yes, I have python installed via miniconda3
-------------------------------- general ---------------------------------
architecture: 64bit
system: Darwin
release: 21.4.0
version: Darwin Kernel Version 21.4.0: Mon Feb 21 20:34:37 PST 2022; root:xnu-8020.101.4~2/RELEASE_X86_64
distribution: 10.16
number of CPUs: 6
apparent login shell: zsh
shell RC file: .zshrc (exists)
--------------------- AFNI and related program tests ---------------------
which afni : /Users/andrewlynn/abin/afni
afni version : Precompiled binary macos_10.12_local: Dec 3 2021
: AFNI_21.3.10 'Trajan'
AFNI_version.txt : AFNI_21.3.10, macos_10.12_local, Dec 03 2021
which python : /Users/andrewlynn/miniconda3/bin/python
python version : 3.9.7
which R : /usr/local/bin/R
R version : R version 3.6.3 (2020-02-29) -- "Holding the Windsock"
which tcsh : /bin/tcsh
instances of various programs found in PATH:
afni : 1 (/Users/andrewlynn/abin/afni)
R : 1 (/Library/Frameworks/R.framework/Versions/3.6/Resources/bin/R)
python : 1 (/Users/andrewlynn/miniconda3/bin/python3.9)
python2 : 0
python3 : 3
/Users/andrewlynn/miniconda3/bin/python3.9
/Library/Frameworks/Python.framework/Versions/3.10/bin/python3.10
/usr/bin/python3
** have python3 but not python2
testing ability to start various programs...
afni : success
suma : success
3dSkullStrip : success
uber_subject.py : success
3dAllineate : success
3dRSFC : success
SurfMesh : success
3dClustSim : success
3dMVM : success
checking for R packages...
rPkgsInstall -pkgs ALL -check : success
R RHOME : /Library/Frameworks/R.framework/Resources
checking for $HOME files...
.afnirc : found
.sumarc : found
.afni/help/all_progs.COMP : found
------------------------------ python libs -------------------------------
** failed to load module PyQt4
-- PyQt4 is no longer needed for an AFNI bootcamp
** failed to load module matplotlib.pyplot
-- matplotlib.pyplot is not required, but is desirable
-- python binaries under /usr/local/bin:
/usr/local/bin/python3 (sym link to /Library/Frameworks/Python.framework/Versions/3.10/bin/python3.10)
/usr/local/bin/python3.9 (sym link to /usr/local/Cellar/python@3.9/3.9.6/Frameworks/Python.framework/Versions/3.9/bin/python3.9)
-------------------------------- env vars --------------------------------
PATH = /Users/andrewlynn/miniconda3/bin:/Users/andrewlynn/miniconda3/condabin:/Library/Frameworks/Python.framework/Versions/3.10/bin:/Applications/freesurfer/7.1.1/bin:/Applications/freesurfer/7.1.1/fsfast/bin:/Applications/freesurfer/7.1.1/mni/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin:/Library/Apple/usr/bin:/Users/andrewlynn/abin
PYTHONPATH =
R_LIBS =
LD_LIBRARY_PATH =
zsh compinit: insecure directories, run compaudit for list.
Ignore insecure directories and continue [y] or abort compinit [n]? y
DYLD_LIBRARY_PATH (sub-shell) = :/opt/X11/lib/flat_namespace
zsh compinit: insecure directories, run compaudit for list.
Ignore insecure directories and continue [y] or abort compinit [n]? DYLD_FALLBACK_LIBRARY_PATH (sub-shell) =
------------------------------ data checks -------------------------------
data dir : missing AFNI_data6
data dir : missing AFNI_demos
data dir : missing suma_demo
data dir : missing afni_handouts
atlas : found TT_N27+tlrc under /Users/andrewlynn/abin
------------------------------ OS specific -------------------------------
XQuartz version : 2.8.1
which brew : /usr/local/bin/brew
brew version : Homebrew 3.2.7
++ found PyQt4 under /usr/local/lib/python2.7/site-packages
** warning: have brew? PyQt4, but non-brew python /Users/andrewlynn/miniconda3/bin/python
-- consider installing gcc under homebrew
-- consider installing glib under homebrew
++ found 1 dylib files under '/opt/X11/lib/flat_namespace'
-- found 'libXt' dylib files:
/opt/X11/lib/flat_namespace/libXt.6.dylib
-- recent OS X, cheating to check DYLD_LIBRARY_PATH in cur shell 'zsh'...
zsh compinit: insecure directories, run compaudit for list.
Ignore insecure directories and continue [y] or abort compinit [n]? y
++ found evar DYLD_LIBRARY_PATH = :/opt/X11/lib/flat_namespace
-- recent OS X, cheating to check DYLD_LIBRARY_PATH in shell 'tcsh'...
** env var DYLD_LIBRARY_PATH not set to contain /opt/X11/lib/flat_namespace
========================= summary, please fix: =========================
* just be aware: login shell 'zsh', but our code examples use 'tcsh'
* insufficient data for AFNI bootcamp
(see "Prepare for Bootcamp" on install pages)
* please set DYLD_LIBRARY_PATH to /opt/X11/lib/flat_namespace in tcsh
