Here it is! I've tried running main_script.py from the command line too but it hasn't given me much more info unfortunately. Thank you for your help!

{
"data": {
"BrainMask": "",
"CerebellumMask": "",
"SubjectVentricleMask": "",
"T1img": "/gpfs/fs001/cbica/projects/bgdimagecentral/Data/hao_data/Hao-inf-011/mri/Hao-inf-011_T1w.nii.gz",
"T2img": "",
"TissueSeg": "",
"output_dir": "/gpfs/fs001/cbica/projects/bgdimagecentral/Data/hao_data/Hao-inf-011/mri/output"
},
"executables": [
{
"name": "ABC_CLI",
"path": "/gpfs/fs001/cbica/software/external/auto_EACSF/1.7.7/bin/ABC_CLI"
},
{
"name": "ANTS",
"path": "/gpfs/fs001/cbica/software/external/auto_EACSF/1.7.7/bin/ANTS"
},
{
"name": "BRAINSFit",
"path": "/gpfs/fs001/cbica/software/external/auto_EACSF/1.7.7/bin/BRAINSFit"
},
{
"name": "ImageMath",
"path": "/gpfs/fs001/cbica/software/external/auto_EACSF/1.7.7/bin/ImageMath"
},
{
"name": "ImageStat",
"path": "/gpfs/fs001/cbica/software/external/auto_EACSF/1.7.7/bin/ImageStat"
},
{
"name": "WarpImageMultiTransform",
"path": "/gpfs/fs001/cbica/software/external/auto_EACSF/1.7.7/bin/WarpImageMultiTransform"
},
{
"name": "bet",
"path": "/cbica/software/external/fsl/centos7/5.0.11/bin/bet"
},
{
"name": "convertITKformats",
"path": "/gpfs/fs001/cbica/software/external/auto_EACSF/1.7.7/bin/convertITKformats"
},
{
"name": "python3",
"path": "/cbica/external/python/anaconda/3/envs/auto_EACSF/bin/python3"
}
],
"parameters": {
"ACPC_UNIT": "index",
"ACPC_VAL": 70,
"ANTS_T1_weight": 1,
"ANTS_gaussian_sig": 3,
"ANTS_iterations_val": "100x50x25",
"ANTS_reg_type": "GreedyDiffeo",
"ANTS_sim_metric": "CC",
"ANTS_sim_param": 4,
"ANTS_transformation_step": 0.25,
"COMPUTE_CSFDENS": false,
"CSFLabel": 3,
"LH_innerSurface": "",
"PERFORM_REG": true,
"PERFORM_SS": true,
"PERFORM_TSEG": true,
"PERFORM_VR": true,
"RH_innerSurface": "",
"USE_DCM": true,
"atlas_obj": {
},
"registrationAtlas": "/cbica/projects/bgdimagecentral/templates/pediatric-atlas-1year-T1-ABC/1year-Average-IBIS-MNI-t1w.nrrd",
"skullStrippingAtlasesDirectory": "",
"templateInvMaskVentricle": "/cbica/projects/bgdimagecentral/templates/pediatric-atlas-1year-T1-ABC/DeepGray5Class_stripped/Vent_CSF-INVMask.nrrd",
"templateT1Ventricle": "/cbica/projects/bgdimagecentral/templates/pediatric-atlas-1year-T1-ABC/DeepGray5Class_stripped/T1-IGM.nrrd",
"tissueSegAtlasDirectory": "/cbica/projects/bgdimagecentral/templates/pediatric-atlas-1year-T1-ABC/DeepGray5Class_stripped"
}
}