b35987e699 100644 --- a/sub-01/ses-001/dwi/sub-01_ses-001_dir-AP_sbref.json +++ b/sub-01/ses-001/dwi/sub-01_ses-001_dir-AP_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-001/dwi/sub-01_ses-001_dir-AP_dwi.nii.gz", + "ses-001/dwi/sub-01_ses-001_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-01/ses-001/dwi/sub-01_ses-001_dir-PA_sbref.json b/sub-01/ses-001/dwi/sub-01_ses-001_dir-PA_sbref.json index 35fdb11abf..67a91fbb41 100644 --- a/sub-01/ses-001/dwi/sub-01_ses-001_dir-PA_sbref.json +++ b/sub-01/ses-001/dwi/sub-01_ses-001_dir-PA_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-001/dwi/sub-01_ses-001_dir-AP_dwi.nii.gz", + "ses-001/dwi/sub-01_ses-001_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-AP_run-01_epi.json b/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 7b8650bf55..0000000000 --- a/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "16:39:19.602500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20190902", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "ImageComments": "Single-band_reference_SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.942057, -0.335452], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - 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"SoftwareVersions": "syngo_MR_E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 250.791, - "WipMemBlock": "74baba4c-30c8-41ec-8ccd-939ad18acf24||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 111.8072280883789], - [0.0, 1.8841148614883423, -0.6709031462669373, -76.4405517578125], - [0.0, 0.6709031462669373, 1.8841148614883423, -66.93142700195312], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "163919.602500", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - 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"PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_AP_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.14357112920808, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_AP_test_cmrr_SBRef", - "SeriesNumber": 6, - "SeriesTime": "164035.549000", - "SliceLocation": -37.411144900215, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999796375, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "162329.731000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9558.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21396.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-AP_run-01_epi.nii.gz b/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-AP_run-01_epi.nii.gz deleted file mode 120000 index a4cf142a3e..0000000000 --- a/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-AP_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/07/W4/MD5E-s1167290--7b45d0740b023ca1151ce812bc624927.nii.gz/MD5E-s1167290--7b45d0740b023ca1151ce812bc624927.nii.gz \ No newline at end of file diff --git a/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-PA_run-01_epi.json b/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-PA_run-01_epi.json deleted file mode 100644 index 35fdb11abf..0000000000 --- a/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-PA_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "16:43:29.012500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20190902", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "ImageComments": "Single-band_reference_SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.942057, -0.335452], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "neuromod_generic", - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%_cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.334, - "SAR": 0.143571, - "ScanOptions": "PFP_EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK_SS", - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "ShimSetting": [624, -7202, -8841, 629, 70, 22, 29, -33], - "SliceThickness": 2, - "SliceTiming": [0, 0.1225, 0.2425, 0.365, 0.4875, 0.6075, 0.73, 0.8525, 0.975, 1.095, 1.2175, 1.34, 1.46, 1.5825, 1.705, 1.8275, 1.9475, 2.07, 2.1925, 2.3125, 2.435, 2.5575, 2.68, 2.8, 2.9225, 3.045, 3.165, 3.2875, 3.41, 3.53, 3.6525, 3.775, 3.8975, 4.0175, 4.14, 4.2625, 4.3825, 4.505, 4.6275, 4.75, 4.87, 4.9925, 5.115, 5.235, 5.3575, 5.48, 5.6025, 5.7225, 5.845, 5.9675, 6.0875, 6.21, 6.3325, 6.455, 6.575, 6.6975, 6.82], - "SoftwareVersions": "syngo_MR_E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 250.791, - "WipMemBlock": "cb0f1e8a-c11f-4197-8ec9-7754a746988b||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 111.8072280883789], - [0.0, 1.8841148614883423, -0.6709031462669373, -76.4405517578125], - [0.0, 0.6709031462669373, 1.8841148614883423, -66.93142700195312], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "164329.012500", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - 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"PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.14357112920808, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "164440.016000", - "SliceLocation": -37.411144900215, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999796375, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "162329.731000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9561.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21299.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index b844b521a5..0000000000 --- a/sub-01/ses-001/fmap/sub-01_ses-001_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/1m/GX/MD5E-s1155536--3ceb97b5625b38aebd42f1c41c843d05.nii.gz/MD5E-s1155536--3ceb97b5625b38aebd42f1c41c843d05.nii.gz \ No newline at end of file diff --git a/sub-01/ses-001/sub-01_ses-001_scans.tsv b/sub-01/ses-001/sub-01_ses-001_scans.tsv index 4fec251d35..409ad5f7f5 120000 --- a/sub-01/ses-001/sub-01_ses-001_scans.tsv +++ b/sub-01/ses-001/sub-01_ses-001_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/jj/fm/MD5E-s2828--7118af35045fa40a402c6e8cbf8388dd.tsv/MD5E-s2828--7118af35045fa40a402c6e8cbf8388dd.tsv \ No newline at end of file +../../.git/annex/objects/Gk/jV/MD5E-s2650--3c7adc52bb210f41b235d191f629e998.tsv/MD5E-s2650--3c7adc52bb210f41b235d191f629e998.tsv \ No newline at end of file diff --git a/sub-01/ses-002/dwi/sub-01_ses-002_dir-AP_sbref.json b/sub-01/ses-002/dwi/sub-01_ses-002_dir-AP_sbref.json index 0beba3c73d..637555e7a8 100644 --- a/sub-01/ses-002/dwi/sub-01_ses-002_dir-AP_sbref.json +++ b/sub-01/ses-002/dwi/sub-01_ses-002_dir-AP_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-002/dwi/sub-01_ses-002_dir-AP_dwi.nii.gz", + "ses-002/dwi/sub-01_ses-002_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-01/ses-002/dwi/sub-01_ses-002_dir-PA_sbref.json b/sub-01/ses-002/dwi/sub-01_ses-002_dir-PA_sbref.json index 939f7aed0e..b33ac53502 100644 --- a/sub-01/ses-002/dwi/sub-01_ses-002_dir-PA_sbref.json +++ b/sub-01/ses-002/dwi/sub-01_ses-002_dir-PA_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-002/dwi/sub-01_ses-002_dir-AP_dwi.nii.gz", + "ses-002/dwi/sub-01_ses-002_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-01/ses-002/fmap/sub-01_ses-002_acq-sbref_dir-AP_run-01_epi.json b/sub-01/ses-002/fmap/sub-01_ses-002_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 0beba3c73d..0000000000 --- a/sub-01/ses-002/fmap/sub-01_ses-002_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - 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"PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.14941340655454, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "154658.218000", - "SliceLocation": -36.048875234735, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999342283, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "151607.177000", - "TransmitCoilName": "Body", - "TriggerTime": 1630.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9672.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21681.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-01/ses-002/fmap/sub-01_ses-002_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-01/ses-002/fmap/sub-01_ses-002_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 1a25be4d60..0000000000 --- a/sub-01/ses-002/fmap/sub-01_ses-002_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/p3/Gq/MD5E-s1156591--9ce71e6a4fa6a01241a580c0039147b5.nii.gz/MD5E-s1156591--9ce71e6a4fa6a01241a580c0039147b5.nii.gz \ No newline at end of file diff --git a/sub-01/ses-002/sub-01_ses-002_scans.tsv b/sub-01/ses-002/sub-01_ses-002_scans.tsv index 9470aafb9c..5d050326b9 120000 --- a/sub-01/ses-002/sub-01_ses-002_scans.tsv +++ b/sub-01/ses-002/sub-01_ses-002_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/02/p2/MD5E-s3416--b168f46852bdbc22545376635a679165.tsv/MD5E-s3416--b168f46852bdbc22545376635a679165.tsv \ No newline at end of file +../../.git/annex/objects/m6/MX/MD5E-s3238--ea9bc855936ebe76ccd602d0bba9e984.tsv/MD5E-s3238--ea9bc855936ebe76ccd602d0bba9e984.tsv \ No newline at end of file diff --git a/sub-01/ses-003/dwi/sub-01_ses-003_dir-AP_sbref.json b/sub-01/ses-003/dwi/sub-01_ses-003_dir-AP_sbref.json index 38989d4cc1..80f4f4b311 100644 --- a/sub-01/ses-003/dwi/sub-01_ses-003_dir-AP_sbref.json +++ b/sub-01/ses-003/dwi/sub-01_ses-003_dir-AP_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-003/dwi/sub-01_ses-003_dir-AP_dwi.nii.gz", + "ses-003/dwi/sub-01_ses-003_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-01/ses-003/dwi/sub-01_ses-003_dir-PA_sbref.json b/sub-01/ses-003/dwi/sub-01_ses-003_dir-PA_sbref.json index 8770b77a90..994041a2a1 100644 --- a/sub-01/ses-003/dwi/sub-01_ses-003_dir-PA_sbref.json +++ b/sub-01/ses-003/dwi/sub-01_ses-003_dir-PA_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-003/dwi/sub-01_ses-003_dir-AP_dwi.nii.gz", + "ses-003/dwi/sub-01_ses-003_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-01/ses-003/fmap/sub-01_ses-003_acq-sbref_dir-AP_run-01_epi.json b/sub-01/ses-003/fmap/sub-01_ses-003_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 38989d4cc1..0000000000 --- a/sub-01/ses-003/fmap/sub-01_ses-003_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "09:46:24.305000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.913545, -0.406737], - "ImageOrientationText": "Tra>Cor(-24.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - 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"SpacingBetweenSlices": 1.9999999672036, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "2", - "StudyTime": "092639.093000", - "TransmitCoilName": "Body", - "TriggerTime": 1620.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10172.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 23002.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-01/ses-008/fmap/sub-01_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-01/ses-008/fmap/sub-01_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index b60536cda6..0000000000 --- a/sub-01/ses-008/fmap/sub-01_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/jW/f9/MD5E-s1159815--f36834aabe3eecc809c51693b62d9c2f.nii.gz/MD5E-s1159815--f36834aabe3eecc809c51693b62d9c2f.nii.gz \ No newline at end of file diff --git a/sub-01/ses-009/dwi/sub-01_ses-009_dir-AP_sbref.json b/sub-01/ses-009/dwi/sub-01_ses-009_dir-AP_sbref.json index 4e031893e3..e60d26450c 100644 --- a/sub-01/ses-009/dwi/sub-01_ses-009_dir-AP_sbref.json +++ b/sub-01/ses-009/dwi/sub-01_ses-009_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-009/dwi/sub-01_ses-009_dir-AP_dwi.nii.gz", + "ses-009/dwi/sub-01_ses-009_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-01/ses-009/dwi/sub-01_ses-009_dir-PA_sbref.json b/sub-01/ses-009/dwi/sub-01_ses-009_dir-PA_sbref.json index 83ba95ffb1..269386d5d2 100644 --- a/sub-01/ses-009/dwi/sub-01_ses-009_dir-PA_sbref.json +++ b/sub-01/ses-009/dwi/sub-01_ses-009_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-009/dwi/sub-01_ses-009_dir-AP_dwi.nii.gz", + "ses-009/dwi/sub-01_ses-009_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-AP_run-01_epi.json b/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 4e031893e3..0000000000 --- a/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j-", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_AP_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.134221, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", - "SeriesNumber": 6, - "ShimSetting": [628, -7213, -8858, 661, 65, -17, -3, -3], - 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[0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "110209.722500", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "110311.260000", - "EchoNumbers": 1, - "EchoTime": 76.8, - "EchoTrainLength": 83, - "FlipAngle": 78.0, - "HighBit": 15, - "ImageOrientationPatient": [0.9975640525966, 0.06554961537792, -0.0238580990621, -0.0697564403267, 0.93740358271093, -0.3411869900123], - "ImagePositionPatient": [-817.02906020864, -911.68718559504, 287.00838947555], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagedNucleus": "1H", - "ImagingFrequency": 123.258859, - "InPlanePhaseEncodingDirection": "COL", - "InstanceCreationTime": "110311.260000", - "InstanceNumber": 1, - "LargestImagePixelValue": 65535, - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "103436.163000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir106_AP_test_cmrr", - "RepetitionTime": 2243.0, - "Rows": 880, - "SAR": 0.13422125090279, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", - "SeriesNumber": 6, - "SeriesTime": "110311.257000", - "SliceLocation": -42.11569831735, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999613459, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "103436.077000", - "TransmitCoilName": "Body", - "TriggerTime": 1622.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 7541.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 16442.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-AP_run-01_epi.nii.gz b/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-AP_run-01_epi.nii.gz deleted file mode 120000 index 92a5d8c3a2..0000000000 --- a/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-AP_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/PF/40/MD5E-s1124401--bedc1651c89409e73c4e60484e325e47.nii.gz/MD5E-s1124401--bedc1651c89409e73c4e60484e325e47.nii.gz \ No newline at end of file diff --git a/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-PA_run-01_epi.json b/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-PA_run-01_epi.json deleted file mode 100644 index 83ba95ffb1..0000000000 --- a/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-PA_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "11:06:30.160000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [0.997564, 0.0655496, -0.0238581, -0.0697564, 0.937404, -0.341187], - "ImageOrientationText": "Tra>Cor(-20.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.134221, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "ShimSetting": [628, -7213, -8858, 661, 65, -17, -3, -3], - "SliceThickness": 2, - "SliceTiming": [0, 0.115, 0.2325, 0.35, 0.4675, 0.585, 0.7, 0.8175, 0.935, 1.0525, 1.17, 1.285, 1.4025, 1.52, 1.6375, 1.755, 1.87, 1.9875, 2.105, 2.2225, 2.3375, 2.455, 2.5725, 2.69, 2.8075, 2.9225, 3.04, 3.1575, 3.275, 3.3925, 3.5075, 3.625, 3.7425, 3.86, 3.9775, 4.0925, 4.21, 4.3275, 4.445, 4.5625, 4.6775, 4.795, 4.9125, 5.03, 5.1475, 5.2625, 5.38, 5.4975, 5.615, 5.7325, 5.8475, 5.965, 6.0825, 6.2, 6.3175, 6.4325, 6.55], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 243.451, - "WipMemBlock": "c98c3cad-ea40-46ed-b9f4-2c52b6cf7434||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-1.9951281547546387, -0.13951288163661957, 1.685954309493809e-08, 117.82410430908203], - [-0.13109922409057617, 1.8748071193695068, -0.6840402483940125, -64.94075775146484], - [-0.04771619662642479, 0.6823740005493164, 1.879385232925415, -68.45509338378906], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "110630.160000", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "110731.481000", - "EchoNumbers": 1, - "EchoTime": 76.8, - "EchoTrainLength": 83, - "FlipAngle": 78.0, - "HighBit": 15, - "ImageOrientationPatient": [0.9975640525966, 0.06554961537792, -0.0238580990621, -0.0697564403267, 0.93740358271093, -0.3411869900123], - "ImagePositionPatient": [-817.02906020864, -911.68718559504, 287.00838947555], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagedNucleus": "1H", - "ImagingFrequency": 123.258865, - "InPlanePhaseEncodingDirection": "COL", - "InstanceCreationTime": "110731.481000", - "InstanceNumber": 1, - "LargestImagePixelValue": 64005, - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "103436.163000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "RepetitionTime": 2243.0, - "Rows": 880, - "SAR": 0.13422125090279, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "110731.477000", - "SliceLocation": -42.11569831735, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999613459, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "103436.077000", - "TransmitCoilName": "Body", - "TriggerTime": 1620.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 7502.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 16212.