I tried using @grayplot and was encountering errors (unable to read the directory), so I updated my afni binaries (Precompiled binary macos_10.12_local: Jul 31 2018 (Version AFNI_18.2.06)) and now the program @grayplot is gone. Is it really gone? Will it return one day?
That is surely a quirky error on the part of our build process, and not a permanent change.
I have PMed you instructions to copy the most recent version of the code into a text file, make it executable, and then put it into your “~/abin/” directory (or wherever you have installed your AFNI binaries), and then you shoudl be good to go for now.
We will try to do a build in the near future to correct this in the distributed binaries. Thanks for bringing it to our attention.
The code still created an error for me, and I realized it was because my data are in orig space, and @grayplot is hardcoded to expect +tlrc in the image files. So I changed that and the program worked–thank you again!
OK, I asked The Bob a bit more about this program, and he mentioned that @grayplot script is specifically made to partner with afni_proc.py output-- for most applications, this means that the relevant files to plot will be *+tlrc.BRIK/HEAD files; there will also be other things present to add to the plots. To do this, the @grayplot script has some hardwired features (e.g., the “tlrc” space assumption).
Thanks Paul! Yea I was using it on the afni_proc.py output, but I don’t use the tlrc option in my scripts (I keep everything in native space for my analyses). I used the 3dGrayPlot program but I like that the @grayplot program plots the motion parameters and censored volumes.
I have made the change to @grayplot so it will use +orig datasets if +tlrc datasets are not found.
This change will be in the next binary build. If you send me email to robertcox@mail.nih.gov then I can email you a copy of this script to use immediately, since I can’t predict when the next build will take place (a week, maybe).
A build was run yesterday, finishing around noon,
so Bob’s updates should be available.
Look for version AFNI_18.2.10.
rick
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