Datasets:

---

mbhseg

/

mbhseg24

like 1

Hi,

I found out that some of the cases have mismatched nii headers of the image and mask files.

Identified mismatched header field: voxel size
List of cases:
["ID_727c946e_ID_e1fd84171a.nii.gz",
"ID_cb4c887c_ID_ec2a4643f3.nii.gz",
"ID_88dbe13f_ID_01c5078fbf.nii.gz",
"ID_089596a9_ID_ea71b57820.nii.gz",]

Best,

Hi Yongcheng, we have checked the data again and haven’t found the issue you mentioned. Could you please double-check on your side and provide more details if the problem persists?

I have re-downloaded the data via

 hf_hub_download(
        repo_id="mbhseg/mbhseg24",
        filename="MBH_train_label.zip",
        repo_type="dataset",
        local_dir="./",
    )

The mismatched nii header issue persists. The mismatched field is the affine matrix.

Mismatch in affine between image and mask for case ID_727c946e_ID_e1fd84171a:
Image affine:
[[-6.84000e-01  0.00000e+00  0.00000e+00  2.34000e+02]
[ 0.00000e+00  7.43000e-01 -0.00000e+00 -3.07057e+02]
[ 0.00000e+00  2.67000e-01  4.62000e+00  4.05250e+01]
[ 0.00000e+00  0.00000e+00  0.00000e+00  1.00000e+00]]
Mask affine:
[[-6.84000e-01  0.00000e+00  0.00000e+00  2.34000e+02]
[ 0.00000e+00  6.73000e-01 -8.62000e-01 -3.07057e+02]
[ 0.00000e+00  1.17000e-01  4.94400e+00  4.05250e+01]
[ 0.00000e+00  0.00000e+00  0.00000e+00  1.00000e+00]]

Mismatch in affine between image and mask for case ID_cb4c887c_ID_ec2a4643f3:
Image affine:
[[-4.88000e-01  0.00000e+00  0.00000e+00  1.25000e+02]
[ 0.00000e+00  4.99000e-01 -0.00000e+00 -2.65093e+02]
[ 0.00000e+00  1.02000e-01  4.90000e+00 -1.90576e+02]
[ 0.00000e+00  0.00000e+00  0.00000e+00  1.00000e+00]]
Mask affine:
[[-4.88000e-01  0.00000e+00  0.00000e+00  1.25000e+02]
[ 0.00000e+00  4.86000e-01 -5.02000e-01 -2.65093e+02]
[ 0.00000e+00  4.90000e-02  4.98400e+00 -1.90576e+02]
[ 0.00000e+00  0.00000e+00  0.00000e+00  1.00000e+00]]

Mismatch in affine between image and mask for case ID_88dbe13f_ID_01c5078fbf:
Image affine:
[[  -0.488    0.       0.     125.   ]
[   0.       0.523   -0.    -108.442]
[   0.       0.175    4.668  -93.127]
[   0.       0.       0.       1.   ]]
Mask affine:
[[-4.88000e-01  0.00000e+00  0.00000e+00  1.25000e+02]
[ 0.00000e+00  4.82000e-01 -8.04000e-01 -1.08442e+02]
[ 0.00000e+00  7.80000e-02  4.93500e+00 -9.31270e+01]
[ 0.00000e+00  0.00000e+00  0.00000e+00  1.00000e+00]]

Mismatch in affine between image and mask for case ID_089596a9_ID_ea71b57820:
Image affine:
[[  -0.488    0.       0.     153.5  ]
[   0.       0.52    -0.    -100.403]
[   0.       0.167    2.349  -38.044]
[   0.       0.       0.       1.   ]]
Mask affine:
[[-4.88000e-01  0.00000e+00  0.00000e+00  1.53500e+02]
[ 0.00000e+00  4.82000e-01 -3.87000e-01 -1.00403e+02]
[ 0.00000e+00  7.60000e-02  2.47000e+00 -3.80440e+01]
[ 0.00000e+00  0.00000e+00  0.00000e+00  1.00000e+00]]

For data in MBH_test_FirstStage.zip

    hf_hub_download(
        repo_id="mbhseg/mbhseg24",
        filename="MBH_test_FirstStage.zip",
        repo_type="dataset",
        local_dir="./",
    )
    subprocess.run(["unzip", "MBH_test_FirstStage.zip"])

mismatched headers found in these cases:
"ID_0e8ba35b_ID_d60ed297ea.nii.gz",
"ID_28e80c22_ID_bf9876ebdd.nii.gz",