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 2730670672..0000000000 --- a/sub-01/ses-009/fmap/sub-01_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/p0/20/MD5E-s1112449--d1e5a69f8c443c2f1436e223ee1d12c4.nii.gz/MD5E-s1112449--d1e5a69f8c443c2f1436e223ee1d12c4.nii.gz \ No newline at end of file diff --git a/sub-01/ses-009/sub-01_ses-009_scans.tsv b/sub-01/ses-009/sub-01_ses-009_scans.tsv index 8687c102c9..5c6627991b 120000 --- a/sub-01/ses-009/sub-01_ses-009_scans.tsv +++ b/sub-01/ses-009/sub-01_ses-009_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/zJ/7X/MD5E-s3323--2d28a90933120050f6c2ca0faf27879a.tsv/MD5E-s3323--2d28a90933120050f6c2ca0faf27879a.tsv \ No newline at end of file +../../.git/annex/objects/q6/3w/MD5E-s3131--ab8cf88407ebe23ee913f928fd899fa8.tsv/MD5E-s3131--ab8cf88407ebe23ee913f928fd899fa8.tsv \ No newline at end of file diff --git a/sub-01/ses-010/dwi/sub-01_ses-010_dir-AP_part-phase_sbref.json b/sub-01/ses-010/dwi/sub-01_ses-010_dir-AP_part-phase_sbref.json index ce9fedda41..8098ce51b4 100644 --- a/sub-01/ses-010/dwi/sub-01_ses-010_dir-AP_part-phase_sbref.json +++ b/sub-01/ses-010/dwi/sub-01_ses-010_dir-AP_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.99863, - 0.0500491, - -0.0153015, - -0.052336, - 0.954994, - -0.291971 - ], + "ImageOrientationPatientDICOM": [0.99863, 0.0500491, -0.0153015, -0.052336, 0.954994, -0.291971], "ImageOrientationText": "Tra>Cor(-17.0)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,16 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-010/dwi/sub-01_ses-010_dir-AP_part-mag_dwi.nii.gz", + "ses-010/dwi/sub-01_ses-010_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +65,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", "SeriesNumber": 7, - "ShimSetting": [ - 629, - -7205, - -8828, - 598, - 114, - -31, - -44, - 10 - ], + "ShimSetting": [629, -7205, -8828, 598, 114, -31, -44, 10], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.3525, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.9375, - 1.0525, - 1.17, - 1.2875, - 1.405, - 1.5225, - 1.6375, - 1.755, - 1.8725, - 1.99, - 2.1075, - 2.2225, - 2.34, - 2.4575, - 2.575, - 2.6925, - 2.8075, - 2.925, - 3.0425, - 3.16, - 3.2775, - 3.3925, - 3.51, - 3.6275, - 3.745, - 3.8625, - 3.9775, - 4.095, - 4.2125, - 4.33, - 4.4475, - 4.5625, - 4.68, - 4.7975, - 4.915, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.5, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.085, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], + "SliceTiming": [0, 0.1175, 0.235, 0.3525, 0.4675, 0.585, 0.7025, 0.82, 0.9375, 1.0525, 1.17, 1.2875, 1.405, 1.5225, 1.6375, 1.755, 1.8725, 1.99, 2.1075, 2.2225, 2.34, 2.4575, 2.575, 2.6925, 2.8075, 2.925, 3.0425, 3.16, 3.2775, 3.3925, 3.51, 3.6275, 3.745, 3.8625, 3.9775, 4.095, 4.2125, 4.33, 4.4475, 4.5625, 4.68, 4.7975, 4.915, 5.03, 5.1475, 5.265, 5.3825, 5.5, 5.615, 5.7325, 5.85, 5.9675, 6.085, 6.2, 6.3175, 6.435, 6.5525], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-01/ses-010/dwi/sub-01_ses-010_dir-PA_part-mag_sbref.json b/sub-01/ses-010/dwi/sub-01_ses-010_dir-PA_part-mag_sbref.json index 042dc0f882..430f8e6615 100644 --- a/sub-01/ses-010/dwi/sub-01_ses-010_dir-PA_part-mag_sbref.json +++ b/sub-01/ses-010/dwi/sub-01_ses-010_dir-PA_part-mag_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.99863, - 0.0500491, - -0.0153015, - -0.052336, - 0.954994, - -0.291971 - ], + "ImageOrientationPatientDICOM": [0.99863, 0.0500491, -0.0153015, -0.052336, 0.954994, -0.291971], "ImageOrientationText": "Tra>Cor(-17.0)", "ImageType": [ "ORIGINAL", @@ -33,12 +26,15 @@ "M", "ND", "MOSAIC" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-010/dwi/sub-01_ses-010_dir-AP_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -67,76 +63,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 629, - -7205, - -8828, - 598, - 114, - -31, - -44, - 10 - ], + "ShimSetting": [629, -7205, -8828, 598, 114, -31, -44, 10], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.55 - ], + "SliceTiming": [0, 0.1175, 0.2325, 0.35, 0.4675, 0.585, 0.7025, 0.8175, 0.935, 1.0525, 1.17, 1.2875, 1.4025, 1.52, 1.6375, 1.755, 1.8725, 1.9875, 2.105, 2.2225, 2.34, 2.4575, 2.5725, 2.69, 2.8075, 2.925, 3.0425, 3.1575, 3.275, 3.3925, 3.51, 3.6275, 3.7425, 3.86, 3.9775, 4.095, 4.2125, 4.3275, 4.445, 4.5625, 4.68, 4.7975, 4.9125, 5.03, 5.1475, 5.265, 5.3825, 5.4975, 5.615, 5.7325, 5.85, 5.9675, 6.0825, 6.2, 6.3175, 6.435, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-01/ses-010/dwi/sub-01_ses-010_dir-PA_part-phase_sbref.json b/sub-01/ses-010/dwi/sub-01_ses-010_dir-PA_part-phase_sbref.json index 79a429b84d..687b1976b0 100644 --- a/sub-01/ses-010/dwi/sub-01_ses-010_dir-PA_part-phase_sbref.json +++ b/sub-01/ses-010/dwi/sub-01_ses-010_dir-PA_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.99863, - 0.0500491, - -0.0153015, - -0.052336, - 0.954994, - -0.291971 - ], + "ImageOrientationPatientDICOM": [0.99863, 0.0500491, -0.0153015, -0.052336, 0.954994, -0.291971], "ImageOrientationText": "Tra>Cor(-17.0)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,15 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-010/dwi/sub-01_ses-010_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +64,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 629, - -7205, - -8828, - 598, - 114, - -31, - -44, - 10 - ], + "ShimSetting": [629, -7205, -8828, 598, 114, -31, -44, 10], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.55 - ], + "SliceTiming": [0, 0.1175, 0.2325, 0.35, 0.4675, 0.585, 0.7025, 0.8175, 0.935, 1.0525, 1.17, 1.2875, 1.4025, 1.52, 1.6375, 1.755, 1.8725, 1.9875, 2.105, 2.2225, 2.34, 2.4575, 2.5725, 2.69, 2.8075, 2.925, 3.0425, 3.1575, 3.275, 3.3925, 3.51, 3.6275, 3.7425, 3.86, 3.9775, 4.095, 4.2125, 4.3275, 4.445, 4.5625, 4.68, 4.7975, 4.9125, 5.03, 5.1475, 5.265, 5.3825, 5.4975, 5.615, 5.7325, 5.85, 5.9675, 6.0825, 6.2, 6.3175, 6.435, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-01/ses-010/fmap/sub-01_ses-010_acq-sbref_dir-AP_run-01_epi.json b/sub-01/ses-010/fmap/sub-01_ses-010_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 7ed30137a1..0000000000 --- a/sub-01/ses-010/fmap/sub-01_ses-010_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,146 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "11:01:28.160000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.99863, - 0.0500491, - -0.0153015, - -0.052336, - 0.954994, - -0.291971 - ], - "ImageOrientationText": "Tra>Cor(-17.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "11:05:46.632500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.99863, - 0.0500491, - -0.0153015, - -0.052336, - 0.954994, - -0.291971 - ], - "ImageOrientationText": "Tra>Cor(-17.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.136434, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 12, - "ShimSetting": [ - 629, - -7205, - -8828, - 598, - 114, - -31, - -44, - 10 - ], - "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.55 - ], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 245.72, - "WipMemBlock": "325ef801-9a11-4713-853e-de906b856a6f||Sequence: R017 ve11c/master r/75a17815+; Jun 28 2022 16:41:33 by eja" -} \ No newline at end of file diff --git a/sub-01/ses-010/fmap/sub-01_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-01/ses-010/fmap/sub-01_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 0a299ff584..0000000000 --- a/sub-01/ses-010/fmap/sub-01_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/3K/6X/MD5E-s1169126--e0277849308ad95255d6cc421dce4ea3.nii.gz/MD5E-s1169126--e0277849308ad95255d6cc421dce4ea3.nii.gz \ No newline at end of file diff --git a/sub-01/ses-010/sub-01_ses-010_scans.tsv b/sub-01/ses-010/sub-01_ses-010_scans.tsv index a5e23b298e..030010a62d 120000 --- a/sub-01/ses-010/sub-01_ses-010_scans.tsv +++ b/sub-01/ses-010/sub-01_ses-010_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/pp/7q/MD5E-s3960--674c2c54dd13c62b57a6fd6da49cb5ca.tsv/MD5E-s3960--674c2c54dd13c62b57a6fd6da49cb5ca.tsv \ No newline at end of file +../../.git/annex/objects/0F/qX/MD5E-s3770--0a81e43fbe907e62e86e184bb8f0d1e0.tsv/MD5E-s3770--0a81e43fbe907e62e86e184bb8f0d1e0.tsv \ No newline at end of file diff --git a/sub-02/ses-001/dwi/sub-02_ses-001_dir-AP_sbref.json b/sub-02/ses-001/dwi/sub-02_ses-001_dir-AP_sbref.json index cab0e7b28f..d4b1df0cab 100644 --- a/sub-02/ses-001/dwi/sub-02_ses-001_dir-AP_sbref.json +++ b/sub-02/ses-001/dwi/sub-02_ses-001_dir-AP_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-001/dwi/sub-02_ses-001_dir-AP_dwi.nii.gz", + "ses-001/dwi/sub-02_ses-001_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-001/dwi/sub-02_ses-001_dir-PA_sbref.json b/sub-02/ses-001/dwi/sub-02_ses-001_dir-PA_sbref.json index 62aa181401..d169d1ecf0 100644 --- a/sub-02/ses-001/dwi/sub-02_ses-001_dir-PA_sbref.json +++ b/sub-02/ses-001/dwi/sub-02_ses-001_dir-PA_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-001/dwi/sub-02_ses-001_dir-AP_dwi.nii.gz", + "ses-001/dwi/sub-02_ses-001_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-001/fmap/sub-02_ses-001_acq-sbref_dir-AP_run-01_epi.json b/sub-02/ses-001/fmap/sub-02_ses-001_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index cab0e7b28f..0000000000 --- a/sub-02/ses-001/fmap/sub-02_ses-001_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - 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"PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.13645183695748, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "105420.418000", - "SliceLocation": -57.04715532254, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2.0000000523862, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "102115.299000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10382.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 23664.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-02/ses-001/fmap/sub-02_ses-001_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-02/ses-001/fmap/sub-02_ses-001_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index df7bdf1bdd..0000000000 --- a/sub-02/ses-001/fmap/sub-02_ses-001_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/Gz/vX/MD5E-s1171690--a24849b21ef3d0808bbaa91af8b35157.nii.gz/MD5E-s1171690--a24849b21ef3d0808bbaa91af8b35157.nii.gz \ No newline at end of file diff --git a/sub-02/ses-001/sub-02_ses-001_scans.tsv b/sub-02/ses-001/sub-02_ses-001_scans.tsv index 2c7e06d856..cede18077f 120000 --- a/sub-02/ses-001/sub-02_ses-001_scans.tsv +++ b/sub-02/ses-001/sub-02_ses-001_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/qf/GX/MD5E-s3049--612e5cbe4bab56e351af8dd6e56bc2ae.tsv/MD5E-s3049--612e5cbe4bab56e351af8dd6e56bc2ae.tsv \ No newline at end of file +../../.git/annex/objects/7q/z3/MD5E-s2871--1310a68e5f5a6411f1dfe95633102dda.tsv/MD5E-s2871--1310a68e5f5a6411f1dfe95633102dda.tsv \ No newline at end of file diff --git a/sub-02/ses-002/dwi/sub-02_ses-002_dir-AP_sbref.json b/sub-02/ses-002/dwi/sub-02_ses-002_dir-AP_sbref.json index f27737ab01..c358e21eed 100644 --- a/sub-02/ses-002/dwi/sub-02_ses-002_dir-AP_sbref.json +++ b/sub-02/ses-002/dwi/sub-02_ses-002_dir-AP_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-002/dwi/sub-02_ses-002_dir-AP_dwi.nii.gz", + "ses-002/dwi/sub-02_ses-002_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-002/dwi/sub-02_ses-002_dir-PA_sbref.json b/sub-02/ses-002/dwi/sub-02_ses-002_dir-PA_sbref.json index 8ccf7f9ef3..158ed0a4bc 100644 --- a/sub-02/ses-002/dwi/sub-02_ses-002_dir-PA_sbref.json +++ b/sub-02/ses-002/dwi/sub-02_ses-002_dir-PA_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-002/dwi/sub-02_ses-002_dir-AP_dwi.nii.gz", + "ses-002/dwi/sub-02_ses-002_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-002/fmap/sub-02_ses-002_acq-sbref_dir-AP_run-01_epi.json b/sub-02/ses-002/fmap/sub-02_ses-002_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index f27737ab01..0000000000 --- a/sub-02/ses-002/fmap/sub-02_ses-002_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - 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"PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.13932992894269, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "144005.257000", - "SliceLocation": -57.04715532254, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2.0000000523862, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "141422.980000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10744.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 24691.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-02/ses-002/fmap/sub-02_ses-002_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-02/ses-002/fmap/sub-02_ses-002_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 77081eacc6..0000000000 --- a/sub-02/ses-002/fmap/sub-02_ses-002_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/K9/FV/MD5E-s1174828--9444cebc03706ac25fcc7ec2a7f8ce65.nii.gz/MD5E-s1174828--9444cebc03706ac25fcc7ec2a7f8ce65.nii.gz \ No newline at end of file diff --git a/sub-02/ses-002/sub-02_ses-002_scans.tsv b/sub-02/ses-002/sub-02_ses-002_scans.tsv index 778837e3c1..8d2483b1d7 120000 --- a/sub-02/ses-002/sub-02_ses-002_scans.tsv +++ b/sub-02/ses-002/sub-02_ses-002_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/jP/M3/MD5E-s3049--d8d34ef08fa47152af6e847a799f7fb9.tsv/MD5E-s3049--d8d34ef08fa47152af6e847a799f7fb9.tsv \ No newline at end of file +../../.git/annex/objects/7v/20/MD5E-s2871--02c9f863d2234ea0336d6896284a7a0e.tsv/MD5E-s2871--02c9f863d2234ea0336d6896284a7a0e.tsv \ No newline at end of file diff --git a/sub-02/ses-003/dwi/sub-02_ses-003_dir-AP_sbref.json b/sub-02/ses-003/dwi/sub-02_ses-003_dir-AP_sbref.json index b2bf856a89..366268ec8f 100644 --- a/sub-02/ses-003/dwi/sub-02_ses-003_dir-AP_sbref.json +++ b/sub-02/ses-003/dwi/sub-02_ses-003_dir-AP_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-003/dwi/sub-02_ses-003_dir-AP_dwi.nii.gz", + "ses-003/dwi/sub-02_ses-003_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-003/dwi/sub-02_ses-003_dir-PA_sbref.json b/sub-02/ses-003/dwi/sub-02_ses-003_dir-PA_sbref.json index 13545f6634..693a872d9a 100644 --- a/sub-02/ses-003/dwi/sub-02_ses-003_dir-PA_sbref.json +++ b/sub-02/ses-003/dwi/sub-02_ses-003_dir-PA_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-003/dwi/sub-02_ses-003_dir-AP_dwi.nii.gz", + "ses-003/dwi/sub-02_ses-003_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-003/fmap/sub-02_ses-003_acq-sbref_dir-AP_run-01_epi.json b/sub-02/ses-003/fmap/sub-02_ses-003_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index b2bf856a89..0000000000 --- a/sub-02/ses-003/fmap/sub-02_ses-003_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "14:05:43.510000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.838671, -0.544639], - "ImageOrientationText": "Tra>Cor(-33.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - 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"SpacingBetweenSlices": 1.999999976706, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "133733.196000", - "TransmitCoilName": "Body", - "TriggerTime": 1625.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10892.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 24997.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-02/ses-006/fmap/sub-02_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-02/ses-006/fmap/sub-02_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index c9da46d042..0000000000 --- a/sub-02/ses-006/fmap/sub-02_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/54/3K/MD5E-s1173849--e198cb5489c1244f7ce46d7ac3a0fbc4.nii.gz/MD5E-s1173849--e198cb5489c1244f7ce46d7ac3a0fbc4.nii.gz \ No newline at end of file diff --git a/sub-02/ses-007/dwi/sub-02_ses-007_dir-AP_sbref.json b/sub-02/ses-007/dwi/sub-02_ses-007_dir-AP_sbref.json index 575e5d1a52..edbedef4fe 100644 --- a/sub-02/ses-007/dwi/sub-02_ses-007_dir-AP_sbref.json +++ b/sub-02/ses-007/dwi/sub-02_ses-007_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-007/dwi/sub-02_ses-007_dir-AP_dwi.nii.gz", + "ses-007/dwi/sub-02_ses-007_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-007/dwi/sub-02_ses-007_dir-PA_sbref.json b/sub-02/ses-007/dwi/sub-02_ses-007_dir-PA_sbref.json index 1444bb4613..1a20255fe5 100644 --- a/sub-02/ses-007/dwi/sub-02_ses-007_dir-PA_sbref.json +++ b/sub-02/ses-007/dwi/sub-02_ses-007_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-007/dwi/sub-02_ses-007_dir-AP_dwi.nii.gz", + "ses-007/dwi/sub-02_ses-007_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-007/fmap/sub-02_ses-007_acq-sbref_dir-AP_run-01_epi.json b/sub-02/ses-007/fmap/sub-02_ses-007_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 575e5d1a52..0000000000 --- a/sub-02/ses-007/fmap/sub-02_ses-007_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "15:26:30.060000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.901833, -0.432086], - "ImageOrientationText": "Tra>Cor(-25.6)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.334, - "SAR": 0.138955, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "ShimSetting": [619, -7217, -8849, 376, -21, -130, 34, -15], - "SliceThickness": 2, - "SliceTiming": [0, 0.1225, 0.245, 0.365, 0.4875, 0.61, 0.7325, 0.8525, 0.975, 1.0975, 1.2175, 1.34, 1.4625, 1.585, 1.705, 1.8275, 1.95, 2.07, 2.1925, 2.315, 2.4375, 2.5575, 2.68, 2.8025, 2.9225, 3.045, 3.1675, 3.29, 3.41, 3.5325, 3.655, 3.775, 3.8975, 4.02, 4.1425, 4.2625, 4.385, 4.5075, 4.6275, 4.75, 4.8725, 4.995, 5.115, 5.2375, 5.36, 5.48, 5.6025, 5.725, 5.8475, 5.9675, 6.09, 6.2125, 6.3325, 6.455, 6.5775, 6.7, 6.82], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 251.229, - "WipMemBlock": "4848a390-3d2b-4834-b883-269cdd5e9660||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 109.49686431884766], - [0.0, 1.803665041923523, -0.8641715049743652, -75.27884674072266], - [0.0, 0.8641714453697205, 1.803665041923523, -79.64385223388672], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - 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"MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "150046.002000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.13895492835641, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "152732.902000", - "SliceLocation": -39.298505178955, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - 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"SliceLocation": -43.584859835125, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2.0000000163517, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "130131.951000", - "TransmitCoilName": "Body", - "TriggerTime": 1625.