Inconsistent Functional MRI Sequence Label in fmriprep Summary Report

Hello experts,

I am new to fmriprep. Today, I successfully ran fmriprep and completed the preprocessing steps. However, I encountered a confusing issue that I would like to seek your guidance on. I collected my functional MRI data using a multiband EPI sequence. But when I reviewed the summary reports generated by fmriprep, I noticed that the functional MRI data was labeled as “Single-echo EPI sequence,” which is clearly inconsistent with the sequence I actually used.

I’m curious to know if this inconsistency could have an impact on my data. If this is due to a mistake in my settings, how can I correctly adjust the settings?

this is my code:

fmriprep $bids_root_dir $bids_root_dir/derivatives
participant
–participant-label $subj
–skip-bids-validation
–md-only-boilerplate
–fs-license-file /Users/caofeizhen/Desktop/语义与词汇组合性/fMRI_data/fmri/RawData/derivatives/license.txt
–output-spaces MNI152NLin2009cAsym:res-2
–nthreads $nthreads
–stop-on-first-crash
–mem_mb $mem_mb
–dummy-scans 6
-w $HOME

this is a func image json file:

{
  "AcquisitionMatrixPE": 112,
  "AcquisitionNumber": 1,
  "AcquisitionTime": "08:39:17.745000",
  "BandwidthPerPixelPhaseEncode": 30.788,
  "BaseResolution": 112,
  "BodyPartExamined": "BRAIN",
  "CoilCombinationMethod": "Sum of Squares",
  "ConsistencyInfo": "N4_VE11E_LATEST_20181129",
  "ConversionSoftware": "dcm2niix",
  "ConversionSoftwareVersion": "v1.0.20220505",
  "DerivedVendorReportedEchoSpacing": 0.000580003,
  "DeviceSerialNumber": "167081",
  "DwellTime": 2.2e-06,
  "EchoTime": 0.03,
  "EchoTrainLength": 55,
  "EffectiveEchoSpacing": 0.000290002,
  "FlipAngle": 90,
  "HeudiconvVersion": "0.13.1",
  "ImageOrientationPatientDICOM": [0.999401, 0.00451904, 0.0343046, -9.10284e-09, 0.991435, -0.130604],
  "ImageOrientationText": "Tra>Cor(-7.5)>Sag(2.0)",
  "ImageType": [
    "ORIGINAL",
    "PRIMARY",
    "M",
    "ND",
    "NORM",
    "MOSAIC"
],
  "ImagingFrequency": 123.259,
  "InPlanePhaseEncodingDirectionDICOM": "COL",
  "InstitutionAddress": "Street StreetNo,Guangzhou,District,CN,ZIP",
  "InstitutionName": "South China Normal University",
  "InstitutionalDepartmentName": "Department",
  "MRAcquisitionType": "2D",
  "MagneticFieldStrength": 3,
  "Manufacturer": "Siemens",
  "ManufacturersModelName": "Prisma_fit",
  "Modality": "MR",
  "MultibandAccelerationFactor": 2,
  "ParallelReductionFactorInPlane": 2,
  "PartialFourier": 1,
  "PatientPosition": "HFS",
  "PercentPhaseFOV": 100,
  "PercentSampling": 100,
  "PhaseEncodingDirection": "j-",
  "PhaseEncodingSteps": 111,
  "PhaseResolution": 1,
  "PixelBandwidth": 2030,
  "ProcedureStepDescription": "SCNU^Wang_Suiping",
  "ProtocolName": "run1",
  "PulseSequenceDetails": "%SiemensSeq%\\ep2d_bold",
  "ReceiveCoilActiveElements": "HC1-7;NC1,2",
  "ReceiveCoilName": "HeadNeck_64",
  "ReconMatrixPE": 112,
  "RefLinesPE": 24,
  "RepetitionTime": 2,
  "SAR": 0.0743318,
  "ScanOptions": "FS",
  "ScanningSequence": "EP",
  "SequenceName": "*epfid2d1_112",
  "SequenceVariant": "SK",
  "SeriesDescription": "run1",
  "SeriesNumber": 2,
  "ShimSetting": [-1943, -7205, -8418, 459, 61, 184, -37, 36],
  "SliceThickness": 2,
  "SliceTiming": [0.96, 0, 1.0225, 0.065, 1.0875, 0.1275, 1.15, 0.1925, 1.215, 0.2575, 1.2775, 0.32, 1.3425, 0.385, 1.405, 0.4475, 1.47, 0.5125, 1.5325, 0.575, 1.5975, 0.64, 1.6625, 0.7025, 1.725, 0.7675, 1.79, 0.83, 1.8525, 0.895, 1.9175, 0.96, 0, 1.0225, 0.065, 1.0875, 0.1275, 1.15, 0.1925, 1.215, 0.2575, 1.2775, 0.32, 1.3425, 0.385, 1.405, 0.4475, 1.47, 0.5125, 1.5325, 0.575, 1.5975, 0.64, 1.6625, 0.7025, 1.725, 0.7675, 1.79, 0.83, 1.8525, 0.895, 1.9175],
