tag:blogger.com,1999:blog-1405968300258104460.post5615157727628797860..comments2024-03-27T01:18:24.341-04:00Comments on Andy's Brain Blog: AFNI Install on OS X El CapitanAndrew Jahnhttp://www.blogger.com/profile/16435706598096921650noreply@blogger.comBlogger19125tag:blogger.com,1999:blog-1405968300258104460.post-57327808034999364442017-01-16T15:17:56.458-05:002017-01-16T15:17:56.458-05:00Hey Gabriela, I haven't used Sierra yet, so I ...Hey Gabriela, I haven't used Sierra yet, so I can't say what the problem is. I would try posting that to the AFNI message boards and see what they have to say; they've probably debugged it.<br /><br />-AndyAndrew Jahnhttps://www.blogger.com/profile/16435706598096921650noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-89434233016331466802017-01-13T15:31:58.074-05:002017-01-13T15:31:58.074-05:00mac os x 10.12mac os x 10.12Gabrielahttps://www.blogger.com/profile/01748491292632527818noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-2488465318044855132017-01-13T15:17:42.690-05:002017-01-13T15:17:42.690-05:00Hi Andy,
thanks again for your amazing blog. It i...Hi Andy,<br /><br />thanks again for your amazing blog. It is very helpful!!<br />So, do you know something about the installation of AFNI in Mac OS sierra?<br />I am having problems with this command: brew install gcc --with-all-languages --without-multilib<br />There are error messages for--with-all-languages and --without-multilib.<br />Could you help me?<br /><br />Thanks again!!Gabrielahttps://www.blogger.com/profile/01748491292632527818noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-25347649643028896262016-10-17T13:04:48.313-04:002016-10-17T13:04:48.313-04:00Hi Nena, yes, I would go ahead and reset your path...Hi Nena, yes, I would go ahead and reset your paths; make sure that the path points to where the new AFNI binaries are.<br /><br />-AndyAndrew Jahnhttps://www.blogger.com/profile/16435706598096921650noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-4577870838796408602016-10-14T16:36:44.553-04:002016-10-14T16:36:44.553-04:00Hi Andy,
I recently upgraded to El Capitan and re...Hi Andy,<br /><br />I recently upgraded to El Capitan and reinstalled AFNI (deleted the older version) following the steps you outlined. BUT every time I want to start AFNI I need to set all the paths again. Any idea why that might be happening? Could it be that I need to remove the paths that were set in .cshrc file when I had installed AFNI with my older version of OSXNeha Sinhanoreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-88808575707012823162016-07-26T21:33:38.168-04:002016-07-26T21:33:38.168-04:00Hi Gamal,
I would post that to the AFNI message b...Hi Gamal,<br /><br />I would post that to the AFNI message board; they would have more insight into it than I would.<br /><br /><br />Best,<br /><br />-AndyAndrew Jahnhttps://www.blogger.com/profile/16435706598096921650noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-74746250915543884502016-07-22T11:31:17.481-04:002016-07-22T11:31:17.481-04:00I am getting some errors during installation.
