Inquiry about Error in Autotrack When Analyzing Fetal Fiber Tracts

[yushan li]

Hi Frank,

I intend to view some specific fiber tracts of fetal data. I used the dHCP_neonate template during Step T2. However, when I reached Step T3 and clicked on "autotrack", an error message“no tractography atlas in dHCP_neonate template” popped up. Could you please tell me how to solve this problem?Thank you very much！

Best,

yushanli

[Frank Yeh]

Sorry about the problem. Could you update and regenerate the gz file again to see if it works?

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[Frank Yeh]

You may download the latest version and see if it works. (may need to regenerate .fib.gz file which becomes .fz in the new version)

Frank

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[yushan li]

Thank you so much for taking the time to reply. In fact, I have already tried using the latest version of the software. Unfortunately, the same problem still persists.And just now, I updated and regenerated the gz file, but it still didn't work. Is there any another solution？Hope to get your help.Thank you very much.

best,

yushanli

[Frank Yeh]

Sorry about that. Is it possible to send me the data (using the private link above the Discussion forum)? 
I will do it on my side and fix the problem for you.

Frank

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[yushan li]

I'm truly sorry. The version I downloaded two months ago still didn't work for me. Just now, I downloaded the latest version again and found that there was no problem. I really apologize for the trouble, Frank. Thank you so much for your reply.

yushanli

[Frank Yeh]

Glad it worked!

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[yushan li]

Hi，Frank. I'm a beginner who has just started working with this,I'm sorry to bother you again.

1.In the GUI, when opening a neonate's fib file, the default template displayed is rhesus, and it can be modified to neonate at this time. Then, if I need to perform tracking on many fib files together, how can I modify the template in the CLI? Is there a way to achieve this?
dsi_studio --action=trk --source=.fib.gz --output=.tt.gz

2.Can the network measures of the tt.gz files after tracking all the fib files in a folder be exported as a txt format in the CLI? How should the following CLI be modified? Where is the --connectivity_output=measure displayed, and how is it output?

dsi_studio --action=trk --source=.fib.gz --output=.tt.gz --connectivity_output=measure

Thank you very much！

[Frank Yeh]

The neonate brain has the similar size of a rhesus monkey, and here you need to change it to neonate.

Frank

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[Yufan Wang]

Dear Dr. Yeh,

I also encountered this problem that neonate scans might be identifed as rhesus in command line. Is there a parameter to set this correctly?

Best,

Yufan

[Frank Yeh]

Specify --template=1
The correct number can check the log output.

Best,

Frank

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[Yufan Wang]

This works! Many thanks!

Yufan