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10717.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 24477.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-02/ses-008/fmap/sub-02_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-02/ses-008/fmap/sub-02_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 20973376c0..0000000000 --- a/sub-02/ses-008/fmap/sub-02_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/07/3K/MD5E-s1168065--87b574cc853e9dcdf6949a53d33cc2a0.nii.gz/MD5E-s1168065--87b574cc853e9dcdf6949a53d33cc2a0.nii.gz \ No newline at end of file diff --git a/sub-02/ses-009/dwi/sub-02_ses-009_dir-AP_sbref.json b/sub-02/ses-009/dwi/sub-02_ses-009_dir-AP_sbref.json index 8f250e4c9a..281a383b38 100644 --- a/sub-02/ses-009/dwi/sub-02_ses-009_dir-AP_sbref.json +++ b/sub-02/ses-009/dwi/sub-02_ses-009_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-009/dwi/sub-02_ses-009_dir-AP_dwi.nii.gz", + "ses-009/dwi/sub-02_ses-009_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-009/dwi/sub-02_ses-009_dir-PA_sbref.json b/sub-02/ses-009/dwi/sub-02_ses-009_dir-PA_sbref.json index 7e498aa8f2..068238a0ce 100644 --- a/sub-02/ses-009/dwi/sub-02_ses-009_dir-PA_sbref.json +++ b/sub-02/ses-009/dwi/sub-02_ses-009_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-009/dwi/sub-02_ses-009_dir-AP_dwi.nii.gz", + "ses-009/dwi/sub-02_ses-009_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-02/ses-009/fmap/sub-02_ses-009_acq-sbref_dir-AP_run-01_epi.json b/sub-02/ses-009/fmap/sub-02_ses-009_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 8f250e4c9a..0000000000 --- a/sub-02/ses-009/fmap/sub-02_ses-009_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "10:59:41.785000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.838671, -0.544639], - "ImageOrientationText": "Tra>Cor(-33.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-7", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.166067, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "ShimSetting": [631, -7197, -8851, 346, -24, -172, 82, 14], - "SliceThickness": 2, - "SliceTiming": [0, 0.1175, 0.235, 0.3525, 0.4675, 0.585, 0.7025, 0.82, 0.9375, 1.0525, 1.17, 1.2875, 1.405, 1.5225, 1.6375, 1.755, 1.8725, 1.99, 2.105, 2.2225, 2.34, 2.4575, 2.575, 2.69, 2.8075, 2.925, 3.0425, 3.16, 3.275, 3.3925, 3.51, 3.6275, 3.745, 3.86, 3.9775, 4.095, 4.2125, 4.33, 4.445, 4.5625, 4.68, 4.7975, 4.915, 5.03, 5.1475, 5.265, 5.3825, 5.5, 5.615, 5.7325, 5.85, 5.9675, 6.085, 6.2, 6.3175, 6.435, 6.5525], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 253.673, - "WipMemBlock": "de5a4722-4c7d-4c91-90ee-2ca423abc4e9||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 112.69306945800781], - [0.0, 1.677341103553772, -1.0892781019210815, -62.965904235839844], - [0.0, 1.0892781019210815, 1.677341103553772, -94.76731872558594], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "105941.785000", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "110042.943000", - "EchoNumbers": 1, - "EchoTime": 76.8, - "EchoTrainLength": 83, - "FlipAngle": 78.0, - "HighBit": 15, - "ImageOrientationPatient": [1.0, 0.0, 0.0, 0.0, 0.83867056370374, -0.5446390415466], - "ImagePositionPatient": [-882.69306826591, -765.64061356112, 443.33605605446], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagedNucleus": "1H", - "ImagingFrequency": 123.258835, - "InPlanePhaseEncodingDirection": "COL", - "InstanceCreationTime": "110042.943000", - "InstanceNumber": 1, - "LargestImagePixelValue": 65535, - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "095518.965000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "RepetitionTime": 2243.0, - "Rows": 880, - "SAR": 0.16606703023064, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "110042.940000", - "SliceLocation": -45.184869897732, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.999999976706, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "095518.789000", - "TransmitCoilName": "Body", - "TriggerTime": 1622.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 11076.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 25458.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-02/ses-010/fmap/sub-02_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-02/ses-010/fmap/sub-02_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 847ceb3ff0..0000000000 --- a/sub-02/ses-010/fmap/sub-02_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/9F/x2/MD5E-s1179187--059e87de326242681715bba3a709b6ec.nii.gz/MD5E-s1179187--059e87de326242681715bba3a709b6ec.nii.gz \ No newline at end of file diff --git a/sub-02/ses-011/dwi/sub-02_ses-011_dir-AP_part-phase_sbref.json b/sub-02/ses-011/dwi/sub-02_ses-011_dir-AP_part-phase_sbref.json index ef65f061da..e2d656a75b 100644 --- a/sub-02/ses-011/dwi/sub-02_ses-011_dir-AP_part-phase_sbref.json +++ b/sub-02/ses-011/dwi/sub-02_ses-011_dir-AP_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.11.3.post9+gc939bf8", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 1, - 0, - 0, - 0, - 0.838671, - -0.544639 - ], + "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.838671, -0.544639], "ImageOrientationText": "Tra>Cor(-33.0)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,16 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-011/dwi/sub-02_ses-011_dir-AP_part-mag_dwi.nii.gz", + "ses-011/dwi/sub-02_ses-011_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +65,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", "SeriesNumber": 9, - "ShimSetting": [ - 617, - -7212, - -8877, - 343, - -8, - -223, - 86, - 19 - ], + "ShimSetting": [617, -7212, -8877, 343, -8, -223, 86, 19], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.3525, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.405, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.99, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.575, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.16, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.745, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.33, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.915, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.5, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.085, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], + "SliceTiming": [0, 0.1175, 0.235, 0.3525, 0.4675, 0.585, 0.7025, 0.82, 0.935, 1.0525, 1.17, 1.2875, 1.405, 1.52, 1.6375, 1.755, 1.8725, 1.99, 2.105, 2.2225, 2.34, 2.4575, 2.575, 2.69, 2.8075, 2.925, 3.0425, 3.16, 3.275, 3.3925, 3.51, 3.6275, 3.745, 3.86, 3.9775, 4.095, 4.2125, 4.33, 4.445, 4.5625, 4.68, 4.7975, 4.915, 5.03, 5.1475, 5.265, 5.3825, 5.5, 5.615, 5.7325, 5.85, 5.9675, 6.085, 6.2, 6.3175, 6.435, 6.5525], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-02/ses-011/dwi/sub-02_ses-011_dir-PA_part-mag_sbref.json b/sub-02/ses-011/dwi/sub-02_ses-011_dir-PA_part-mag_sbref.json index 983ce46b11..398c8cc462 100644 --- a/sub-02/ses-011/dwi/sub-02_ses-011_dir-PA_part-mag_sbref.json +++ b/sub-02/ses-011/dwi/sub-02_ses-011_dir-PA_part-mag_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.11.3.post9+gc939bf8", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 1, - 0, - 0, - 0, - 0.838671, - -0.544639 - ], + "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.838671, -0.544639], "ImageOrientationText": "Tra>Cor(-33.0)", "ImageType": [ "ORIGINAL", @@ -33,12 +26,15 @@ "M", "ND", "MOSAIC" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-011/dwi/sub-02_ses-011_dir-AP_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -67,76 +63,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 14, - "ShimSetting": [ - 617, - -7212, - -8877, - 343, - -8, - -223, - 86, - 19 - ], + "ShimSetting": [617, -7212, -8877, 343, -8, -223, 86, 19], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.115, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.285, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.87, - 1.9875, - 2.105, - 2.2225, - 2.3375, - 2.455, - 2.5725, - 2.69, - 2.8075, - 2.9225, - 3.04, - 3.1575, - 3.275, - 3.3925, - 3.5075, - 3.625, - 3.7425, - 3.86, - 3.9775, - 4.0925, - 4.21, - 4.3275, - 4.445, - 4.5625, - 4.6775, - 4.795, - 4.9125, - 5.03, - 5.1475, - 5.2625, - 5.38, - 5.4975, - 5.615, - 5.7325, - 5.8475, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.4325, - 6.55 - ], + "SliceTiming": [0, 0.115, 0.2325, 0.35, 0.4675, 0.585, 0.7, 0.8175, 0.935, 1.0525, 1.17, 1.285, 1.4025, 1.52, 1.6375, 1.755, 1.87, 1.9875, 2.105, 2.2225, 2.3375, 2.455, 2.5725, 2.69, 2.8075, 2.9225, 3.04, 3.1575, 3.275, 3.3925, 3.5075, 3.625, 3.7425, 3.86, 3.9775, 4.0925, 4.21, 4.3275, 4.445, 4.5625, 4.6775, 4.795, 4.9125, 5.03, 5.1475, 5.2625, 5.38, 5.4975, 5.615, 5.7325, 5.8475, 5.965, 6.0825, 6.2, 6.3175, 6.4325, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-02/ses-011/dwi/sub-02_ses-011_dir-PA_part-phase_sbref.json b/sub-02/ses-011/dwi/sub-02_ses-011_dir-PA_part-phase_sbref.json index f86265b23d..466ee617ec 100644 --- a/sub-02/ses-011/dwi/sub-02_ses-011_dir-PA_part-phase_sbref.json +++ b/sub-02/ses-011/dwi/sub-02_ses-011_dir-PA_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.11.3.post9+gc939bf8", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 1, - 0, - 0, - 0, - 0.838671, - -0.544639 - ], + "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.838671, -0.544639], "ImageOrientationText": "Tra>Cor(-33.0)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,15 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-011/dwi/sub-02_ses-011_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +64,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 14, - "ShimSetting": [ - 617, - -7212, - -8877, - 343, - -8, - -223, - 86, - 19 - ], + "ShimSetting": [617, -7212, -8877, 343, -8, -223, 86, 19], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.115, - 0.2325, - 0.35, - 0.4675, - 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"InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j-", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_AP_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.138044, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", - "SeriesNumber": 7, - "ShimSetting": [ - 617, - -7212, - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "10:54:23.475000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.11.3.post9+gc939bf8", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 1, - 0, - 0, - 0, - 0.838671, - -0.544639 - ], - "ImageOrientationText": "Tra>Cor(-33.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j-", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_AP_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.138044, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", - "SeriesNumber": 9, - "ShimSetting": [ - 617, - -7212, - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "10:59:2.405000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.11.3.post9+gc939bf8", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 1, - 0, - 0, - 0, - 0.838671, - -0.544639 - ], - "ImageOrientationText": "Tra>Cor(-33.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.138044, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 14, - "ShimSetting": [ - 617, - -7212, - 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"PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.11073451692845, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "132806.359000", - "SliceLocation": -32.882251767596, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2.0000000487939, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "130136.965000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9376.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21052.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-03/ses-003/fmap/sub-03_ses-003_acq-sbref_dir-AP_run-02_epi.nii.gz b/sub-03/ses-003/fmap/sub-03_ses-003_acq-sbref_dir-AP_run-02_epi.nii.gz deleted file mode 120000 index 2b4afd9c91..0000000000 --- a/sub-03/ses-003/fmap/sub-03_ses-003_acq-sbref_dir-AP_run-02_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/WX/Km/MD5E-s1148292--273558d322fac29ed3bc4ed4967b5edc.nii.gz/MD5E-s1148292--273558d322fac29ed3bc4ed4967b5edc.nii.gz \ No newline at end of file diff --git a/sub-03/ses-003/sub-03_ses-003_scans.tsv b/sub-03/ses-003/sub-03_ses-003_scans.tsv index e2ded79149..38691c0e89 120000 --- a/sub-03/ses-003/sub-03_ses-003_scans.tsv +++ b/sub-03/ses-003/sub-03_ses-003_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/vQ/xX/MD5E-s3100--ceb1572c80877f72d13afa150ad108a4.tsv/MD5E-s3100--ceb1572c80877f72d13afa150ad108a4.tsv \ No newline at end of file +../../.git/annex/objects/z5/V5/MD5E-s2922--e3c438b030a3101e17dcb664cd424f46.tsv/MD5E-s2922--e3c438b030a3101e17dcb664cd424f46.tsv \ No newline at end of file diff --git a/sub-03/ses-004/dwi/sub-03_ses-004_dir-AP_sbref.json b/sub-03/ses-004/dwi/sub-03_ses-004_dir-AP_sbref.json index ec800d3cb9..1e01ed94fe 100644 --- a/sub-03/ses-004/dwi/sub-03_ses-004_dir-AP_sbref.json +++ b/sub-03/ses-004/dwi/sub-03_ses-004_dir-AP_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-004/dwi/sub-03_ses-004_dir-AP_dwi.nii.gz", + "ses-004/dwi/sub-03_ses-004_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-004/dwi/sub-03_ses-004_dir-PA_sbref.json b/sub-03/ses-004/dwi/sub-03_ses-004_dir-PA_sbref.json index 63de6c6459..c81d0d9a4c 100644 --- a/sub-03/ses-004/dwi/sub-03_ses-004_dir-PA_sbref.json +++ b/sub-03/ses-004/dwi/sub-03_ses-004_dir-PA_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-004/dwi/sub-03_ses-004_dir-AP_dwi.nii.gz", + "ses-004/dwi/sub-03_ses-004_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-004/fmap/sub-03_ses-004_acq-sbref_dir-AP_run-01_epi.json b/sub-03/ses-004/fmap/sub-03_ses-004_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index ec800d3cb9..0000000000 --- a/sub-03/ses-004/fmap/sub-03_ses-004_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - 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"PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.10349685908727, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "105225.290000", - "SliceLocation": -36.111599609433, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.99999997303, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "101209.015000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9266.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 20807.