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Missing motion graph in QC folder

Submitted by ceierud on
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Hi Tortoise!

Loving your QC files, I only miss the XXX_DMC_motion.jpg file, and I wonder if you know what I may be doing wrong? I do get all the other QC files, including: 24240dti_DMC_DWI_qc_onescl.axi.gif 24240dti_DMC_DWI_qc_sepscl.sag.gif  24240dti_DWI_qc_onescl.sag.png 24240dti_DMC_DWI_qc_onescl.axi.png 24240dti_DMC_DWI_qc_sepscl.sag.png 24240dti_DWI_qc_sepscl.axi.gif 24240dti_DMC_DWI_qc_onescl.cor.gif 24240dti_DMC_EPI_structural.axi.png 24240dti_DWI_qc_sepscl.axi.png 24240dti_DMC_DWI_qc_onescl.cor.png 24240dti_DMC_EPI_structural.cor.png 24240dti_DWI_qc_sepscl.cor.gif 24240dti_DMC_DWI_qc_onescl.sag.gif 24240dti_DMC_EPI_structural.sag.png  24240dti_DWI_qc_sepscl.cor.png 24240dti_DMC_DWI_qc_onescl.sag.png 24240dti_DWI_qc_onescl.axi.gif 24240dti_DWI_qc_sepscl.sag.gif 24240dti_DMC_DWI_qc_sepscl.axi.gif 24240dti_DWI_qc_onescl.axi.png 24240dti_DWI_qc_sepscl.sag.png 24240dti_DMC_DWI_qc_sepscl.axi.png 24240dti_DWI_qc_onescl.cor.gif 24240dti_structural.axi.png 24240dti_DMC_DWI_qc_sepscl.cor.gif 24240dti_DWI_qc_onescl.cor.png 24240dti_structural.cor.png 24240dti_DMC_DWI_qc_sepscl.cor.png  24240dti_DWI_qc_onescl.sag.gif 24240dti_structural.sag.png

Tortoise 3.1.4 Commands I use are:
ImportNIFTI -b bvals.txt -v bvecs.txt -p vertical -i 123.nii

DIFFPREP -i 123.list -s 123struct.nii --reg_settings 123.dmc --will_be_drbuddied 0 --do_QC --keep_intermediate 1

123.dmc includes text below:
<correction_mode>quadratic</correction_mode>
<EPI_optimization_settings>off</EPI_optimization_settings>
<b0_id>0</b0_id>
<perform_high_bval_correction>0</perform_high_bval_correction>
<high_b_dti_end_bval>1000</high_b_dti_end_bval>
<high_b_mapmri_start_bval>3000</high_b_mapmri_start_bval>
<smoothing>off</smoothing>
<denoising>for_reg</denoising>
<upsampling>All</upsampling>
<upsampling_factor>2</upsampling_factor>
<upsampling_method>Linear</upsampling_method>
<FoVx>200</FoVx>
<FoVy>240</FoVy>
<FoVz>190</FoVz>
<is_human_brain>1</is_human_brain>
<automatic_noise_computation>0</automatic_noise_computation>
<b0_noise_mean>0</b0_noise_mean>
<b0_noise_std>0.1</b0_noise_std>
<str_noise_mean>0</str_noise_mean>
<str_noise_std>0.1</str_noise_std>
<write_rpd_epi>0</write_rpd_epi>
<res_x>1.5</res_x>
<res_y>1.5</res_y>
<res_z>1.5</res_z>
<scale_signal_factor>1</scale_signal_factor>

I did notice I get a file in the folder above the QC folder called 24240dti_proc_eddy_transformations.txt and I wonder if this file may be used to calculate the motion?

 

Best Regards,

Cyrus

Submitted by nayaka on Tue, 08/11/2020 - 08:43

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Hi Cyrus,

Which TORTOISE version are you using to process the data?

Amritha