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  

|
January 12, 2020 11:14PM
Oh, right. Sorry. Here it is.

-------------------------------- general ---------------------------------
architecture: 64bit
system: Darwin
release: 19.2.0
version: Darwin Kernel Version 19.2.0: Sat Nov 9 03:47:04 PST 2019; root:xnu-6153.61.1~20/RELEASE_X86_64
distribution: 10.15.2 x86_64
number of CPUs: 4
apparent login shell: bash
shell RC file: .bashrc (exists)

--------------------- AFNI and related program tests ---------------------
which afni : /Users/ian/abin/afni
afni version : Precompiled binary macos_10.12_local: Dec 27 2019
: AFNI_19.3.18 'Nero'
AFNI_version.txt : AFNI_19.3.18, macos_10.12_local, Dec 27 2019
which python : /usr/local/bin/python
python version : 2.7.17
which R : /usr/local/bin/R
R version : R version 3.5.2 (2018-12-20) -- "Eggshell Igloo"
which tcsh : /bin/tcsh

instances of various programs found in PATH:
afni : 1 (/Users/ian/abin/afni)
R : 1 (/Library/Frameworks/R.framework/Versions/3.5/Resources/bin/R)
python : 2
/usr/local/Cellar/python@2/2.7.17/Frameworks/Python.framework/Versions/2.7/bin/python2.7
/System/Library/Frameworks/Python.framework/Versions/2.7/bin/python2.7
python2 : 2
/usr/local/Cellar/python@2/2.7.17/Frameworks/Python.framework/Versions/2.7/bin/python2.7
/System/Library/Frameworks/Python.framework/Versions/2.7/bin/python2.7
python3 : 3
/Library/Frameworks/Python.framework/Versions/3.7/bin/python3.7
/Library/Frameworks/Python.framework/Versions/3.6/bin/python3.6
/usr/bin/python3


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 -------------------------------
++ module loaded: PyQt4
module file : /usr/local/lib/python2.7/site-packages/PyQt4/__init__.pyc

** have PyQt4, but cannot load QtCore, QtGui; error is:

**************************************************
Traceback (most recent call last):
File "<string>", line 1, in <module>
ImportError: No module named sip
**************************************************


** failed to load module matplotlib.pyplot
-- matplotlib.pyplot is not required, but is desirable

-- python binaries under /usr/local/bin:
/usr/local/bin/python (sym link to /usr/local/Cellar/python@2/2.7.17/Frameworks/Python.framework/Versions/2.7/bin/python2.7)
/usr/local/bin/python2 (sym link to /usr/local/Cellar/python@2/2.7.17/Frameworks/Python.framework/Versions/2.7/bin/python2.7)
/usr/local/bin/python3.6 (sym link to /Library/Frameworks/Python.framework/Versions/3.6/bin/python3.6)
/usr/local/bin/python2.7 (sym link to /usr/local/Cellar/python@2/2.7.17/Frameworks/Python.framework/Versions/2.7/bin/python2.7)

-------------------------------- env vars --------------------------------
PATH = /Library/Frameworks/Python.framework/Versions/3.7/bin:/Library/Frameworks/Python.framework/Versions/3.7/bin:/Library/Frameworks/Python.framework/Versions/3.7/bin:/Library/Frameworks/Python.framework/Versions/3.6/bin:/Library/Frameworks/Python.framework/Versions/2.7/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin:/Users/ian/abin

PYTHONPATH =
R_LIBS =
LD_LIBRARY_PATH =
DYLD_LIBRARY_PATH (sub-shell) = :/opt/X11/lib/flat_namespace
DYLD_FALLBACK_LIBRARY_PATH (sub-shell) =

------------------------------ data checks -------------------------------
data dir : found AFNI_data6 under $HOME
top history: ...2019 [ptaylor]: updated FT_analysis/results.QC_FT.05
data dir : found AFNI_demos under $HOME/AFNI STUFF
top history: ...ay 2019 [rickr]: AFNI_pamenc updates to global_*.txt
data dir : found suma_demo under $HOME/AFNI STUFF
top history: ...s_New/data/Build_tmp on Mon Mar 4 11:56:45 EST 2013
data dir : found afni_handouts under $HOME/AFNI STUFF
atlas : found TT_N27+tlrc under /Users/ian/abin

------------------------------ OS specific -------------------------------
XQuartz version : 2.7.11

which brew : /usr/local/bin/brew
brew version : Homebrew 2.2.2

++ found PyQt4 under /usr/local/lib/python2.7/site-packages
-- consider installing gcc under homebrew
++ found valid link /usr/local/lib/libglib-2.0.dylib
to ../Cellar/glib/2.62.3/lib/libglib-2.0.dylib
++ 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 'bash'...
++ found evar DYLD_LIBRARY_PATH = :/opt/X11/lib/flat_namespace
-- recent OS X, cheating to check DYLD_LIBRARY_PATH in shell 'tcsh'...
++ found evar DYLD_LIBRARY_PATH = /opt/X11/lib/flat_namespace

========================= summary, please fix: =========================
* login shell 'bash', trusting user to translate code examples from 'tcsh'
* shell bash: consider sourcing (non-login) .bashrc from (login) .bash_profile
* check for partial install of PyQt4
Subject Author Posted

Installing pyqt

brainboi January 12, 2020 05:31PM

Re: Installing pyqt

ptaylor January 12, 2020 05:45PM

Re: Installing pyqt

brainboi January 12, 2020 08:16PM

Re: Installing pyqt

ptaylor January 12, 2020 08:49PM

Re: Installing pyqt

brainboi January 12, 2020 10:46PM

Re: Installing pyqt

ptaylor January 12, 2020 10:51PM

Re: Installing pyqt

brainboi January 12, 2020 11:14PM

Re: Installing pyqt

ptaylor January 13, 2020 06:36PM

Re: Installing pyqt

brainboi January 13, 2020 07:12PM