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-03/ses-004/fmap/sub-03_ses-004_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-03/ses-004/fmap/sub-03_ses-004_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index cf4e527480..0000000000 --- a/sub-03/ses-004/fmap/sub-03_ses-004_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/P4/jZ/MD5E-s1115321--02ee162b8c34c6d839c0f0221a73c0b8.nii.gz/MD5E-s1115321--02ee162b8c34c6d839c0f0221a73c0b8.nii.gz \ No newline at end of file diff --git a/sub-03/ses-004/sub-03_ses-004_scans.tsv b/sub-03/ses-004/sub-03_ses-004_scans.tsv index 45111055e8..664355240c 120000 --- a/sub-03/ses-004/sub-03_ses-004_scans.tsv +++ b/sub-03/ses-004/sub-03_ses-004_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/qX/6W/MD5E-s3367--764904a347589504fed0da74d44f1f33.tsv/MD5E-s3367--764904a347589504fed0da74d44f1f33.tsv \ No newline at end of file +../../.git/annex/objects/1g/jq/MD5E-s3189--d99dc0e69a5168d4021816bf1f9cb4dd.tsv/MD5E-s3189--d99dc0e69a5168d4021816bf1f9cb4dd.tsv \ No newline at end of file diff --git a/sub-03/ses-005/dwi/sub-03_ses-005_dir-AP_sbref.json b/sub-03/ses-005/dwi/sub-03_ses-005_dir-AP_sbref.json index 0772e16a3a..723391312c 100644 --- a/sub-03/ses-005/dwi/sub-03_ses-005_dir-AP_sbref.json +++ b/sub-03/ses-005/dwi/sub-03_ses-005_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-005/dwi/sub-03_ses-005_dir-AP_dwi.nii.gz", + "ses-005/dwi/sub-03_ses-005_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-005/dwi/sub-03_ses-005_dir-PA_sbref.json b/sub-03/ses-005/dwi/sub-03_ses-005_dir-PA_sbref.json index f91dcb1272..f8cce42e43 100644 --- a/sub-03/ses-005/dwi/sub-03_ses-005_dir-PA_sbref.json +++ b/sub-03/ses-005/dwi/sub-03_ses-005_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-005/dwi/sub-03_ses-005_dir-AP_dwi.nii.gz", + "ses-005/dwi/sub-03_ses-005_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-005/fmap/sub-03_ses-005_acq-sbref_dir-AP_run-01_epi.json b/sub-03/ses-005/fmap/sub-03_ses-005_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 0772e16a3a..0000000000 --- a/sub-03/ses-005/fmap/sub-03_ses-005_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "17:08:52.107500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.978148, -0.207912], - "ImageOrientationText": "Tra>Cor(-12.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - 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"SpacingBetweenSlices": 1.9999999627301, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "163613.489000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9389.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21030.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-03/ses-006/fmap/sub-03_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-03/ses-006/fmap/sub-03_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 06fe5b8b3f..0000000000 --- a/sub-03/ses-006/fmap/sub-03_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/QP/0f/MD5E-s1132533--410ee0b0cef2a61f87dd32b105b92cc0.nii.gz/MD5E-s1132533--410ee0b0cef2a61f87dd32b105b92cc0.nii.gz \ No newline at end of file diff --git a/sub-03/ses-007/dwi/sub-03_ses-007_dir-AP_sbref.json b/sub-03/ses-007/dwi/sub-03_ses-007_dir-AP_sbref.json index 651b03749e..fbf5387b9e 100644 --- a/sub-03/ses-007/dwi/sub-03_ses-007_dir-AP_sbref.json +++ b/sub-03/ses-007/dwi/sub-03_ses-007_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-007/dwi/sub-03_ses-007_dir-AP_dwi.nii.gz", + "ses-007/dwi/sub-03_ses-007_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-007/dwi/sub-03_ses-007_dir-PA_sbref.json b/sub-03/ses-007/dwi/sub-03_ses-007_dir-PA_sbref.json index 3599b39469..8d9cf5ab73 100644 --- a/sub-03/ses-007/dwi/sub-03_ses-007_dir-PA_sbref.json +++ b/sub-03/ses-007/dwi/sub-03_ses-007_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-007/dwi/sub-03_ses-007_dir-AP_dwi.nii.gz", + "ses-007/dwi/sub-03_ses-007_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-AP_run-01_epi.json b/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 651b03749e..0000000000 --- a/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"SliceThickness": 2, - "SliceTiming": [0, 0.1225, 0.245, 0.365, 0.4875, 0.61, 0.7325, 0.8525, 0.975, 1.0975, 1.2175, 1.34, 1.4625, 1.585, 1.705, 1.8275, 1.95, 2.07, 2.1925, 2.315, 2.4375, 2.5575, 2.68, 2.8025, 2.9225, 3.045, 3.1675, 3.29, 3.41, 3.5325, 3.655, 3.775, 3.8975, 4.02, 4.1425, 4.2625, 4.385, 4.5075, 4.6275, 4.75, 4.8725, 4.9925, 5.115, 5.2375, 5.36, 5.48, 5.6025, 5.725, 5.845, 5.9675, 6.09, 6.2125, 6.3325, 6.455, 6.5775, 6.6975, 6.82], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 207.678, - "WipMemBlock": "19167d79-d303-4e44-bb6e-9efece6b049c||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 109.49686431884766], - [0.0, 1.8517411947250366, -0.7556815147399902, -69.46688842773438], - [0.0, 0.7556815147399902, 1.8517411947250366, -69.7098388671875], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - 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"SpacingBetweenSlices": 1.9999999478913, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "171144.827000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9487.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21450.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-AP_run-01_epi.nii.gz b/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-AP_run-01_epi.nii.gz deleted file mode 120000 index 24d72945b2..0000000000 --- a/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-AP_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/6W/08/MD5E-s1146576--55768e21e36105ab82bef2288db4bb0d.nii.gz/MD5E-s1146576--55768e21e36105ab82bef2288db4bb0d.nii.gz \ No newline at end of file diff --git a/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-PA_run-01_epi.json b/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-PA_run-01_epi.json deleted file mode 100644 index 3599b39469..0000000000 --- a/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-PA_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "17:30:36.427500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.925871, -0.377841], - "ImageOrientationText": "Tra>Cor(-22.2)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.334, - "SAR": 0.114732, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "ShimSetting": [625, -7243, -8827, 728, 15, -66, 158, -6], - "SliceThickness": 2, - "SliceTiming": [0, 0.12, 0.2425, 0.365, 0.4875, 0.6075, 0.73, 0.8525, 0.9725, 1.095, 1.2175, 1.3375, 1.46, 1.5825, 1.705, 1.825, 1.9475, 2.07, 2.19, 2.3125, 2.435, 2.5575, 2.6775, 2.8, 2.9225, 3.0425, 3.165, 3.2875, 3.41, 3.53, 3.6525, 3.775, 3.895, 4.0175, 4.14, 4.2625, 4.3825, 4.505, 4.6275, 4.7475, 4.87, 4.9925, 5.115, 5.235, 5.3575, 5.48, 5.6, 5.7225, 5.845, 5.9675, 6.0875, 6.21, 6.3325, 6.4525, 6.575, 6.6975, 6.82], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 207.678, - "WipMemBlock": "a53c0fa8-4314-4146-9039-875941838187||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 109.49686431884766], - [0.0, 1.8517411947250366, -0.7556815147399902, -69.46688842773438], - [0.0, 0.7556815147399902, 1.8517411947250366, -69.7098388671875], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - 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"SpacingBetweenSlices": 1.9999999478913, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "171144.827000", - "TransmitCoilName": "Body", - "TriggerTime": 1625.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9516.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21215.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index a8a61035af..0000000000 --- a/sub-03/ses-007/fmap/sub-03_ses-007_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/W8/Jg/MD5E-s1131787--53de7355401aee82edb0e0f21e89624c.nii.gz/MD5E-s1131787--53de7355401aee82edb0e0f21e89624c.nii.gz \ No newline at end of file diff --git a/sub-03/ses-008/dwi/sub-03_ses-008_dir-AP_sbref.json b/sub-03/ses-008/dwi/sub-03_ses-008_dir-AP_sbref.json index 6e8e73e861..75fe402e54 100644 --- a/sub-03/ses-008/dwi/sub-03_ses-008_dir-AP_sbref.json +++ b/sub-03/ses-008/dwi/sub-03_ses-008_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-008/dwi/sub-03_ses-008_dir-AP_dwi.nii.gz", + "ses-008/dwi/sub-03_ses-008_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-008/dwi/sub-03_ses-008_dir-PA_sbref.json b/sub-03/ses-008/dwi/sub-03_ses-008_dir-PA_sbref.json index d6eb04d676..19e50a3416 100644 --- a/sub-03/ses-008/dwi/sub-03_ses-008_dir-PA_sbref.json +++ b/sub-03/ses-008/dwi/sub-03_ses-008_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-008/dwi/sub-03_ses-008_dir-AP_dwi.nii.gz", + "ses-008/dwi/sub-03_ses-008_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-008/fmap/sub-03_ses-008_acq-sbref_dir-AP_run-01_epi.json b/sub-03/ses-008/fmap/sub-03_ses-008_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 6e8e73e861..0000000000 --- a/sub-03/ses-008/fmap/sub-03_ses-008_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"SliceLocation": -41.396593829553, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999614045, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "102659.909000", - "TransmitCoilName": "Body", - "TriggerTime": 1625.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9432.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21138.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-03/ses-009/fmap/sub-03_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-03/ses-009/fmap/sub-03_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 96328d7ed3..0000000000 --- a/sub-03/ses-009/fmap/sub-03_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/18/WV/MD5E-s1140884--c5a9f7772050da34052fca13aa9fe3ee.nii.gz/MD5E-s1140884--c5a9f7772050da34052fca13aa9fe3ee.nii.gz \ No newline at end of file diff --git a/sub-03/ses-010/dwi/sub-03_ses-010_dir-AP_sbref.json b/sub-03/ses-010/dwi/sub-03_ses-010_dir-AP_sbref.json index 80d75273f1..0a2ceb9e4a 100644 --- a/sub-03/ses-010/dwi/sub-03_ses-010_dir-AP_sbref.json +++ b/sub-03/ses-010/dwi/sub-03_ses-010_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-010/dwi/sub-03_ses-010_dir-AP_dwi.nii.gz", + "ses-010/dwi/sub-03_ses-010_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-010/dwi/sub-03_ses-010_dir-PA_sbref.json b/sub-03/ses-010/dwi/sub-03_ses-010_dir-PA_sbref.json index f5ee48f8dd..1a9b2fe289 100644 --- a/sub-03/ses-010/dwi/sub-03_ses-010_dir-PA_sbref.json +++ b/sub-03/ses-010/dwi/sub-03_ses-010_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-010/dwi/sub-03_ses-010_dir-AP_dwi.nii.gz", + "ses-010/dwi/sub-03_ses-010_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-AP_run-01_epi.json b/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 80d75273f1..0000000000 --- a/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "130056.150000", - "TransmitCoilName": "Body", - "TriggerTime": 1622.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9730.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21940.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-AP_run-01_epi.nii.gz b/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-AP_run-01_epi.nii.gz deleted file mode 120000 index aff0354be3..0000000000 --- a/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-AP_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/Q9/17/MD5E-s1153162--4228e50ca91c4a8480bda8c027eec186.nii.gz/MD5E-s1153162--4228e50ca91c4a8480bda8c027eec186.nii.gz \ No newline at end of file diff --git a/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-PA_run-01_epi.json b/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-PA_run-01_epi.json deleted file mode 100644 index f5ee48f8dd..0000000000 --- a/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-PA_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "13:28:52.112500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.956305, -0.292372], - "ImageOrientationText": "Tra>Cor(-17.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.116819, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "ShimSetting": [639, -7233, -8809, 724, 24, -31, 98, -8], - "SliceThickness": 2, - "SliceTiming": [0, 0.1175, 0.235, 0.35, 0.4675, 0.585, 0.7025, 0.82, 0.935, 1.0525, 1.17, 1.2875, 1.405, 1.52, 1.6375, 1.755, 1.8725, 1.99, 2.105, 2.2225, 2.34, 2.4575, 2.575, 2.69, 2.8075, 2.925, 3.0425, 3.16, 3.275, 3.3925, 3.51, 3.6275, 3.7425, 3.86, 3.9775, 4.095, 4.2125, 4.3275, 4.445, 4.5625, 4.68, 4.7975, 4.9125, 5.03, 5.1475, 5.265, 5.3825, 5.4975, 5.615, 5.7325, 5.85, 5.9675, 6.0825, 6.2, 6.3175, 6.435, 6.5525], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 204.869, - "WipMemBlock": "912bab5a-44f6-44cb-9f45-7692dc9c8b9e||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 112.0], - [0.0, 1.9126094579696655, -0.5847434401512146, -77.58824157714844], - [0.0, 0.5847434401512146, 1.9126094579696655, -65.72566223144531], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "132852.112500", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "132949.874000", - "EchoNumbers": 1, - "EchoTime": 76.8, - "EchoTrainLength": 83, - "FlipAngle": 78.0, - "HighBit": 15, - "ImageOrientationPatient": [1.0, 0.0, 0.0, 0.0, 0.95630475535632, -0.2923717067072], - "ImagePositionPatient": [-882.0, -867.2408593504, 223.13758102832], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagedNucleus": "1H", - "ImagingFrequency": 123.258874, - "InPlanePhaseEncodingDirection": "COL", - "InstanceCreationTime": "132949.874000", - "InstanceNumber": 1, - "LargestImagePixelValue": 65535, - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "130056.307000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "RepetitionTime": 2243.0, - "Rows": 880, - "SAR": 0.1168185030231, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "132949.871000", - "SliceLocation": -40.169160338415, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999987675, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "130056.150000", - "TransmitCoilName": "Body", - "TriggerTime": 1622.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9647.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21495.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index dcd1da460d..0000000000 --- a/sub-03/ses-010/fmap/sub-03_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/7P/jp/MD5E-s1141070--243cd86de934f4944e4dbcaadde31e98.nii.gz/MD5E-s1141070--243cd86de934f4944e4dbcaadde31e98.nii.gz \ No newline at end of file diff --git a/sub-03/ses-011/dwi/sub-03_ses-011_dir-AP_part-phase_sbref.json b/sub-03/ses-011/dwi/sub-03_ses-011_dir-AP_part-phase_sbref.json index 0e7691ba37..ca4de90bbd 100644 --- a/sub-03/ses-011/dwi/sub-03_ses-011_dir-AP_part-phase_sbref.json +++ b/sub-03/ses-011/dwi/sub-03_ses-011_dir-AP_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999273, - 0.00445138, - 0.0378649, - 6.95088e-09, - 0.993161, - -0.116756 - ], + "ImageOrientationPatientDICOM": [0.999273, 0.00445138, 0.0378649, 6.95088e-09, 0.993161, -0.116756], "ImageOrientationText": "Tra>Cor(-6.7)>Sag(2.2)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,16 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-011/dwi/sub-03_ses-011_dir-AP_part-mag_dwi.nii.gz", + "ses-011/dwi/sub-03_ses-011_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +65,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", "SeriesNumber": 7, - "ShimSetting": [ - 636, - -7224, - -8775, - 669, - 48, - 19, - 65, - 12 - ], + "ShimSetting": [636, -7224, -8775, 669, 48, 19, 65, 12], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.3525, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.9375, - 1.0525, - 1.17, - 1.2875, - 1.405, - 1.5225, - 1.6375, - 1.755, - 1.8725, - 1.99, - 2.1075, - 2.2225, - 2.34, - 2.4575, - 2.575, - 2.6925, - 2.8075, - 2.925, - 3.0425, - 3.16, - 3.2775, - 3.3925, - 3.51, - 3.6275, - 3.745, - 3.8625, - 3.9775, - 4.095, - 4.2125, - 4.33, - 4.4475, - 4.5625, - 4.68, - 4.7975, - 4.915, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.5, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.085, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], + "SliceTiming": [0, 0.1175, 0.235, 0.3525, 0.4675, 0.585, 0.7025, 0.82, 0.9375, 1.0525, 1.17, 1.2875, 1.405, 1.5225, 1.6375, 1.755, 1.8725, 1.99, 2.1075, 2.2225, 2.34, 2.4575, 2.575, 2.6925, 2.8075, 2.925, 3.0425, 3.16, 3.2775, 3.3925, 3.51, 3.6275, 3.745, 3.8625, 3.9775, 4.095, 4.2125, 4.33, 4.4475, 4.5625, 4.68, 4.7975, 4.915, 5.03, 5.1475, 5.265, 5.3825, 5.5, 5.615, 5.7325, 5.85, 5.9675, 6.085, 6.2, 6.3175, 6.435, 6.5525], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-03/ses-011/dwi/sub-03_ses-011_dir-PA_part-mag_sbref.json b/sub-03/ses-011/dwi/sub-03_ses-011_dir-PA_part-mag_sbref.json index d02fde3ea9..8ef4408b5d 100644 --- a/sub-03/ses-011/dwi/sub-03_ses-011_dir-PA_part-mag_sbref.json +++ b/sub-03/ses-011/dwi/sub-03_ses-011_dir-PA_part-mag_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999273, - 0.00445138, - 0.0378649, - 6.95088e-09, - 0.993161, - -0.116756 - ], + "ImageOrientationPatientDICOM": [0.999273, 0.00445138, 0.0378649, 6.95088e-09, 0.993161, -0.116756], "ImageOrientationText": "Tra>Cor(-6.7)>Sag(2.2)", "ImageType": [ "ORIGINAL", @@ -33,12 +26,15 @@ "M", "ND", "MOSAIC" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-011/dwi/sub-03_ses-011_dir-AP_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -67,76 +63,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 636, - -7224, - -8775, - 669, - 48, - 19, - 65, - 12 - ], + "ShimSetting": [636, -7224, -8775, 669, 48, 19, 65, 12], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.115, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.285, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.87, - 1.9875, - 2.105, - 2.2225, - 2.3375, - 2.455, - 2.5725, - 2.69, - 2.8075, - 2.9225, - 3.04, - 3.1575, - 3.275, - 3.3925, - 3.5075, - 3.625, - 3.7425, - 3.86, - 3.9775, - 4.0925, - 4.21, - 4.3275, - 4.445, - 4.5625, - 4.6775, - 4.795, - 4.9125, - 5.03, - 5.1475, - 5.2625, - 5.38, - 5.4975, - 5.615, - 5.7325, - 5.8475, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.4325, - 6.55 - ], + "SliceTiming": [0, 0.115, 0.2325, 