DSI Studio "Chen" Apr 14 2022
source=sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.gz
action=src
reading sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.gz
b_table=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/sub-SPsV1c1m5_ses-P5_dwi_btable.txt
b-table /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/sub-SPsV1c1m5_ses-P5_dwi_btable.txt loaded
output=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/src/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz
output src to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/src/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz
sort_b_table=0
up_sampling=0
save sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/src/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz
action=rec
loading source...
SRC file loaded
src loaded
mask=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetMask_scaled.nii
cmd=[Step T2][B-table][flip by]+[Step T2][B-table][flip bz]
[Step T2][B-table][flip by]
[Step T2][B-table][flip bz]
param0=1.25
method=1
template=1
odf_order=8
odf_resolving=0
record_odf=0
dti_no_high_b=0
check_btable=0
other_output=fa,ad,rd,md,nqa,iso,rdi,nrdi
num_fiber=5
r2_weighted=0
thread_count=8
half_sphere=1
scheme_balance=1
start reconstruction...
DTI
saving sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
reconstruction finished.
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
action=exp
export=fa
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz...
FIB file loaded
fa.nii.gz saved 
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
action=exp
export=md
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz...
FIB file loaded
md loaded
md.nii.gz saved 
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
action=exp
export=ad
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz...
FIB file loaded
ad loaded
ad.nii.gz saved 
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
action=exp
export=rd
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz...
FIB file loaded
rd loaded
rd.nii.gz saved 
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
action=trk
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz...
FIB file loaded
otsu_threshold=0.6
fa_threshold=.02
dt_threshold=0.2
turning_angle=55
step_size=.5
smoothing=.1
min_length=.5
max_length=12.0
method=0
initial_dir=0
check_ending=0
tip_iteration=0
fiber_count=1000000
seed_count=0
thread_count=8
start tracking.
thread_count=8
finished tracking.
1000000 tracts are generated using 1036084 seeds.
0 tracts are removed by pruning.
The final analysis results in 1000000 tracts.
output=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
saving sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
Warning: --interpolation is not used. Please check command line syntax.
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
action=ana
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz...
FIB file loaded
tract=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
loading sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
A total of 1000000 tracks loaded
a total of 1 tract file(s) loaded
connectivity=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.nii
connectivity_type=pass,end
connectivity_value=qa
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.nii
reading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.nii as a NIFTI regioin file
DWI dimension=(128,128,20)
NIFTI dimension=(128,128,20)
nifti loaded as multiple ROI file
looking for region label file
label file loaded:/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.txt
a total of 946 regions are loaded.
connectivity_threshold=0.001
count tracks by passing
calculate matrix using qa
connectivity calculation error:Cannot quantify matrix value using qa
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
action=ana
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz...
FIB file loaded
tract=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
loading sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
A total of 1000000 tracks loaded
a total of 1 tract file(s) loaded
connectivity=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.nii
connectivity_type=pass,end
connectivity_value=count
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.nii
reading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.nii as a NIFTI regioin file
DWI dimension=(128,128,20)
NIFTI dimension=(128,128,20)
nifti loaded as multiple ROI file
looking for region label file
label file loaded:/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.txt
a total of 946 regions are loaded.
connectivity_threshold=0.001
count tracks by passing
calculate matrix using count
export connectivity matrix to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.count.pass.connectivity.mat
export connectogram to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.count.pass.connectogram.txt
export network measures to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.count.pass.network_measures.txt
count tracks by ending
calculate matrix using count
export connectivity matrix to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.count.end.connectivity.mat
export connectogram to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.count.end.connectogram.txt
export network measures to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnno_scaled.count.end.network_measures.txt
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
action=ana
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz...
FIB file loaded
tract=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
loading sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
A total of 1000000 tracks loaded
a total of 1 tract file(s) loaded
connectivity=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.nii
connectivity_type=pass,end
connectivity_value=qa
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.nii
reading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.nii as a NIFTI regioin file
DWI dimension=(128,128,20)
NIFTI dimension=(128,128,20)
nifti loaded as multiple ROI file
looking for region label file
label file loaded:/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.txt
a total of 95 regions are loaded.
connectivity_threshold=0.001
count tracks by passing
calculate matrix using qa
connectivity calculation error:Cannot quantify matrix value using qa
DSI Studio "Chen" Apr 14 2022
source=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz
action=ana
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz...
FIB file loaded
tract=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
loading sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz
A total of 1000000 tracks loaded
a total of 1 tract file(s) loaded
connectivity=/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.nii
connectivity_type=pass,end
connectivity_value=count
loading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.nii
reading /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.nii as a NIFTI regioin file
DWI dimension=(128,128,20)
NIFTI dimension=(128,128,20)
nifti loaded as multiple ROI file
looking for region label file
label file loaded:/data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/DSI_studio/sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.txt
a total of 95 regions are loaded.
connectivity_threshold=0.001
count tracks by passing
calculate matrix using count
export connectivity matrix to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.count.pass.connectivity.mat
export connectogram to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.count.pass.connectogram.txt
export network measures to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.count.pass.network_measures.txt
count tracks by ending
calculate matrix using count
export connectivity matrix to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.count.end.connectivity.mat
export connectogram to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.count.end.connectogram.txt
export network measures to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/fib_map/sub-SPsV1c1m5_ses-P5_dwi_mcf.nii.src.gz.dti.fib.gz.trk.gz.sub-SPsV1c1m5_ses-P5_dwiDNSmoothMicoBetAnnoSplit_parental_scaled.count.end.network_measures.txt
Both bval and bvec files must be present in the folder.
Merged table saved to /data/testdata_AIDA/proc_data/sub-SPsV1c1m5/ses-P5/dwi/sub-SPsV1c1m5_ses-P5_dwi_btable.txt