AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

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May 25, 2020 07:44PM
Rick,

Thanks very much! I had originally tried what you suggested, but my activation regions are coming to be outside the brain. This is a mismatch. (I have attached the figure.)

Here are the parameters that I used while saving (in R):

y <- nifti(x, pixdim = c(3,3.5,3.5,6), qform.code = 4, sform.code = 4, intent.code = 5, xyzt.units = c("mm", "mm", "mm"), datatype = 16)
##
## no idea why pixdim[1] = 0 and the codes do not get picked up
## 

y@sform_code <- 0
y@qform_code  <- 4
y@intent_code <- 5
y@pixdim[1] <- 3
y@xyzt_units <- 2 # 2 stands for mm
writeNIfTI(nim = y, file = "Bstand2-int-FAST-death-negative", verbose = TRUE)

I will put the new file up also, with a slightly different name, in case the old one gets wiped out by this upload.

Many thanks again, and I am sorry for all the trouble.

Best wishes,
Ranjan
Attachments:
open | download - 2020-05-25-183908_3840x2160_scrot.png (1.05 MB)
Subject Author Posted

3dinfo on nifti file gives segmentation fault

maitra May 23, 2020 01:27PM

Re: 3dinfo on nifti file gives segmentation fault

rick reynolds May 23, 2020 02:15PM

Re: 3dinfo on nifti file gives segmentation fault

maitra May 23, 2020 02:52PM

Re: 3dinfo on nifti file gives segmentation fault

maitra May 23, 2020 03:44PM

Re: 3dinfo on nifti file gives segmentation fault

rick reynolds May 23, 2020 06:32PM

Re: 3dinfo on nifti file gives segmentation fault

rick reynolds May 24, 2020 02:36PM

Re: 3dinfo on nifti file gives segmentation fault Attachments

maitra May 24, 2020 07:44PM

Re: 3dinfo on nifti file gives segmentation fault

rick reynolds May 25, 2020 10:41AM

Re: 3dinfo on nifti file gives segmentation fault Attachments

maitra May 25, 2020 07:44PM

Re: 3dinfo on nifti file gives segmentation fault

rick reynolds May 28, 2020 11:56AM

Re: 3dinfo on nifti file gives segmentation fault

maitra May 28, 2020 02:37PM