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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January 05, 2023 04:53PM
Hi Rick, Daniel,

thank you both for your insight on the issue!
RE R installation: R was installed already before I started anything. Is there any environment variable I should set for the source build to know where to find it?
R (the environment call) is in /usr/bin, my R folder is in /usr/lib (/usr/lib/R is the R folder with its lib and modules subfolders). In one of my attempts I set cmake to point to /usr/lib, but didn't seem to change anything (maybe because I didn't understand the use of the variable):
cmake -DCMAKE_INSTALL_RPATH='/usr/lib'

Rick, I tried what you suggested, but it didn't work. Of note, all of the listed packages in other_builds/OS_notes.linux_ubuntu_20_64 were already installed. I then proceeded to do:
cp other_builds/Makefile.linux_ubuntu_16_64_glw_local_shared Makefile
make -j20 itall 2>&1 | tee out.make.txt
make install
But the final make returned again:
SUMA_Makefile:33: *** Recursive variable 'CC' references itself (eventually).  Stop.
make[1]: Leaving directory '/tmp/general_preproc_build_2023-01-05_21-18-44/afni/source/src/SUMA'
/bin/cp: cannot stat 'SUMA/libgts.a': No such file or directory
/bin/cp: cannot stat 'SUMA/libgts.a': No such file or directory
make: *** [Makefile.INCLUDE:3833: libgts.a] Error 1

Something else I could try?

Stefano
Subject Author Posted

Issues in building AFNI from source for a container

smoia January 05, 2023 09:57AM

Re: Issues in building AFNI from source for a container

rick reynolds January 05, 2023 10:32AM

Re: Issues in building AFNI from source for a container

Daniel Glen January 05, 2023 02:13PM

Re: Issues in building AFNI from source for a container

smoia January 05, 2023 04:53PM

Re: Issues in building AFNI from source for a container

ptaylor January 05, 2023 05:36PM

Re: Issues in building AFNI from source for a container

rick reynolds January 05, 2023 06:08PM

Re: Issues in building AFNI from source for a container

Daniel Glen January 06, 2023 07:17PM

Re: Issues in building AFNI from source for a container

smoia January 10, 2023 07:55AM

Re: Issues in building AFNI from source for a container

ptaylor January 10, 2023 07:59AM

Re: Issues in building AFNI from source for a container

rick reynolds January 10, 2023 09:23AM