  "SoftwareVersions": "syngo MR E11",
  "SpacingBetweenSlices": 2.2,
  "StationName": "MRC35464",
  "TaskName": "Picture",
  "TotalReadoutTime": 0.0321902,
  "TxRefAmp": 243.056,
  "dcmmeta_affine": [
    [-1.9988024234771729, -1.8205673413262957e-08, 0.07612203806638718, 109.55231475830078],
    [-0.00903808418661356, 1.9828691482543945, -0.2871576249599457, -92.61264038085938],
    [0.06860910356044769, 0.26120877265930176, 2.1798501014709473, -77.94599914550781],
    [0.0, 0.0, 0.0, 1.0]
],
  "dcmmeta_reorient_transform": [
    [0.0, -1.0, 0.0, 111.0],
    [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": [112, 112, 62, 220],
  "dcmmeta_slice_dim": 2,
  "dcmmeta_version": 0.6,
  "global": {
    "const": {
      "AcquisitionMatrix": [112, 0, 0, 112],
      "AngioFlag": "N",
      "BitsAllocated": 16,
      "BitsStored": 12,
      "BodyPartExamined": "BRAIN",
      "Columns": 896,
      "EchoNumbers": 1,
      "EchoTime": 30.0,
      "EchoTrainLength": 55,
      "FlipAngle": 90.0,
      "HighBit": 11,
      "ImageOrientationPatient": [0.99940120865366, 0.00451904207916, 0.03430455363771, -9.102837e-09, 0.9914345628851, -0.1306043931759],
      "ImagePositionPatient": [-893.08285312586, -908.31346069525, 26.547248541861],
      "ImageType": [
        "ORIGINAL",
        "PRIMARY",
        "M",
        "ND",
        "NORM",
        "MOSAIC"
],
      "ImagedNucleus": "1H",
      "ImagingFrequency": 123.25914,
      "InPlanePhaseEncodingDirection": "COL",
      "MRAcquisitionType": "2D",
      "MagneticFieldStrength": 3.0,
      "Manufacturer": "SIEMENS",
      "ManufacturerModelName": "Prisma_fit",
      "Modality": "MR",
      "NumberOfAverages": 1.0,
      "NumberOfPhaseEncodingSteps": 111,
      "PercentPhaseFieldOfView": 100.0,
      "PercentSampling": 100.0,
      "PerformedProcedureStepStartTime": "083643.980000",
      "PhotometricInterpretation": "MONOCHROME2",
      "PixelBandwidth": 2030.0,
      "PixelRepresentation": 0,
      "PixelSpacing": [2.0, 2.0],
      "ProtocolName": "run1",
      "RepetitionTime": 2000.0,
      "Rows": 896,
      "SAR": 0.07433177343653,
      "SamplesPerPixel": 1,
      "ScanOptions": "FS",
      "ScanningSequence": "EP",
      "SequenceName": "*epfid2d1_112",
      "SequenceVariant": "SK",
      "SeriesDescription": "run1",
      "SeriesNumber": 2,
      "SeriesTime": "083921.373000",
      "SliceLocation": -61.35309945139,
      "SliceThickness": 2.0,
      "SmallestImagePixelValue": 0,
      "SoftwareVersions": "syngo MR E11",
      "SpacingBetweenSlices": 2.20000005131,
      "SpecificCharacterSet": "ISO_IR 100",
      "StudyID": "1",
      "StudyTime": "083643.834000",
      "TransmitCoilName": "Body",
      "VariableFlipAngleFlag": "N",
      "WindowCenterWidthExplanation": "Algo1"
    },
    "slices": {}
  },
  "time": {
    "samples": {
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      "AcquisitionTime": ["083917.745000", "083919.745000", "083921.745000", "083923.745000", "083925.745000", "083927.745000", "083929.745000", "083931.745000", "083933.745000", "083935.745000", "083937.745000", "083939.745000", "083941.745000", "083943.745000", "083945.745000", "083947.745000", "083949.745000", "083951.745000", "083953.745000", "083955.745000", "083957.745000", "083959.745000", "084001.745000", "084003.745000", "084005.745000", "084007.745000", "084009.745000", "084011.745000", "084013.745000", "084015.745000", "084017.745000", "084019.745000", "084021.745000", "084023.745000", "084025.745000", "084027.745000", "084029.745000", "084031