0.35, 0.4675, 0.585, 0.7, 0.8175, 0.935, 1.0525, 1.17, 1.285, 1.4025, 1.52, 1.6375, 1.755, 1.87, 1.9875, 2.105, 2.2225, 2.3375, 2.455, 2.5725, 2.69, 2.8075, 2.9225, 3.04, 3.1575, 3.275, 3.3925, 3.5075, 3.625, 3.7425, 3.86, 3.9775, 4.0925, 4.21, 4.3275, 4.445, 4.5625, 4.6775, 4.795, 4.9125, 5.03, 5.1475, 5.2625, 5.38, 5.4975, 5.615, 5.7325, 5.8475, 5.965, 6.0825, 6.2, 6.3175, 6.4325, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-03/ses-011/dwi/sub-03_ses-011_dir-PA_part-phase_sbref.json b/sub-03/ses-011/dwi/sub-03_ses-011_dir-PA_part-phase_sbref.json index 427858e81a..b5228371e0 100644 --- a/sub-03/ses-011/dwi/sub-03_ses-011_dir-PA_part-phase_sbref.json +++ b/sub-03/ses-011/dwi/sub-03_ses-011_dir-PA_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999273, - 0.00445138, - 0.0378649, - 6.95088e-09, - 0.993161, - -0.116756 - ], + "ImageOrientationPatientDICOM": [0.999273, 0.00445138, 0.0378649, 6.95088e-09, 0.993161, -0.116756], "ImageOrientationText": "Tra>Cor(-6.7)>Sag(2.2)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,15 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-011/dwi/sub-03_ses-011_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +64,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 636, - -7224, - -8775, - 669, - 48, - 19, - 65, - 12 - ], + "ShimSetting": [636, -7224, -8775, 669, 48, 19, 65, 12], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.115, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.285, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.87, - 1.9875, - 2.105, - 2.2225, - 2.3375, - 2.455, - 2.5725, - 2.69, - 2.8075, - 2.9225, - 3.04, - 3.1575, - 3.275, - 3.3925, - 3.5075, - 3.625, - 3.7425, - 3.86, - 3.9775, - 4.0925, - 4.21, - 4.3275, - 4.445, - 4.5625, - 4.6775, - 4.795, - 4.9125, - 5.03, - 5.1475, - 5.2625, - 5.38, - 5.4975, - 5.615, - 5.7325, - 5.8475, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.4325, - 6.55 - ], + "SliceTiming": [0, 0.115, 0.2325, 0.35, 0.4675, 0.585, 0.7, 0.8175, 0.935, 1.0525, 1.17, 1.285, 1.4025, 1.52, 1.6375, 1.755, 1.87, 1.9875, 2.105, 2.2225, 2.3375, 2.455, 2.5725, 2.69, 2.8075, 2.9225, 3.04, 3.1575, 3.275, 3.3925, 3.5075, 3.625, 3.7425, 3.86, 3.9775, 4.0925, 4.21, 4.3275, 4.445, 4.5625, 4.6775, 4.795, 4.9125, 5.03, 5.1475, 5.2625, 5.38, 5.4975, 5.615, 5.7325, 5.8475, 5.965, 6.0825, 6.2, 6.3175, 6.4325, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-AP_run-01_epi.json b/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 97401796df..0000000000 --- a/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,146 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "17:55:49.360000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999273, - 0.00445138, - 0.0378649, - 6.95088e-09, - 0.993161, - -0.116756 - ], - "ImageOrientationText": "Tra>Cor(-6.7)>Sag(2.2)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j-", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_AP_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.11821, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", - "SeriesNumber": 7, - "ShimSetting": [ - 636, - -7224, - -8775, - 669, - 48, - 19, - 65, - 12 - ], - "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.3525, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.9375, - 1.0525, - 1.17, - 1.2875, - 1.405, - 1.5225, - 1.6375, - 1.755, - 1.8725, - 1.99, - 2.1075, - 2.2225, - 2.34, - 2.4575, - 2.575, - 2.6925, - 2.8075, - 2.925, - 3.0425, - 3.16, - 3.2775, - 3.3925, - 3.51, - 3.6275, - 3.745, - 3.8625, - 3.9775, - 4.095, - 4.2125, - 4.33, - 4.4475, - 4.5625, - 4.68, - 4.7975, - 4.915, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.5, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.085, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 207.954, - "WipMemBlock": "4c85eba1-8750-4f14-b88b-bf39491f59c7||Sequence: R017 ve11c/master r/75a17815+; Jun 28 2022 16:41:33 by eja" -} \ No newline at end of file diff --git a/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-AP_run-01_epi.nii.gz b/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-AP_run-01_epi.nii.gz deleted file mode 120000 index bbf22a9e9d..0000000000 --- a/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-AP_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/xx/3q/MD5E-s1149970--823a4233ab13b798dd198ed8d22d65f4.nii.gz/MD5E-s1149970--823a4233ab13b798dd198ed8d22d65f4.nii.gz \ No newline at end of file diff --git a/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-PA_run-01_epi.json b/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-PA_run-01_epi.json deleted file mode 100644 index d02fde3ea9..0000000000 --- a/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-PA_run-01_epi.json +++ /dev/null @@ -1,146 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "18:00:26.245000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999273, - 0.00445138, - 0.0378649, - 6.95088e-09, - 0.993161, - -0.116756 - ], - "ImageOrientationText": "Tra>Cor(-6.7)>Sag(2.2)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.11821, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 12, - "ShimSetting": [ - 636, - -7224, - -8775, - 669, - 48, - 19, - 65, - 12 - ], - "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.115, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.285, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.87, - 1.9875, - 2.105, - 2.2225, - 2.3375, - 2.455, - 2.5725, - 2.69, - 2.8075, - 2.9225, - 3.04, - 3.1575, - 3.275, - 3.3925, - 3.5075, - 3.625, - 3.7425, - 3.86, - 3.9775, - 4.0925, - 4.21, - 4.3275, - 4.445, - 4.5625, - 4.6775, - 4.795, - 4.9125, - 5.03, - 5.1475, - 5.2625, - 5.38, - 5.4975, - 5.615, - 5.7325, - 5.8475, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.4325, - 6.55 - ], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 207.954, - "WipMemBlock": "214c9ea4-dc66-4b6f-86eb-391a37a1151c||Sequence: R017 ve11c/master r/75a17815+; Jun 28 2022 16:41:33 by eja" -} \ No newline at end of file diff --git a/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index a38bb9d46d..0000000000 --- a/sub-03/ses-011/fmap/sub-03_ses-011_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/x7/kq/MD5E-s1143478--53fa0146a464cbe9a5e79d602fc53136.nii.gz/MD5E-s1143478--53fa0146a464cbe9a5e79d602fc53136.nii.gz \ No newline at end of file diff --git a/sub-03/ses-011/sub-03_ses-011_scans.tsv b/sub-03/ses-011/sub-03_ses-011_scans.tsv index 1bcd964ae9..d04a4eea7f 120000 --- a/sub-03/ses-011/sub-03_ses-011_scans.tsv +++ b/sub-03/ses-011/sub-03_ses-011_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/JW/pm/MD5E-s3960--2ab1f4db2dd8b07aebf885337b0458ca.tsv/MD5E-s3960--2ab1f4db2dd8b07aebf885337b0458ca.tsv \ No newline at end of file +../../.git/annex/objects/gf/xx/MD5E-s3770--8d3de3130da8aa947fc360337ae882e9.tsv/MD5E-s3770--8d3de3130da8aa947fc360337ae882e9.tsv \ No newline at end of file diff --git a/sub-04/ses-001/dwi/sub-04_ses-001_dir-AP_sbref.json b/sub-04/ses-001/dwi/sub-04_ses-001_dir-AP_sbref.json index 900a0ab3a9..80d7260112 100644 --- a/sub-04/ses-001/dwi/sub-04_ses-001_dir-AP_sbref.json +++ b/sub-04/ses-001/dwi/sub-04_ses-001_dir-AP_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-001/dwi/sub-04_ses-001_dir-AP_dwi.nii.gz", + "ses-001/dwi/sub-04_ses-001_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-04/ses-001/dwi/sub-04_ses-001_dir-PA_sbref.json b/sub-04/ses-001/dwi/sub-04_ses-001_dir-PA_sbref.json index dfa2371dc2..a0319e25ca 100644 --- a/sub-04/ses-001/dwi/sub-04_ses-001_dir-PA_sbref.json +++ b/sub-04/ses-001/dwi/sub-04_ses-001_dir-PA_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-001/dwi/sub-04_ses-001_dir-AP_dwi.nii.gz", + "ses-001/dwi/sub-04_ses-001_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-04/ses-001/fmap/sub-04_ses-001_acq-sbref_dir-AP_run-01_epi.json b/sub-04/ses-001/fmap/sub-04_ses-001_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 900a0ab3a9..0000000000 --- a/sub-04/ses-001/fmap/sub-04_ses-001_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - 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"SoftwareVersions": "syngo_MR_E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 234.867, - "WipMemBlock": "fd510a97-6bf3-4fed-a1f6-b27ff6800bfc||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 108.0999984741211], - [0.0, 1.879385232925415, -0.6840403079986572, -75.73367309570312], - [0.0, 0.6840403079986572, 1.879385232925415, -62.06096267700195], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "164448.085000", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "164606.921000", - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "17:07:12.937500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.948324, -0.317305], - "ImageOrientationText": "Tra>Cor(-18.5)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - 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"SliceThickness": 2, - "SliceTiming": [0, 0.1225, 0.2425, 0.365, 0.4875, 0.6075, 0.73, 0.8525, 0.975, 1.095, 1.2175, 1.34, 1.46, 1.5825, 1.705, 1.8275, 1.9475, 2.07, 2.1925, 2.3125, 2.435, 2.5575, 2.68, 2.8, 2.9225, 3.045, 3.165, 3.2875, 3.41, 3.53, 3.6525, 3.775, 3.8975, 4.0175, 4.14, 4.2625, 4.3825, 4.505, 4.6275, 4.75, 4.87, 4.9925, 5.115, 5.235, 5.3575, 5.48, 5.6025, 5.7225, 5.845, 5.9675, 6.0875, 6.21, 6.3325, 6.455, 6.575, 6.6975, 6.82], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 226.367, - "WipMemBlock": "e5288939-6565-42b2-a383-2c4bc10a7b06||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 109.49686431884766], - [0.0, 1.896647334098816, -0.6346093416213989, -77.69148254394531], - [0.0, 0.6346093416213989, 1.896647334098816, -55.99557876586914], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - 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"SpacingBetweenSlices": 1.9999999777511, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "163813.502000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10101.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 23236.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-05/ses-004/fmap/sub-05_ses-004_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-05/ses-004/fmap/sub-05_ses-004_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 306c41e954..0000000000 --- a/sub-05/ses-004/fmap/sub-05_ses-004_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/1V/Mq/MD5E-s1146899--3698814cc61bd2d3c6e06df8f7506439.nii.gz/MD5E-s1146899--3698814cc61bd2d3c6e06df8f7506439.nii.gz \ No newline at end of file diff --git a/sub-05/ses-005/dwi/sub-05_ses-005_dir-AP_sbref.json b/sub-05/ses-005/dwi/sub-05_ses-005_dir-AP_sbref.json index 3702272130..5070f374bc 100644 --- a/sub-05/ses-005/dwi/sub-05_ses-005_dir-AP_sbref.json +++ b/sub-05/ses-005/dwi/sub-05_ses-005_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-005/dwi/sub-05_ses-005_dir-AP_dwi.nii.gz", + "ses-005/dwi/sub-05_ses-005_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-05/ses-005/dwi/sub-05_ses-005_dir-PA_sbref.json b/sub-05/ses-005/dwi/sub-05_ses-005_dir-PA_sbref.json index 25e9c9e908..c411ef6df2 100644 --- a/sub-05/ses-005/dwi/sub-05_ses-005_dir-PA_sbref.json +++ b/sub-05/ses-005/dwi/sub-05_ses-005_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-005/dwi/sub-05_ses-005_dir-AP_dwi.nii.gz", + "ses-005/dwi/sub-05_ses-005_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-05/ses-005/fmap/sub-05_ses-005_acq-sbref_dir-AP_run-01_epi.json b/sub-05/ses-005/fmap/sub-05_ses-005_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 3702272130..0000000000 --- a/sub-05/ses-005/fmap/sub-05_ses-005_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "18:35:1.607500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.949425, -0.313992], - "ImageOrientationText": "Tra>Cor(-18.3)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "17:53:15.230000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.939693, -0.34202], - "ImageOrientationText": "Tra>Cor(-20.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - 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"SliceThickness": 2, - "SliceTiming": [0, 0.1225, 0.245, 0.365, 0.4875, 0.61, 0.7325, 0.8525, 0.975, 1.0975, 1.2175, 1.34, 1.4625, 1.585, 1.705, 1.8275, 1.95, 2.07, 2.1925, 2.315, 2.4375, 2.5575, 2.68, 2.8025, 2.9225, 3.045, 3.1675, 3.29, 3.41, 3.5325, 3.655, 3.775, 3.8975, 4.02, 4.1425, 4.2625, 4.385, 4.5075, 4.6275, 4.75, 4.8725, 4.995, 5.115, 5.2375, 5.36, 5.48, 5.6025, 5.725, 5.8475, 5.9675, 6.09, 6.2125, 6.3325, 6.455, 6.5775, 6.7, 6.82], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 236, - "WipMemBlock": "456bcab6-2b09-4619-85be-41d6fb8d2a55||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 109.49686431884766], - [0.0, 1.879385232925415, -0.6840403079986572, -77.78489685058594], - [0.0, 0.6840403079986572, 1.879385232925415, -75.04898834228516], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "175315.230000", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "175414.820000", - "EchoNumbers": 1, - "EchoTime": 81.6, - "EchoTrainLength": 83, - "FlipAngle": 78.0, - "HighBit": 15, - "ImageOrientationPatient": [1.0, 0.0, 0.0, 0.0, 0.93969261856831, -0.3420201494185], - "ImagePositionPatient": [-879.49686384201, -850.63140672964, 262.86692216208], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagedNucleus": "1H", - "ImagingFrequency": 123.258922, - "InPlanePhaseEncodingDirection": "COL", - "InstanceCreationTime": "175414.820000", - "InstanceNumber": 1, - "LargestImagePixelValue": 65535, - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "173002.866000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.13292955842582, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "175414.817000", - "SliceLocation": -43.918974408236, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2.0000000195329, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "173002.809000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9889.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 22666.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-05/ses-006/fmap/sub-05_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-05/ses-006/fmap/sub-05_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 0b0221c5aa..0000000000 --- a/sub-05/ses-006/fmap/sub-05_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/3p/pj/MD5E-s1150444--d28425917b58cdad51d0b47700cc16ff.nii.gz/MD5E-s1150444--d28425917b58cdad51d0b47700cc16ff.nii.gz \ No newline at end of file diff --git a/sub-05/ses-007/dwi/sub-05_ses-007_dir-AP_sbref.json b/sub-05/ses-007/dwi/sub-05_ses-007_dir-AP_sbref.json index dfec885a1a..5e528fbe35 100644 --- a/sub-05/ses-007/dwi/sub-05_ses-007_dir-AP_sbref.json +++ b/sub-05/ses-007/dwi/sub-05_ses-007_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-007/dwi/sub-05_ses-007_dir-AP_dwi.nii.gz", + "ses-007/dwi/sub-05_ses-007_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-05/ses-007/dwi/sub-05_ses-007_dir-PA_sbref.json b/sub-05/ses-007/dwi/sub-05_ses-007_dir-PA_sbref.json index e7db8ec78d..0396197070 100644 --- a/sub-05/ses-007/dwi/sub-05_ses-007_dir-PA_sbref.json +++ b/sub-05/ses-007/dwi/sub-05_ses-007_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-007/dwi/sub-05_ses-007_dir-AP_dwi.nii.gz", + "ses-007/dwi/sub-05_ses-007_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-05/ses-007/fmap/sub-05_ses-007_acq-sbref_dir-AP_run-01_epi.json b/sub-05/ses-007/fmap/sub-05_ses-007_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index dfec885a1a..0000000000 --- a/sub-05/ses-007/fmap/sub-05_ses-007_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"SpacingBetweenSlices": 2.0000000125988, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "151819.473000", - "TransmitCoilName": "Body", - "TriggerTime": 1622.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10220.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 23708.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-05/ses-008/fmap/sub-05_ses-008_acq-sbref_dir-AP_run-01_epi.nii.gz b/sub-05/ses-008/fmap/sub-05_ses-008_acq-sbref_dir-AP_run-01_epi.nii.gz deleted file mode 120000 index 277fb22bb8..0000000000 --- a/sub-05/ses-008/fmap/sub-05_ses-008_acq-sbref_dir-AP_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/73/p7/MD5E-s1170669--aa4d137db02f5eebcadf04bde5a2c4c4.nii.gz/MD5E-s1170669--aa4d137db02f5eebcadf04bde5a2c4c4.nii.gz \ No newline at end of file diff --git a/sub-05/ses-008/fmap/sub-05_ses-008_acq-sbref_dir-PA_run-01_epi.json b/sub-05/ses-008/fmap/sub-05_ses-008_acq-sbref_dir-PA_run-01_epi.json deleted file mode 100644 index b7ee5c3612..0000000000 --- a/sub-05/ses-008/fmap/sub-05_ses-008_acq-sbref_dir-PA_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "15:42:54.377500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.920505, -0.390731], - "ImageOrientationText": "Tra>Cor(-23.