Updated ExpectedOutputFiles

Washington-University · Jan 8, 2020 · 47685b8 · 47685b8
1 parent a9b11f2
commit 47685b8
Showing 1 changed file with 37 additions and 29 deletions.
diff --git a/FunctionalPreprocessing/ExpectedOutputFiles-FieldMap-SpinEcho.CCF.txt b/FunctionalPreprocessing/ExpectedOutputFiles-FieldMap-SpinEcho.CCF.txt
@@ -8,6 +8,19 @@ MNINonLinear Results {scan} Movement_Regressors_dt.txt
 MNINonLinear Results {scan} Movement_Regressors.txt
 MNINonLinear Results {scan} Movement_RelativeRMS_mean.txt
 MNINonLinear Results {scan} Movement_RelativeRMS.txt
+MNINonLinear Results {scan} {scan}_Atlas.dtseries.nii
+MNINonLinear Results {scan} {scan}_Atlas_nonzero.dscalar.nii
+MNINonLinear Results {scan} {scan}_Atlas_nonzero.stats.txt
+MNINonLinear Results {scan} {scan}_finalmask.nii.gz
+MNINonLinear Results {scan} {scan}_finalmask.stats.txt
+MNINonLinear Results {scan} {scan}_fovmask.nii.gz
+MNINonLinear Results {scan} {scan}_Jacobian.nii.gz
+MNINonLinear Results {scan} {scan}.L.native.func.gii
+MNINonLinear Results {scan} {scan}.nii.gz
+MNINonLinear Results {scan} {scan}_PhaseOne_gdc_dc.nii.gz
+MNINonLinear Results {scan} {scan}_PhaseTwo_gdc_dc.nii.gz
+MNINonLinear Results {scan} {scan}.R.native.func.gii
+MNINonLinear Results {scan} {scan}_SBRef.nii.gz
 MNINonLinear Results {scan} RibbonVolumeToSurfaceMapping
 MNINonLinear Results {scan} RibbonVolumeToSurfaceMapping cov.nii.gz
 MNINonLinear Results {scan} RibbonVolumeToSurfaceMapping cov_norm_modulate.nii.gz
@@ -41,20 +54,9 @@ MNINonLinear Results {scan} RibbonVolumeToSurfaceMapping R.mean_all.native.func.
 MNINonLinear Results {scan} RibbonVolumeToSurfaceMapping R.mean.native.func.gii
 MNINonLinear Results {scan} RibbonVolumeToSurfaceMapping SmoothNorm.nii.gz
 MNINonLinear Results {scan} RibbonVolumeToSurfaceMapping std.nii.gz
-MNINonLinear Results {scan} {scan}_Atlas.dtseries.nii
-MNINonLinear Results {scan} {scan}_Jacobian.nii.gz
-MNINonLinear Results {scan} {scan}.L.native.func.gii
-MNINonLinear Results {scan} {scan}.nii.gz
-MNINonLinear Results {scan} {scan}_PhaseOne_gdc_dc.nii.gz
-MNINonLinear Results {scan} {scan}_PhaseTwo_gdc_dc.nii.gz
-MNINonLinear Results {scan} {scan}.R.native.func.gii
-MNINonLinear Results {scan} {scan}_SBRef.nii.gz
 MNINonLinear xfms
-MNINonLinear xfms standard2{scan}.nii.gz
 MNINonLinear xfms {scan}2standard.nii.gz
-T1w
-T1w xfms
-T1w xfms {scan}2str.nii.gz
+MNINonLinear xfms standard2{scan}.nii.gz
 {scan}
 {scan} BiasField.2.nii.gz
 {scan} brainmask_fs.2.nii.gz
@@ -86,6 +88,12 @@ T1w xfms {scan}2str.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseOne_gdc_dc_jac.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseOne_gdc_dc.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseOne_gdc.nii.gz
+# Generates PhaseTwo_gdc_one.nii.gz or PhaseOne_gdc_one.nii.gz
+# {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseOne_gdc_one.nii.gz
+# Generates SBRef2PhaseOne_gdc.mat or SBRef2PhaseTwo_gdc.mat
+# {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap SBRef2PhaseOne_gdc.mat
+# Generates SBRef2PhaseOne_gdc.nii.gz or SBRef2PhaseTwo_gdc.nii.gz
+# {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap SBRef2PhaseOne_gdc.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseOne_gdc_warp_jacobian.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseOne_gdc_warp.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseOne_mask_gdc.nii.gz
@@ -102,12 +110,6 @@ T1w xfms {scan}2str.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseTwo.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseTwo_vol1.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap qa.txt
-# Generates PhaseTwo_gdc_one.nii.gz or PhaseOne_gdc_one.nii.gz
-# {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap PhaseTwo_gdc_one.nii.gz
-# Generates SBRef2PhaseOne_gdc.mat or SBRef2PhaseTwo_gdc.mat
-# {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap SBRef2PhaseOne_gdc.mat
-# Generates SBRef2PhaseOne_gdc.nii.gz or SBRef2PhaseTwo_gdc.nii.gz
-# {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap SBRef2PhaseOne_gdc.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap SBRef2WarpField.mat
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap SBRef_dc_jac.nii.gz
 {scan} DistortionCorrectionAndEPIToT1wReg_FLIRTBBRAndFreeSurferBBRbased FieldMap SBRef_dc.nii.gz
@@ -166,6 +168,20 @@ T1w xfms {scan}2str.nii.gz
 {scan} OneStepResampling qa.txt
 {scan} OneStepResampling Scout_gdc_MNI_warp.nii.gz
 {scan} OneStepResampling T1w_restore.2.nii.gz
+{scan} {scan}_gdc.nii.gz
+{scan} {scan}_gdc_warp_jacobian.nii.gz
+{scan} {scan}_gdc_warp.nii.gz
+{scan} {scan}_mc.nii.gz
+{scan} {scan}_nonlin_finalmask.nii.gz
+{scan} {scan}_nonlin_finalmask.stats.txt
+{scan} {scan}_nonlin_mask.nii.gz
+{scan} {scan}_nonlin_norm.wdir
+{scan} {scan}_nonlin_norm.wdir log.txt
+{scan} {scan}_nonlin_norm.wdir qa.txt
+{scan} {scan}_nonlin_T1FOVmask.nii.gz
+{scan} {scan}_orig.nii.gz
+{scan} {scan}_SBRef_nonlin.nii.gz
+{scan} {scan}_SBRef_nonlin_norm.nii.gz
 {scan} Scout2T1w.nii.gz
 {scan} Scout_gdc_mask.nii.gz
 {scan} Scout_gdc.nii.gz
@@ -180,14 +196,6 @@ T1w xfms {scan}2str.nii.gz
 {scan} Scout_orig.nii.gz
 {scan} T1wMulEPI.nii.gz
 {scan} T1w_restore.2.nii.gz
-{scan} {scan}_gdc.nii.gz
-{scan} {scan}_gdc_warp_jacobian.nii.gz
-{scan} {scan}_gdc_warp.nii.gz
-{scan} {scan}_mc.nii.gz
-{scan} {scan}_nonlin_mask.nii.gz
-{scan} {scan}_nonlin_norm.wdir
-{scan} {scan}_nonlin_norm.wdir log.txt
-{scan} {scan}_nonlin_norm.wdir qa.txt
-{scan} {scan}_orig.nii.gz
-{scan} {scan}_SBRef_nonlin.nii.gz
-{scan} {scan}_SBRef_nonlin_norm.nii.gz
+T1w
+T1w xfms
+T1w xfms {scan}2str.nii.gz