.745000", "084033.745000", "084035.745000", "084037.745000", "084039.745000", "084041.745000", "084043.745000", "084045.745000", "084047.745000", "084049.745000", "084051.745000", "084053.745000", "084055.745000", "084057.745000", "084059.745000", "084101.745000", "084103.745000", "084105.745000", "084107.745000", "084109.745000", "084111.745000", "084113.745000", "084115.745000", "084117.745000", "084119.745000", "084121.745000", "084123.745000", "084125.745000", "084127.745000", "084129.745000", "084131.745000", "084133.745000", "084135.745000", "084137.745000", "084139.745000", "084141.745000", "084143.745000", "084145.745000", "084147.745000", "084149.745000", "084151.745000", "084153.745000", "084155.745000", "084157.745000", "084159.745000", "084201.745000", "084203.745000", "084205.745000", "084207.745000", "084209.745000", "084211.745000", "084213.745000", "084215.745000", "084217.745000", "084219.745000", "084221.745000", "084223.745000", "084225.745000", "084227.745000", "084229.745000", "084231.745000", "084233.745000", "084235.745000", "084237.745000", "084239.745000", "084241.745000", "084243.745000", "084245.745000", "084247.745000", "084249.745000", "084251.745000", "084253.745000", "084255.745000", "084257.745000", "084259.745000", "084301.745000", "084303.745000", "084305.745000", "084307.745000", "084309.745000", "084311.745000", "084313.745000", "084315.745000", "084317.745000", "084319.745000", "084321.745000", "084323.745000", "084325.745000", "084327.745000", "084329.745000", "084331.745000", "084333.745000", "084335.745000", "084337.745000", "084339.745000", "084341.745000", "084343.745000", "084345.745000", "084347.745000", "084349.745000", "084351.745000", "084353.745000", "084355.745000", "084357.745000", "084359.745000", "084401.745000", "084403.745000", "084405.745000", "084407.745000", "084409.745000", "084411.745000", "084413.745000", "084415.745000", "084417.745000", "084419.745000", "084421.745000", "084423.745000", "084425.745000", "084427.745000", "084429.745000", "084431.745000", "084433.745000", "084435.745000", "084437.745000", "084439.745000", "084441.745000", "084443.745000", "084445.745000", "084447.745000", "084449.745000", "084451.745000", "084453.745000", "084455.745000", "084457.745000", "084459.745000", "084501.745000", "084503.745000", "084505.745000", "084507.745000", "084509.745000", "084511.745000", "084513.745000", "084515.745000", "084517.745000", "084519.745000", "084521.745000", "084523.745000", "084525.745000", "084527.745000", "084529.745000", "084531.745000", "084533.745000", "084535.745000", "084537.745000", "084539.745000", "084541.745000", "084543.745000", "084545.745000", "084547.745000", "084549.745000", "084551.745000", "084553.745000", "084555.745000", "084557.745000", "084559.745000", "084601.745000", "084603.745000", "084605.745000", "084607.745000", "084609.745000", "084611.745000", "084613.745000", "084615.745000", "084617.745000", "084619.745000", "084621.745000", "084623.745000", "084625.745000", "084627.745000", "084629.745000", "084631.745000", "084633.745000", "084635.745000"],
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}

Thank you for your assistance.

Hi @cfz,

It sounds like you might be confusing multi-echo and multi-band. Multi-band is when multiple slices are reconstructed simultaneously in a single echo, which can lead to the ability to sample faster TR. Multi-echo is when you take multiple acquisitions from a single pulse sequence, which is good for getting (and correcting) estimates of noise.

Best,
Steven

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