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-7", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.13856, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "ShimSetting": [611, -7282, -8832, 422, 18, -435, 46, 41], - "SliceThickness": 2, - "SliceTiming": [0, 0.115, 0.2325, 0.35, 0.4675, 0.585, 0.7, 0.8175, 0.935, 1.0525, 1.17, 1.285, 1.4025, 1.52, 1.6375, 1.755, 1.87, 1.9875, 2.105, 2.2225, 2.34, 2.455, 2.5725, 2.69, 2.8075, 2.925, 3.04, 3.1575, 3.275, 3.3925, 3.5075, 3.625, 3.7425, 3.86, 3.9775, 4.0925, 4.21, 4.3275, 4.445, 4.5625, 4.6775, 4.795, 4.9125, 5.03, 5.1475, 5.2625, 5.38, 5.4975, 5.615, 5.7325, 5.8475, 5.965, 6.0825, 6.2, 6.3175, 6.4325, 6.55], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 234.332, - "WipMemBlock": "42178e7f-51a4-4675-b7f4-f078afb3bbb6||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 106.80311584472656], - [0.0, 1.8410097360610962, -0.7814622521400452, -67.00753021240234], - [0.0, 0.7814622521400452, 1.8410097360610962, -67.70045471191406], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "154254.377500", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "154407.436000", - "EchoNumbers": 1, - "EchoTime": 76.8, - "EchoTrainLength": 83, - "FlipAngle": 78.0, - "HighBit": 15, - "ImageOrientationPatient": [1.0, 0.0, 0.0, 0.0, 0.92050485079851, -0.3907311347415], - "ImagePositionPatient": [-876.80311942101, -842.45125875396, 318.34190893327], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagedNucleus": "1H", - "ImagingFrequency": 123.258813, - "InPlanePhaseEncodingDirection": "COL", - "InstanceCreationTime": "154407.436000", - "InstanceNumber": 1, - "LargestImagePixelValue": 65535, - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "151819.552000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "RepetitionTime": 2243.0, - "Rows": 880, - "SAR": 0.13855953348667, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "154407.433000", - "SliceLocation": -36.136664911838, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2.0000000125988, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "151819.473000", - "TransmitCoilName": "Body", - "TriggerTime": 1622.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10258.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 23396.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-05/ses-008/fmap/sub-05_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-05/ses-008/fmap/sub-05_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 36ad3ef9f2..0000000000 --- a/sub-05/ses-008/fmap/sub-05_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/z6/3P/MD5E-s1152770--53b3794b5a2ef3a1f4bc686a7a3e5669.nii.gz/MD5E-s1152770--53b3794b5a2ef3a1f4bc686a7a3e5669.nii.gz \ No newline at end of file diff --git a/sub-05/ses-008/sub-05_ses-008_scans.tsv b/sub-05/ses-008/sub-05_ses-008_scans.tsv index d06103cc5c..d7148f7621 120000 --- a/sub-05/ses-008/sub-05_ses-008_scans.tsv +++ b/sub-05/ses-008/sub-05_ses-008_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/f8/j5/MD5E-s3323--501db004b87569db60574d3ac6473d60.tsv/MD5E-s3323--501db004b87569db60574d3ac6473d60.tsv \ No newline at end of file +../../.git/annex/objects/J7/Z3/MD5E-s3131--f2f49cc9429dd19df83c607df3083b4f.tsv/MD5E-s3131--f2f49cc9429dd19df83c607df3083b4f.tsv \ No newline at end of file diff --git a/sub-05/ses-009/dwi/sub-05_ses-009_dir-AP_part-phase_sbref.json b/sub-05/ses-009/dwi/sub-05_ses-009_dir-AP_part-phase_sbref.json index 16563ea635..21d6a1ea33 100644 --- a/sub-05/ses-009/dwi/sub-05_ses-009_dir-AP_part-phase_sbref.json +++ b/sub-05/ses-009/dwi/sub-05_ses-009_dir-AP_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999976, - 0.00186562, - 0.00672736, - 4.22345e-08, - 0.96363, - -0.267238 - ], + "ImageOrientationPatientDICOM": [0.999976, 0.00186562, 0.00672736, 4.22345e-08, 0.96363, -0.267238], "ImageOrientationText": "Tra>Cor(-15.5)>Sag(0.4)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,16 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-009/dwi/sub-05_ses-009_dir-AP_part-mag_dwi.nii.gz", + "ses-009/dwi/sub-05_ses-009_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +65,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", "SeriesNumber": 7, - "ShimSetting": [ - 604, - -7270, - -8812, - 449, - 9, - -315, - 43, - 36 - ], + "ShimSetting": [604, -7270, -8812, 449, 9, -315, 43, 36], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], + "SliceTiming": [0, 0.1175, 0.235, 0.35, 0.4675, 0.585, 0.7025, 0.82, 0.935, 1.0525, 1.17, 1.2875, 1.4025, 1.52, 1.6375, 1.755, 1.8725, 1.9875, 2.105, 2.2225, 2.34, 2.4575, 2.5725, 2.69, 2.8075, 2.925, 3.0425, 3.1575, 3.275, 3.3925, 3.51, 3.6275, 3.7425, 3.86, 3.9775, 4.095, 4.2125, 4.3275, 4.445, 4.5625, 4.68, 4.7975, 4.9125, 5.03, 5.1475, 5.265, 5.3825, 5.4975, 5.615, 5.7325, 5.85, 5.9675, 6.0825, 6.2, 6.3175, 6.435, 6.5525], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-05/ses-009/dwi/sub-05_ses-009_dir-PA_part-mag_sbref.json b/sub-05/ses-009/dwi/sub-05_ses-009_dir-PA_part-mag_sbref.json index f100cd47a3..a2e8a2350b 100644 --- a/sub-05/ses-009/dwi/sub-05_ses-009_dir-PA_part-mag_sbref.json +++ b/sub-05/ses-009/dwi/sub-05_ses-009_dir-PA_part-mag_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999976, - 0.00186562, - 0.00672736, - 4.22345e-08, - 0.96363, - -0.267238 - ], + "ImageOrientationPatientDICOM": [0.999976, 0.00186562, 0.00672736, 4.22345e-08, 0.96363, -0.267238], "ImageOrientationText": "Tra>Cor(-15.5)>Sag(0.4)", "ImageType": [ "ORIGINAL", @@ -33,12 +26,15 @@ "M", "ND", "MOSAIC" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-009/dwi/sub-05_ses-009_dir-AP_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -67,76 +63,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 604, - -7270, - -8812, - 449, - 9, - -315, - 43, - 36 - ], + "ShimSetting": [604, -7270, -8812, 449, 9, -315, 43, 36], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.55 - ], + "SliceTiming": [0, 0.1175, 0.2325, 0.35, 0.4675, 0.585, 0.7025, 0.8175, 0.935, 1.0525, 1.17, 1.2875, 1.4025, 1.52, 1.6375, 1.755, 1.8725, 1.9875, 2.105, 2.2225, 2.34, 2.4575, 2.5725, 2.69, 2.8075, 2.925, 3.0425, 3.1575, 3.275, 3.3925, 3.51, 3.6275, 3.7425, 3.86, 3.9775, 4.095, 4.2125, 4.3275, 4.445, 4.5625, 4.68, 4.7975, 4.9125, 5.03, 5.1475, 5.265, 5.3825, 5.4975, 5.615, 5.7325, 5.85, 5.965, 6.0825, 6.2, 6.3175, 6.435, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-05/ses-009/dwi/sub-05_ses-009_dir-PA_part-phase_sbref.json b/sub-05/ses-009/dwi/sub-05_ses-009_dir-PA_part-phase_sbref.json index bd188a07aa..bbf9d48b43 100644 --- a/sub-05/ses-009/dwi/sub-05_ses-009_dir-PA_part-phase_sbref.json +++ b/sub-05/ses-009/dwi/sub-05_ses-009_dir-PA_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999976, - 0.00186562, - 0.00672736, - 4.22345e-08, - 0.96363, - -0.267238 - ], + "ImageOrientationPatientDICOM": [0.999976, 0.00186562, 0.00672736, 4.22345e-08, 0.96363, -0.267238], "ImageOrientationText": "Tra>Cor(-15.5)>Sag(0.4)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,15 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-009/dwi/sub-05_ses-009_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +64,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 604, - -7270, - -8812, - 449, - 9, - -315, - 43, - 36 - ], + "ShimSetting": [604, -7270, -8812, 449, 9, -315, 43, 36], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.55 - ], + "SliceTiming": [0, 0.1175, 0.2325, 0.35, 0.4675, 0.585, 0.7025, 0.8175, 0.935, 1.0525, 1.17, 1.2875, 1.4025, 1.52, 1.6375, 1.755, 1.8725, 1.9875, 2.105, 2.2225, 2.34, 2.4575, 2.5725, 2.69, 2.8075, 2.925, 3.0425, 3.1575, 3.275, 3.3925, 3.51, 3.6275, 3.7425, 3.86, 3.9775, 4.095, 4.2125, 4.3275, 4.445, 4.5625, 4.68, 4.7975, 4.9125, 5.03, 5.1475, 5.265, 5.3825, 5.4975, 5.615, 5.7325, 5.85, 5.965, 6.0825, 6.2, 6.3175, 6.435, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-AP_run-01_epi.json b/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index c4ebaab93b..0000000000 --- a/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,146 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "16:31:44.982500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999976, - 0.00186562, - 0.00672736, - 4.22345e-08, - 0.96363, - -0.267238 - ], - "ImageOrientationText": "Tra>Cor(-15.5)>Sag(0.4)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j-", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_AP_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.142309, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", - "SeriesNumber": 7, - "ShimSetting": [ - 604, - -7270, - -8812, - 449, - 9, - -315, - 43, - 36 - ], - "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 241.351, - "WipMemBlock": "92a4bc2d-d96c-4d7d-ba16-f1256130dfbe||Sequence: R017 ve11c/master r/75a17815+; Jun 28 2022 16:41:33 by eja" -} \ No newline at end of file diff --git a/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-AP_run-01_epi.nii.gz b/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-AP_run-01_epi.nii.gz deleted file mode 120000 index 4957eee264..0000000000 --- a/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-AP_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/56/J5/MD5E-s1166917--08585cc93678bc5bb8a332eae542b11c.nii.gz/MD5E-s1166917--08585cc93678bc5bb8a332eae542b11c.nii.gz \ No newline at end of file diff --git a/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-PA_run-01_epi.json b/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-PA_run-01_epi.json deleted file mode 100644 index f100cd47a3..0000000000 --- a/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-PA_run-01_epi.json +++ /dev/null @@ -1,146 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "16:36:2.692500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999976, - 0.00186562, - 0.00672736, - 4.22345e-08, - 0.96363, - -0.267238 - ], - "ImageOrientationText": "Tra>Cor(-15.5)>Sag(0.4)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.142309, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 12, - "ShimSetting": [ - 604, - -7270, - -8812, - 449, - 9, - -315, - 43, - 36 - ], - "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.55 - ], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 241.351, - "WipMemBlock": "e48c1f0f-7a39-4deb-916d-32a455364dc3||Sequence: R017 ve11c/master r/75a17815+; Jun 28 2022 16:41:33 by eja" -} \ No newline at end of file diff --git a/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index e0272abb35..0000000000 --- a/sub-05/ses-009/fmap/sub-05_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/72/k6/MD5E-s1157246--d8fa75ce2b9274d655679f929eeea5cc.nii.gz/MD5E-s1157246--d8fa75ce2b9274d655679f929eeea5cc.nii.gz \ No newline at end of file diff --git a/sub-05/ses-009/sub-05_ses-009_scans.tsv b/sub-05/ses-009/sub-05_ses-009_scans.tsv index 7173941ecd..a5e3c18a20 120000 --- a/sub-05/ses-009/sub-05_ses-009_scans.tsv +++ b/sub-05/ses-009/sub-05_ses-009_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/MX/9p/MD5E-s3918--d4de0fa722576df878acf451f669d7fd.tsv/MD5E-s3918--d4de0fa722576df878acf451f669d7fd.tsv \ No newline at end of file +../../.git/annex/objects/kG/Pp/MD5E-s3728--762c964c278a59a23ff542a7b2d6b5bd.tsv/MD5E-s3728--762c964c278a59a23ff542a7b2d6b5bd.tsv \ No newline at end of file diff --git a/sub-06/ses-001/dwi/sub-06_ses-001_dir-AP_sbref.json b/sub-06/ses-001/dwi/sub-06_ses-001_dir-AP_sbref.json index ce1dfed161..10c2571ee4 100644 --- a/sub-06/ses-001/dwi/sub-06_ses-001_dir-AP_sbref.json +++ b/sub-06/ses-001/dwi/sub-06_ses-001_dir-AP_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-001/dwi/sub-06_ses-001_dir-AP_dwi.nii.gz", + "ses-001/dwi/sub-06_ses-001_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-001/dwi/sub-06_ses-001_dir-PA_sbref.json b/sub-06/ses-001/dwi/sub-06_ses-001_dir-PA_sbref.json index 9244ed12a9..1bab241312 100644 --- a/sub-06/ses-001/dwi/sub-06_ses-001_dir-PA_sbref.json +++ b/sub-06/ses-001/dwi/sub-06_ses-001_dir-PA_sbref.json @@ -29,6 +29,10 @@ "InstitutionAddress": "Chemin_Queen-Mary_4565_Montreal_District_CA_H3W_1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-001/dwi/sub-06_ses-001_dir-AP_dwi.nii.gz", + "ses-001/dwi/sub-06_ses-001_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-001/fmap/sub-06_ses-001_acq-sbref_dir-AP_run-01_epi.json b/sub-06/ses-001/fmap/sub-06_ses-001_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index ce1dfed161..0000000000 --- a/sub-06/ses-001/fmap/sub-06_ses-001_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,164 +0,0 @@ -{ - 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"SoftwareVersions": "syngo_MR_E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 227.608, - "WipMemBlock": "08b74fd2-b1e8-4fde-8440-f6400dc01198||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 109.49686431884766], - [0.0, 1.891037106513977, -0.6511363387107849, -74.5161361694336], - [0.0, 0.6511363387107849, 1.891037106513977, -66.3695068359375], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "154747.175000", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "154854.697000", - 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"PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.11964531704511, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "111705.105000", - "SliceLocation": -30.352309746211, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999602769, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "105714.441000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9630.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21852.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-06/ses-004/fmap/sub-06_ses-004_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-06/ses-004/fmap/sub-06_ses-004_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 2bf6105662..0000000000 --- a/sub-06/ses-004/fmap/sub-06_ses-004_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/3m/WM/MD5E-s1115532--2c5978618305002db75c1e2b94cd4c7c.nii.gz/MD5E-s1115532--2c5978618305002db75c1e2b94cd4c7c.nii.gz \ No newline at end of file diff --git a/sub-06/ses-004/sub-06_ses-004_scans.tsv b/sub-06/ses-004/sub-06_ses-004_scans.tsv index 4734d8c0a7..ae9aa677cf 120000 --- a/sub-06/ses-004/sub-06_ses-004_scans.tsv +++ b/sub-06/ses-004/sub-06_ses-004_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/VV/Xf/MD5E-s3059--63c3dc1260e270039d42ddecc5548380.tsv/MD5E-s3059--63c3dc1260e270039d42ddecc5548380.tsv \ No newline at end of file +../../.git/annex/objects/2W/pj/MD5E-s2881--e86768a1cd516a826de042d436b9e62d.tsv/MD5E-s2881--e86768a1cd516a826de042d436b9e62d.tsv \ No newline at end of file diff --git a/sub-06/ses-005/dwi/sub-06_ses-005_dir-AP_sbref.json b/sub-06/ses-005/dwi/sub-06_ses-005_dir-AP_sbref.json index 8facf80a78..5239787bb9 100644 --- a/sub-06/ses-005/dwi/sub-06_ses-005_dir-AP_sbref.json +++ b/sub-06/ses-005/dwi/sub-06_ses-005_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-005/dwi/sub-06_ses-005_dir-AP_dwi.nii.gz", + "ses-005/dwi/sub-06_ses-005_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-005/dwi/sub-06_ses-005_dir-PA_sbref.json b/sub-06/ses-005/dwi/sub-06_ses-005_dir-PA_sbref.json index c33c7c8f44..a1a3d8adca 100644 --- a/sub-06/ses-005/dwi/sub-06_ses-005_dir-PA_sbref.json +++ b/sub-06/ses-005/dwi/sub-06_ses-005_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-005/dwi/sub-06_ses-005_dir-AP_dwi.nii.gz", + "ses-005/dwi/sub-06_ses-005_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-005/fmap/sub-06_ses-005_acq-sbref_dir-AP_run-01_epi.json b/sub-06/ses-005/fmap/sub-06_ses-005_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 8facf80a78..0000000000 --- a/sub-06/ses-005/fmap/sub-06_ses-005_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"SpacingBetweenSlices": 2.0000000396811, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "142927.390000", - "TransmitCoilName": "Body", - "TriggerTime": 1625.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9469.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 21339.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-06/ses-005/fmap/sub-06_ses-005_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-06/ses-005/fmap/sub-06_ses-005_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 29a323ff3d..0000000000 --- a/sub-06/ses-005/fmap/sub-06_ses-005_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/Mp/KK/MD5E-s1127622--b4892f0de7720a82d2fa6251264851aa.nii.gz/MD5E-s1127622--b4892f0de7720a82d2fa6251264851aa.nii.gz \ No newline at end of file diff --git a/sub-06/ses-006/dwi/sub-06_ses-006_dir-AP_sbref.json b/sub-06/ses-006/dwi/sub-06_ses-006_dir-AP_sbref.json index c87669c41e..c7d30aa47c 100644 --- a/sub-06/ses-006/dwi/sub-06_ses-006_dir-AP_sbref.json +++ b/sub-06/ses-006/dwi/sub-06_ses-006_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-006/dwi/sub-06_ses-006_dir-AP_dwi.nii.gz", + "ses-006/dwi/sub-06_ses-006_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-006/dwi/sub-06_ses-006_dir-PA_sbref.json b/sub-06/ses-006/dwi/sub-06_ses-006_dir-PA_sbref.json index ed641296b2..7de5910730 100644 --- a/sub-06/ses-006/dwi/sub-06_ses-006_dir-PA_sbref.json +++ b/sub-06/ses-006/dwi/sub-06_ses-006_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-006/dwi/sub-06_ses-006_dir-AP_dwi.nii.gz", + "ses-006/dwi/sub-06_ses-006_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-AP_run-01_epi.json b/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index c87669c41e..0000000000 --- a/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "15:37:55.447500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.939693, -0.34202], - "ImageOrientationText": "Tra>Cor(-20.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - 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"SliceThickness": 2, - "SliceTiming": [0, 0.1225, 0.245, 0.365, 0.4875, 0.61, 0.7325, 0.8525, 0.975, 1.0975, 1.2175, 1.34, 1.4625, 1.585, 1.705, 1.8275, 1.95, 2.07, 2.1925, 2.315, 2.4375, 2.5575, 2.68, 2.8025, 2.9225, 3.045, 3.1675, 3.29, 3.41, 3.5325, 3.655, 3.775, 3.8975, 4.02, 4.1425, 4.2625, 4.385, 4.5075, 4.6275, 4.75, 4.8725, 4.995, 5.115, 5.2375, 5.36, 5.48, 5.6025, 5.725, 5.845, 5.9675, 6.09, 6.2125, 6.3325, 6.455, 6.5775, 6.6975, 6.82], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 214.528, - "WipMemBlock": "e6c39dda-26f0-40cb-8c0b-6bd29da287f0||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 109.49686431884766], - [0.0, 1.879385232925415, -0.6840403079986572, -71.76080322265625], - [0.0, 0.6840403079986572, 1.879385232925415, -72.51885986328125], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "153755.447500", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "153857.254000", - "EchoNumbers": 1, - "EchoTime": 81.6, - "EchoTrainLength": 83, - "FlipAngle": 78.0, - "HighBit": 15, - "ImageOrientationPatient": [1.0, 0.0, 0.0, 0.0, 0.93969261856831, -0.3420201494185], - "ImagePositionPatient": [-879.49686384201, -856.65550226492, 265.39704682639], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagedNucleus": "1H", - "ImagingFrequency": 123.258979, - "InPlanePhaseEncodingDirection": "COL", - "InstanceCreationTime": "153857.254000", - "InstanceNumber": 1, - "LargestImagePixelValue": 65535, - 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"SpacingBetweenSlices": 1.9999999555214, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "145508.122000", - "TransmitCoilName": "Body", - "TriggerTime": 1627.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10157.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 23315.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-AP_run-01_epi.nii.gz b/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-AP_run-01_epi.nii.gz deleted file mode 120000 index 42f25393d6..0000000000 --- a/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-AP_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/XW/qp/MD5E-s1149163--7e60da63228c84c1e75cc1f82580db0d.nii.gz/MD5E-s1149163--7e60da63228c84c1e75cc1f82580db0d.nii.gz \ No newline at end of file diff --git a/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-PA_run-01_epi.json b/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-PA_run-01_epi.json deleted file mode 100644 index ed641296b2..0000000000 --- a/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-PA_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "15:42:6.847500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0816, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.939693, -0.34202], - "ImageOrientationText": "Tra>Cor(-20.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.334, - "SAR": 0.103183, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "ShimSetting": [629, -7258, -8841, 675, 12, -244, 0, -40], - "SliceThickness": 2, - "SliceTiming": [0, 0.12, 0.2425, 0.365, 0.485, 0.6075, 0.73, 0.8525, 0.9725, 1.095, 1.2175, 1.3375, 1.46, 1.5825, 1.705, 1.825, 1.9475, 2.07, 2.19, 2.3125, 2.435, 2.5575, 2.6775, 2.8, 2.9225, 3.0425, 3.165, 3.2875, 3.41, 3.53, 3.6525, 3.775, 3.895, 4.0175, 4.14, 4.2625, 4.3825, 4.505, 4.6275, 4.7475, 4.87, 4.9925, 5.1125, 5.235, 5.3575, 5.48, 5.6, 5.7225, 5.845, 5.965, 6.0875, 6.21, 6.3325, 6.4525, 6.575, 6.6975, 6.8175], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 214.528, - "WipMemBlock": "08fee318-54ed-48f5-9b38-790d7a29131c||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja", - "dcmmeta_affine": [ - [-2.0, 0.0, 0.0, 109.49686431884766], - [0.0, 1.879385232925415, -0.6840403079986572, -71.76080322265625], - [0.0, 0.6840403079986572, 1.879385232925415, -72.51885986328125], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_reorient_transform": [ - [0.0, -1.0, 0.0, 109.0], - [1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "154206.847500", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "154312.685000", - "EchoNumbers": 1, - "EchoTime": 81.6, - "EchoTrainLength": 83, - "FlipAngle": 78.0, - "HighBit": 15, - "ImageOrientationPatient": [1.0, 0.0, 0.0, 0.0, 0.93969261856831, -0.3420201494185], - "ImagePositionPatient": [-879.49686384201, -856.65550226492, 265.39704682639], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagedNucleus": "1H", - "ImagingFrequency": 123.258983, - "InPlanePhaseEncodingDirection": "COL", - "InstanceCreationTime": "154312.685000", - "InstanceNumber": 1, - "LargestImagePixelValue": 65535, - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "145508.201000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.10318282302041, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "154312.681000", - "SliceLocation": -43.601796992216, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999555214, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "145508.122000", - "TransmitCoilName": "Body", - "TriggerTime": 1625.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10062.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 23084.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 74eadb82eb..0000000000 --- a/sub-06/ses-006/fmap/sub-06_ses-006_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/FF/0W/MD5E-s1138619--b15938b2ff9617a47a403fa28158c8dc.nii.gz/MD5E-s1138619--b15938b2ff9617a47a403fa28158c8dc.nii.gz \ No newline at end of file diff --git a/sub-06/ses-007/dwi/sub-06_ses-007_dir-AP_sbref.json b/sub-06/ses-007/dwi/sub-06_ses-007_dir-AP_sbref.json index 371cf57f85..a0a7595ddb 100644 --- a/sub-06/ses-007/dwi/sub-06_ses-007_dir-AP_sbref.json +++ b/sub-06/ses-007/dwi/sub-06_ses-007_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-007/dwi/sub-06_ses-007_dir-AP_dwi.nii.gz", + "ses-007/dwi/sub-06_ses-007_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-007/dwi/sub-06_ses-007_dir-PA_sbref.json b/sub-06/ses-007/dwi/sub-06_ses-007_dir-PA_sbref.json index 908c465e1b..3af294dfdf 100644 --- a/sub-06/ses-007/dwi/sub-06_ses-007_dir-PA_sbref.json +++ b/sub-06/ses-007/dwi/sub-06_ses-007_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-007/dwi/sub-06_ses-007_dir-AP_dwi.nii.gz", + "ses-007/dwi/sub-06_ses-007_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-007/fmap/sub-06_ses-007_acq-sbref_dir-AP_run-01_epi.json b/sub-06/ses-007/fmap/sub-06_ses-007_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 371cf57f85..0000000000 --- a/sub-06/ses-007/fmap/sub-06_ses-007_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"InstanceNumber": 1, - "LargestImagePixelValue": 65535, - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "150838.026000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir98_PA_test_cmrr", - "RepetitionTime": 2334.0, - "Rows": 880, - "SAR": 0.11009049826639, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir98_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "154510.191000", - "SliceLocation": -35.360063335735, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2.0000000088675, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "2", - "StudyTime": "150837.968000", - "TransmitCoilName": "Body", - "TriggerTime": 1625.0, - "VariableFlipAngleFlag": "N", - "WindowCenter": 9925.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 22515.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-06/ses-008/fmap/sub-06_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-06/ses-008/fmap/sub-06_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index a4240f29b3..0000000000 --- a/sub-06/ses-008/fmap/sub-06_ses-008_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/jw/Qj/MD5E-s1135563--dc79d36d0506c1318f44ee5820089c7a.nii.gz/MD5E-s1135563--dc79d36d0506c1318f44ee5820089c7a.nii.gz \ No newline at end of file diff --git a/sub-06/ses-009/dwi/sub-06_ses-009_dir-AP_sbref.json b/sub-06/ses-009/dwi/sub-06_ses-009_dir-AP_sbref.json index 314232a84e..69b09590d3 100644 --- a/sub-06/ses-009/dwi/sub-06_ses-009_dir-AP_sbref.json +++ b/sub-06/ses-009/dwi/sub-06_ses-009_dir-AP_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-009/dwi/sub-06_ses-009_dir-AP_dwi.nii.gz", + "ses-009/dwi/sub-06_ses-009_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-009/dwi/sub-06_ses-009_dir-PA_sbref.json b/sub-06/ses-009/dwi/sub-06_ses-009_dir-PA_sbref.json index 147d8ccce8..30db411de1 100644 --- a/sub-06/ses-009/dwi/sub-06_ses-009_dir-PA_sbref.json +++ b/sub-06/ses-009/dwi/sub-06_ses-009_dir-PA_sbref.json @@ -32,6 +32,10 @@ "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-009/dwi/sub-06_ses-009_dir-AP_dwi.nii.gz", + "ses-009/dwi/sub-06_ses-009_dir-PA_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", diff --git a/sub-06/ses-009/fmap/sub-06_ses-009_acq-sbref_dir-AP_run-01_epi.json b/sub-06/ses-009/fmap/sub-06_ses-009_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 314232a84e..0000000000 --- a/sub-06/ses-009/fmap/sub-06_ses-009_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,169 +0,0 @@ -{ - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "15:34:45.485000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1", - "ImageOrientationPatientDICOM": [1, 0, 0, 0, 0.970296, -0.241922], - "ImageOrientationText": "Tra>Cor(-14.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-6", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.112858, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "ShimSetting": [623, -7270, -8827, 596, -25, -285, -9, -27], - 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[1.0, 0.0, 0.0, 0.0], - [0.0, 0.0, 1.0, 0.0], - [0.0, 0.0, 0.0, 1.0] -], - "dcmmeta_shape": [110, 110, 57], - "dcmmeta_slice_dim": 2, - "dcmmeta_version": 0.6, - "global": { - "const": { - "AcquisitionMatrix": [110, 0, 0, 110], - "AcquisitionNumber": 1, - "AcquisitionTime": "153445.485000", - "AngioFlag": "N", - "BitsAllocated": 16, - "BitsStored": 16, - "BodyPartExamined": "BRAIN", - "CardiacNumberOfImages": 1, - "Columns": 880, - "ContentTime": "153550.416000", - "EchoNumbers": 1, - "EchoTime": 76.8, - "EchoTrainLength": 83, - "FlipAngle": 78.0, - "HighBit": 15, - "ImageOrientationPatient": [1.0, 0.0, 0.0, 0.0, 0.97029572723357, -0.241921891759], - "ImagePositionPatient": [-879.49686384201, -878.87230394564, 181.64499552189], - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" -], - "ImagedNucleus": "1H", - "ImagingFrequency": 123.258838, - "InPlanePhaseEncodingDirection": "COL", - "InstanceCreationTime": "153550.416000", - "InstanceNumber": 1, - "LargestImagePixelValue": 65535, - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3.0, - "Manufacturer": "SIEMENS", - "ManufacturerModelName": "Prisma_fit", - "Modality": "MR", - "NominalInterval": 0, - "NumberOfAverages": 1.0, - "NumberOfPhaseEncodingSteps": 83, - "PercentPhaseFieldOfView": 100.0, - "PercentSampling": 100.0, - "PerformedProcedureStepStartTime": "142848.543000", - "PhotometricInterpretation": "MONOCHROME2", - "PixelBandwidth": 1685.0, - "PixelRepresentation": 0, - "PixelSpacing": [2.0, 2.0], - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "RepetitionTime": 2243.0, - "Rows": 880, - "SAR": 0.11285815447839, - "SamplesPerPixel": 1, - "ScanOptions": [ - "PFP", - "EXT" -], - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": [ - "SK", - "SS" -], - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 10, - "SeriesTime": "153550.413000", - "SliceLocation": -36.369087356914, - "SliceThickness": 2.0, - "SmallestImagePixelValue": 0, - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 1.9999999542468, - "SpecificCharacterSet": "ISO_IR 100", - "StudyID": "1", - "StudyTime": "142848.413000", - "TransmitCoilName": "Body", - "TriggerTime": 1622.5, - "VariableFlipAngleFlag": "N", - "WindowCenter": 10217.0, - "WindowCenterWidthExplanation": "Algo1", - "WindowWidth": 23403.0, - "dBdt": 0.0}, - "slices": {} - } -} \ No newline at end of file diff --git a/sub-06/ses-009/fmap/sub-06_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-06/ses-009/fmap/sub-06_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 22b63827af..0000000000 --- a/sub-06/ses-009/fmap/sub-06_ses-009_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/pZ/7v/MD5E-s1144433--1da5d991876395c92943d3c5c6bea4fe.nii.gz/MD5E-s1144433--1da5d991876395c92943d3c5c6bea4fe.nii.gz \ No newline at end of file diff --git a/sub-06/ses-010/dwi/sub-06_ses-010_dir-AP_part-phase_sbref.json b/sub-06/ses-010/dwi/sub-06_ses-010_dir-AP_part-phase_sbref.json index fc6003235a..6b447213e2 100644 --- a/sub-06/ses-010/dwi/sub-06_ses-010_dir-AP_part-phase_sbref.json +++ b/sub-06/ses-010/dwi/sub-06_ses-010_dir-AP_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], + "ImageOrientationPatientDICOM": [0.999848, -0.0163999, 0.00596906, 0.0174524, 0.93955, -0.341968], "ImageOrientationText": "Tra>Cor(-20.0)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,16 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-010/dwi/sub-06_ses-010_dir-AP_part-mag_dwi.nii.gz", + "ses-010/dwi/sub-06_ses-010_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +65,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", "SeriesNumber": 7, - "ShimSetting": [ - 619, - -7286, - -8823, - 594, - 17, - -319, - -14, - -1 - ], + "ShimSetting": [619, -7286, -8823, 594, 17, -319, -14, -1], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.55 - ], + "SliceTiming": [0, 0.1175, 0.2325, 0.35, 0.4675, 0.585, 0.7025, 0.8175, 0.935, 1.0525, 1.17, 1.2875, 1.4025, 1.52, 1.6375, 1.755, 1.8725, 1.9875, 2.105, 2.2225, 2.34, 2.4575, 2.5725, 2.69, 2.8075, 2.925, 3.0425, 3.1575, 3.275, 3.3925, 3.51, 3.6275, 3.7425, 3.86, 3.9775, 4.095, 4.2125, 4.3275, 4.445, 4.5625, 4.68, 4.7975, 4.9125, 5.03, 5.1475, 5.265, 5.3825, 5.4975, 5.615, 5.7325, 5.85, 5.965, 6.0825, 6.2, 6.3175, 6.435, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-06/ses-010/dwi/sub-06_ses-010_dir-PA_part-mag_sbref.json b/sub-06/ses-010/dwi/sub-06_ses-010_dir-PA_part-mag_sbref.json index 3370c97c5d..a336c03df6 100644 --- a/sub-06/ses-010/dwi/sub-06_ses-010_dir-PA_part-mag_sbref.json +++ b/sub-06/ses-010/dwi/sub-06_ses-010_dir-PA_part-mag_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], + "ImageOrientationPatientDICOM": [0.999848, -0.0163999, 0.00596906, 0.0174524, 0.93955, -0.341968], "ImageOrientationText": "Tra>Cor(-20.0)", "ImageType": [ "ORIGINAL", @@ -33,12 +26,15 @@ "M", "ND", "MOSAIC" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-010/dwi/sub-06_ses-010_dir-AP_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -67,76 +63,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 619, - -7286, - -8823, - 594, - 17, - -319, - -14, - -1 - ], + "ShimSetting": [619, -7286, -8823, 594, 17, -319, -14, -1], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.3525, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.405, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.99, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.575, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.16, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.745, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.33, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.915, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.5, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.085, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], + "SliceTiming": [0, 0.1175, 0.235, 0.3525, 0.4675, 0.585, 0.7025, 0.82, 0.935, 1.0525, 1.17, 1.2875, 1.405, 1.52, 1.6375, 1.755, 1.8725, 1.99, 2.105, 2.2225, 2.34, 2.4575, 2.575, 2.69, 2.8075, 2.925, 3.0425, 3.16, 3.275, 3.3925, 3.51, 3.6275, 3.745, 3.86, 3.9775, 4.095, 4.2125, 4.33, 4.445, 4.5625, 4.68, 4.7975, 4.915, 5.03, 5.1475, 5.265, 5.3825, 5.5, 5.615, 5.7325, 5.85, 5.9675, 6.085, 6.2, 6.3175, 6.435, 6.5525], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-06/ses-010/dwi/sub-06_ses-010_dir-PA_part-phase_sbref.json b/sub-06/ses-010/dwi/sub-06_ses-010_dir-PA_part-phase_sbref.json index 56b0cdc163..c1f3ea4078 100644 --- a/sub-06/ses-010/dwi/sub-06_ses-010_dir-PA_part-phase_sbref.json +++ b/sub-06/ses-010/dwi/sub-06_ses-010_dir-PA_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.5.3.post569+g418601f", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], + "ImageOrientationPatientDICOM": [0.999848, -0.0163999, 0.00596906, 0.0174524, 0.93955, -0.341968], "ImageOrientationText": "Tra>Cor(-20.0)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,15 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-010/dwi/sub-06_ses-010_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +64,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 619, - -7286, - -8823, - 594, - 17, - -319, - -14, - -1 - ], + "ShimSetting": [619, -7286, -8823, 594, 17, -319, -14, -1], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.3525, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.405, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.99, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.575, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.16, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.745, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.33, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.915, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.5, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.085, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], + "SliceTiming": [0, 0.1175, 0.235, 0.3525, 0.4675, 0.585, 0.7025, 0.82, 0.935, 1.0525, 1.17, 1.2875, 1.405, 1.52, 1.6375, 1.755, 1.8725, 1.99, 2.105, 2.2225, 2.34, 2.4575, 2.575, 2.69, 2.8075, 2.925, 3.0425, 3.16, 3.275, 3.3925, 3.51, 3.6275, 3.745, 3.86, 3.9775, 4.095, 4.2125, 4.33, 4.445, 4.5625, 4.68, 4.7975, 4.915, 5.03, 5.1475, 5.265, 5.3825, 5.5, 5.615, 5.7325, 5.85, 5.9675, 6.085, 6.2, 6.3175, 6.435, 6.5525], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-AP_run-01_epi.json b/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index ac02da7be2..0000000000 --- a/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,146 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "15:58:56.602500", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], - "ImageOrientationText": "Tra>Cor(-20.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j-", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_AP_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-7", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.118011, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", - "SeriesNumber": 7, - "ShimSetting": [ - 619, - -7286, - -8823, - 594, - 17, - -319, - -14, - -1 - ], - "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7025, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.7425, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.3275, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.9125, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.4975, - 5.615, - 5.7325, - 5.85, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.435, - 6.55 - ], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 217.037, - "WipMemBlock": "690dd881-3d43-4453-afa2-e7fcb17ac8a1||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja" -} \ No newline at end of file diff --git a/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-AP_run-01_epi.nii.gz b/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-AP_run-01_epi.nii.gz deleted file mode 120000 index dd50352100..0000000000 --- a/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-AP_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/9X/MZ/MD5E-s1157273--072598abb893574bc48c10b2a6f881b6.nii.gz/MD5E-s1157273--072598abb893574bc48c10b2a6f881b6.nii.gz \ No newline at end of file diff --git a/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-PA_run-01_epi.json b/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-PA_run-01_epi.json deleted file mode 100644 index 3370c97c5d..0000000000 --- a/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-PA_run-01_epi.json +++ /dev/null @@ -1,146 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "16:03:16.385000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.5.3.post569+g418601f", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], - "ImageOrientationText": "Tra>Cor(-20.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_PA_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-7", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.118011, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", - "SeriesNumber": 12, - "ShimSetting": [ - 619, - -7286, - -8823, - 594, - 17, - -319, - -14, - -1 - ], - "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.3525, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.935, - 1.0525, - 1.17, - 1.2875, - 1.405, - 1.52, - 1.6375, - 1.755, - 1.8725, - 1.99, - 2.105, - 2.2225, - 2.34, - 2.4575, - 2.575, - 2.69, - 2.8075, - 2.925, - 3.0425, - 3.16, - 3.275, - 3.3925, - 3.51, - 3.6275, - 3.745, - 3.86, - 3.9775, - 4.095, - 4.2125, - 4.33, - 4.445, - 4.5625, - 4.68, - 4.7975, - 4.915, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.5, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.085, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 217.037, - "WipMemBlock": "3041cf19-0020-4180-97c7-49b260c6cc8f||Sequence: R016 ve11c/master r/e634e98; Dec 19 2017 11:11:25 by eja" -} \ No newline at end of file diff --git a/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index dd566b120d..0000000000 --- a/sub-06/ses-010/fmap/sub-06_ses-010_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/18/zp/MD5E-s1150280--6b54127b354a3644afd7552333fc08a3.nii.gz/MD5E-s1150280--6b54127b354a3644afd7552333fc08a3.nii.gz \ No newline at end of file diff --git a/sub-06/ses-010/sub-06_ses-010_scans.tsv b/sub-06/ses-010/sub-06_ses-010_scans.tsv index 8c18490fd9..ce952b6106 120000 --- a/sub-06/ses-010/sub-06_ses-010_scans.tsv +++ b/sub-06/ses-010/sub-06_ses-010_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/kv/3m/MD5E-s4448--fff9de4ec89396d787f6b58825c4a5d1.tsv/MD5E-s4448--fff9de4ec89396d787f6b58825c4a5d1.tsv \ No newline at end of file +../../.git/annex/objects/6X/VP/MD5E-s4258--2c3e344122479b685cb35f891452ef6d.tsv/MD5E-s4258--2c3e344122479b685cb35f891452ef6d.tsv \ No newline at end of file diff --git a/sub-06/ses-011/dwi/sub-06_ses-011_dir-AP_part-phase_sbref.json b/sub-06/ses-011/dwi/sub-06_ses-011_dir-AP_part-phase_sbref.json index c198c25315..676772c00b 100644 --- a/sub-06/ses-011/dwi/sub-06_ses-011_dir-AP_part-phase_sbref.json +++ b/sub-06/ses-011/dwi/sub-06_ses-011_dir-AP_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.11.3.post9+gc939bf8", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], + "ImageOrientationPatientDICOM": [0.999848, -0.0163999, 0.00596906, 0.0174524, 0.93955, -0.341968], "ImageOrientationText": "Tra>Cor(-20.0)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,16 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-011/dwi/sub-06_ses-011_dir-AP_part-mag_dwi.nii.gz", + "ses-011/dwi/sub-06_ses-011_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +65,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", "SeriesNumber": 7, - "ShimSetting": [ - 624, - -7272, - -8834, - 644, - 27, - -255, - -14, - 8 - ], + "ShimSetting": [624, -7272, -8834, 644, 27, -255, -14, 8], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.1175, - 0.235, - 0.3525, - 0.4675, - 0.585, - 0.7025, - 0.82, - 0.9375, - 1.0525, - 1.17, - 1.2875, - 1.405, - 1.5225, - 1.6375, - 1.755, - 1.8725, - 1.99, - 2.1075, - 2.2225, - 2.34, - 2.4575, - 2.575, - 2.6925, - 2.8075, - 2.925, - 3.0425, - 3.16, - 3.2775, - 3.3925, - 3.51, - 3.6275, - 3.745, - 3.8625, - 3.9775, - 4.095, - 4.2125, - 4.33, - 4.4475, - 4.5625, - 4.68, - 4.7975, - 4.915, - 5.03, - 5.1475, - 5.265, - 5.3825, - 5.5, - 5.615, - 5.7325, - 5.85, - 5.9675, - 6.085, - 6.2, - 6.3175, - 6.435, - 6.5525 - ], + "SliceTiming": [0, 0.1175, 0.235, 0.3525, 0.4675, 0.585, 0.7025, 0.82, 0.9375, 1.0525, 1.17, 1.2875, 1.405, 1.5225, 1.6375, 1.755, 1.8725, 1.99, 2.1075, 2.2225, 2.34, 2.4575, 2.575, 2.6925, 2.8075, 2.925, 3.0425, 3.16, 3.2775, 3.3925, 3.51, 3.6275, 3.745, 3.8625, 3.9775, 4.095, 4.2125, 4.33, 4.4475, 4.5625, 4.68, 4.7975, 4.915, 5.03, 5.1475, 5.265, 5.3825, 5.5, 5.615, 5.7325, 5.85, 5.9675, 6.085, 6.2, 6.3175, 6.435, 6.5525], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-06/ses-011/dwi/sub-06_ses-011_dir-PA_part-mag_sbref.json b/sub-06/ses-011/dwi/sub-06_ses-011_dir-PA_part-mag_sbref.json index 5a9eda1b31..4af93a6a7f 100644 --- a/sub-06/ses-011/dwi/sub-06_ses-011_dir-PA_part-mag_sbref.json +++ b/sub-06/ses-011/dwi/sub-06_ses-011_dir-PA_part-mag_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.11.3.post9+gc939bf8", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], + "ImageOrientationPatientDICOM": [0.999848, -0.0163999, 0.00596906, 0.0174524, 0.93955, -0.341968], "ImageOrientationText": "Tra>Cor(-20.0)", "ImageType": [ "ORIGINAL", @@ -33,12 +26,15 @@ "M", "ND", "MOSAIC" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-011/dwi/sub-06_ses-011_dir-AP_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -67,76 +63,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 624, - -7272, - -8834, - 644, - 27, - -255, - -14, - 8 - ], + "ShimSetting": [624, -7272, -8834, 644, 27, -255, -14, 8], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.115, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.285, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.87, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.455, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.04, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.625, - 3.7425, - 3.86, - 3.9775, - 4.0925, - 4.21, - 4.3275, - 4.445, - 4.5625, - 4.6775, - 4.795, - 4.9125, - 5.03, - 5.1475, - 5.2625, - 5.38, - 5.4975, - 5.615, - 5.7325, - 5.8475, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.4325, - 6.55 - ], + "SliceTiming": [0, 0.115, 0.2325, 0.35, 0.4675, 0.585, 0.7, 0.8175, 0.935, 1.0525, 1.17, 1.285, 1.4025, 1.52, 1.6375, 1.755, 1.87, 1.9875, 2.105, 2.2225, 2.34, 2.455, 2.5725, 2.69, 2.8075, 2.925, 3.04, 3.1575, 3.275, 3.3925, 3.51, 3.625, 3.7425, 3.86, 3.9775, 4.0925, 4.21, 4.3275, 4.445, 4.5625, 4.6775, 4.795, 4.9125, 5.03, 5.1475, 5.2625, 5.38, 5.4975, 5.615, 5.7325, 5.8475, 5.965, 6.0825, 6.2, 6.3175, 6.4325, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-06/ses-011/dwi/sub-06_ses-011_dir-PA_part-phase_sbref.json b/sub-06/ses-011/dwi/sub-06_ses-011_dir-PA_part-phase_sbref.json index 54e6ac088e..b3431b947e 100644 --- a/sub-06/ses-011/dwi/sub-06_ses-011_dir-PA_part-phase_sbref.json +++ b/sub-06/ses-011/dwi/sub-06_ses-011_dir-PA_part-phase_sbref.json @@ -18,14 +18,7 @@ "FlipAngle": 78, "HeudiconvVersion": "0.11.3.post9+gc939bf8", "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], + "ImageOrientationPatientDICOM": [0.999848, -0.0163999, 0.00596906, 0.0174524, 0.93955, -0.341968], "ImageOrientationText": "Tra>Cor(-20.0)", "ImageType": [ "ORIGINAL", @@ -34,12 +27,15 @@ "ND", "MOSAIC", "PHASE" - ], +], "ImagingFrequency": 123.259, "InPlanePhaseEncodingDirectionDICOM": "COL", "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", "InstitutionName": "IUGM", "InstitutionalDepartmentName": "Department", + "IntendedFor": [ + "ses-011/dwi/sub-06_ses-011_dir-PA_part-mag_dwi.nii.gz" +], "MRAcquisitionType": "2D", "MagneticFieldStrength": 3, "Manufacturer": "Siemens", @@ -68,76 +64,9 @@ "SequenceVariant": "SK\\SS", "SeriesDescription": "dMRI_dir106_PA_test_cmrr_SBRef", "SeriesNumber": 12, - "ShimSetting": [ - 624, - -7272, - -8834, - 644, - 27, - -255, - -14, - 8 - ], + "ShimSetting": [624, -7272, -8834, 644, 27, -255, -14, 8], "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.115, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.285, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.87, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.455, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.04, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.625, - 3.7425, - 3.86, - 3.9775, - 4.0925, - 4.21, - 4.3275, - 4.445, - 4.5625, - 4.6775, - 4.795, - 4.9125, - 5.03, - 5.1475, - 5.2625, - 5.38, - 5.4975, - 5.615, - 5.7325, - 5.8475, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.4325, - 6.55 - ], + "SliceTiming": [0, 0.115, 0.2325, 0.35, 0.4675, 0.585, 0.7, 0.8175, 0.935, 1.0525, 1.17, 1.285, 1.4025, 1.52, 1.6375, 1.755, 1.87, 1.9875, 2.105, 2.2225, 2.34, 2.455, 2.5725, 2.69, 2.8075, 2.925, 3.04, 3.1575, 3.275, 3.3925, 3.51, 3.625, 3.7425, 3.86, 3.9775, 4.0925, 4.21, 4.3275, 4.445, 4.5625, 4.6775, 4.795, 4.9125, 5.03, 5.1475, 5.2625, 5.38, 5.4975, 5.615, 5.7325, 5.8475, 5.965, 6.0825, 6.2, 6.3175, 6.4325, 6.55], "SoftwareVersions": "syngo MR E11", "SpacingBetweenSlices": 2, "StationName": "MRC35049", diff --git a/sub-06/ses-011/fmap/sub-06_ses-011_acq-sbref_dir-AP_run-01_epi.json b/sub-06/ses-011/fmap/sub-06_ses-011_acq-sbref_dir-AP_run-01_epi.json deleted file mode 100644 index 52dde45423..0000000000 --- a/sub-06/ses-011/fmap/sub-06_ses-011_acq-sbref_dir-AP_run-01_epi.json +++ /dev/null @@ -1,146 +0,0 @@ -{ - "AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "16:05:2.765000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.11.3.post9+gc939bf8", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], - "ImageOrientationText": "Tra>Cor(-20.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - "InstitutionName": "IUGM", - "InstitutionalDepartmentName": "Department", - "MRAcquisitionType": "2D", - "MagneticFieldStrength": 3, - "Manufacturer": "Siemens", - "ManufacturersModelName": "Prisma_fit", - "MatrixCoilMode": "SENSE", - "Modality": "MR", - "PartialFourier": 0.75, - "PatientPosition": "HFS", - "PercentPhaseFOV": 100, - "PercentSampling": 100, - "PhaseEncodingDirection": "j-", - "PhaseEncodingSteps": 83, - "PhaseResolution": 1, - "PixelBandwidth": 1685, - "ProcedureStepDescription": "anat^generic", - "ProtocolName": "dMRI_dir106_AP_test_cmrr", - "PulseSequenceDetails": "%CustomerSeq%\\cmrr_mbep2d_diff", - "ReceiveCoilActiveElements": "HC1-7", - "ReceiveCoilName": "HeadNeck_64", - "ReconMatrixPE": 110, - "RepetitionTime": 2.243, - "SAR": 0.131205, - "ScanOptions": "PFP\\EXT", - "ScanningSequence": "EP", - "SequenceName": "epse2d1_110", - "SequenceVariant": "SK\\SS", - "SeriesDescription": "dMRI_dir106_AP_test_cmrr_SBRef", - "SeriesNumber": 7, - "ShimSetting": [ - 624, - -7272, - 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"AcquisitionMatrixPE": 110, - "AcquisitionNumber": 1, - "AcquisitionTime": "16:09:23.985000", - "BandwidthPerPixelPhaseEncode": 12.987, - "BaseResolution": 110, - "BodyPartExamined": "BRAIN", - "CoilCombinationMethod": "Sum of Squares", - "ConsistencyInfo": "N4_VE11C_LATEST_20160120", - "ConversionSoftware": "dcm2niix", - "ConversionSoftwareVersion": "v1.0.20211006", - "DerivedVendorReportedEchoSpacing": 0.000700001, - "DeviceSerialNumber": "167006", - "DwellTime": 2.7e-06, - "EchoTime": 0.0768, - "EchoTrainLength": 83, - "EffectiveEchoSpacing": 0.000700001, - "FlipAngle": 78, - "HeudiconvVersion": "0.11.3.post9+gc939bf8", - "ImageComments": "Single-band reference SENSE1+", - "ImageOrientationPatientDICOM": [ - 0.999848, - -0.0163999, - 0.00596906, - 0.0174524, - 0.93955, - -0.341968 - ], - "ImageOrientationText": "Tra>Cor(-20.0)", - "ImageType": [ - "ORIGINAL", - "PRIMARY", - "M", - "ND", - "MOSAIC" - ], - "ImagingFrequency": 123.259, - "InPlanePhaseEncodingDirectionDICOM": "COL", - "InstitutionAddress": "Chemin Queen-Mary 4565,Montreal,District,CA,H3W 1W5", - 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-8834, - 644, - 27, - -255, - -14, - 8 - ], - "SliceThickness": 2, - "SliceTiming": [ - 0, - 0.115, - 0.2325, - 0.35, - 0.4675, - 0.585, - 0.7, - 0.8175, - 0.935, - 1.0525, - 1.17, - 1.285, - 1.4025, - 1.52, - 1.6375, - 1.755, - 1.87, - 1.9875, - 2.105, - 2.2225, - 2.34, - 2.455, - 2.5725, - 2.69, - 2.8075, - 2.925, - 3.04, - 3.1575, - 3.275, - 3.3925, - 3.51, - 3.625, - 3.7425, - 3.86, - 3.9775, - 4.0925, - 4.21, - 4.3275, - 4.445, - 4.5625, - 4.6775, - 4.795, - 4.9125, - 5.03, - 5.1475, - 5.2625, - 5.38, - 5.4975, - 5.615, - 5.7325, - 5.8475, - 5.965, - 6.0825, - 6.2, - 6.3175, - 6.4325, - 6.55 - ], - "SoftwareVersions": "syngo MR E11", - "SpacingBetweenSlices": 2, - "StationName": "MRC35049", - "TotalReadoutTime": 0.0763001, - "TxRefAmp": 227.27, - "WipMemBlock": "8c2fae35-2c9f-4a81-b6a3-a81f9881c6ae||Sequence: R017 ve11c/master r/75a17815+; Jun 28 2022 16:41:33 by eja" -} \ No newline at end of file diff --git a/sub-06/ses-011/fmap/sub-06_ses-011_acq-sbref_dir-PA_run-01_epi.nii.gz b/sub-06/ses-011/fmap/sub-06_ses-011_acq-sbref_dir-PA_run-01_epi.nii.gz deleted file mode 120000 index 0aa963577c..0000000000 --- a/sub-06/ses-011/fmap/sub-06_ses-011_acq-sbref_dir-PA_run-01_epi.nii.gz +++ /dev/null @@ -1 +0,0 @@ -../../../.git/annex/objects/42/Pj/MD5E-s1152652--00c5eb442fba33c37df0fa092a233565.nii.gz/MD5E-s1152652--00c5eb442fba33c37df0fa092a233565.nii.gz \ No newline at end of file diff --git a/sub-06/ses-011/sub-06_ses-011_scans.tsv b/sub-06/ses-011/sub-06_ses-011_scans.tsv index 0db8e3b6c5..ae71a1c117 120000 --- a/sub-06/ses-011/sub-06_ses-011_scans.tsv +++ b/sub-06/ses-011/sub-06_ses-011_scans.tsv @@ -1 +1 @@ -../../.git/annex/objects/fx/97/MD5E-s3861--e9b690ec130f17876f81b01b33acc54b.tsv/MD5E-s3861--e9b690ec130f17876f81b01b33acc54b.tsv \ No newline at end of file +../../.git/annex/objects/0P/jg/MD5E-s3671--7c965ca0310ba4c577b6f99a12583e2d.tsv/MD5E-s3671--7c965ca0310ba4c577b6f99a12583e2d.tsv \ No newline at end of file