Thi...I am getting some errors during installation. <br />This is my exit output when running afni_system_check.py.<br /><br />I cannot get libgomp resolved. <br /><br />How can I send my output file as I cannot attached here as txt.Gamalhttps://www.blogger.com/profile/09288603305785617112noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-2466321814610691682016-06-22T20:39:44.669-04:002016-06-22T20:39:44.669-04:00Hey there,
Try moving everything in the macosx fo...Hey there,<br /><br />Try moving everything in the macosx folder into the abin directory, e.g.:<br /><br />mv macosx_10.7_intel_64/* ~/abin<br /><br />-AndyAndrew Jahnhttps://www.blogger.com/profile/16435706598096921650noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-10438585348396172262016-06-22T15:38:08.340-04:002016-06-22T15:38:08.340-04:00Hi Andrew,
Everything works until the echo comman...Hi Andrew,<br /><br />Everything works until the echo commands, no errors are shown but i when i type in afni it does not pop up. also when i type in 'ls abin' macosx_10.7_intel_64 pops up, not the afni details like it did in your other video.<br /><br />could you please help me :(Anonymoushttps://www.blogger.com/profile/08866153465574265789noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-9161670692155782982016-04-06T16:15:19.396-04:002016-04-06T16:15:19.396-04:00I had not installed python yet
So I ran brew inst...I had not installed python yet<br /><br />So I ran brew install python<br /><br />and got python2.7<br /><br />which now can be sourced.<br /><br />Thanks a bunch buddy<br /><br />Thanks so much for this entire page!! and your videos <br />Very Very Very much appreciated!Anonymoushttps://www.blogger.com/profile/00257135637424067566noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-19317169698239285872016-04-06T14:53:43.019-04:002016-04-06T14:53:43.019-04:00Hey Joseph,
You could change the line to point to...Hey Joseph,<br /><br />You could change the line to point to the macosx directory, or you could move everything from the macosx directory to the abin directory. Either way should work.<br /><br />As for the Python path, doublecheck what version of python you have; python2.y seems off to me; it should be something more like python2.7 or python2.6.<br /><br /><br />Best,<br /><br />-AndyAndrew Jahnhttps://www.blogger.com/profile/16435706598096921650noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-62324969224208179372016-04-05T15:55:49.100-04:002016-04-05T15:55:49.100-04:00Hello Andy,
I can't seem to get the paths se...Hello Andy, <br /><br />I can't seem to get the paths set correctly.<br /><br />For this line: set path = (/usr/local/bin $path $HOME/abin)<br /><br />looking at the real directory $HOME/abin/macosx_10.7_Intel_64<br /><br />should all the contents of macosx_10.7_Intel_64 live inside abin or should I just correct the line to include the macosx... directory<br /><br /><br />For line: setenv PYTHONPATH /usr/local/lib/python2.y/site-packages<br /><br />looking in directories: /usr/local/lib <br /><br />python2.y directory does not exist...<br /><br /><br />Any thoughts much appreciated <br /><br />Thanks so much<br /><br />joseph<br /><br /><br />Anonymoushttps://www.blogger.com/profile/00257135637424067566noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-86797956857238805052016-02-29T22:24:27.288-05:002016-02-29T22:24:27.288-05:00For that you would probably need a virtual machine...For that you would probably need a virtual machine, but I don't have much experience with those. Good luck!<br /><br />-AndyAndrew Jahnhttps://www.blogger.com/profile/16435706598096921650noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-38713902726070560482016-02-26T01:50:11.816-05:002016-02-26T01:50:11.816-05:00how about running AFNI in windows
how about running AFNI in windows<br />Dr. Benjamin Klugah-Brownhttps://www.blogger.com/profile/06421639804886770675noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-58737773162713443152016-02-05T11:07:50.806-05:002016-02-05T11:07:50.806-05:00Hi Gunnar,
I would try source .cshrc in your home...Hi Gunnar,<br /><br />I would try source .cshrc in your home folder, or just type "rehash." If that doesn't work, check to make sure that the path from your source file is pointing to the right installation directory for AFNI.<br /><br /><br />Best,<br /><br />-AndyAndrew Jahnhttps://www.blogger.com/profile/16435706598096921650noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-78835435896587157142016-02-02T17:29:21.930-05:002016-02-02T17:29:21.930-05:00This comment has been removed by the author.Anonymoushttps://www.blogger.com/profile/05785755526181905130noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-80020500348259336982016-01-27T14:16:47.115-05:002016-01-27T14:16:47.115-05:00This is one of your more beautiful posts, Andy. :)...This is one of your more beautiful posts, Andy. :)Anonymousnoreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-70079818812358660812016-01-21T11:02:47.798-05:002016-01-21T11:02:47.798-05:00That is interesting, isn't it? It's also e...That is interesting, isn't it? It's also embarrassing.<br /><br />The post has been updated and more steps have been added. The video, however, remains unchanged (I had to do too many takes for that sports jacket thing, and I'll be damned if I have to do it again).<br /><br />-AndyAndrew Jahnhttps://www.blogger.com/profile/16435706598096921650noreply@blogger.comtag:blogger.com,1999:blog-1405968300258104460.post-2217126535870648182016-01-20T17:17:41.602-05:002016-01-20T17:17:41.602-05:00Interestingly, this post contains everything to in...Interestingly, this post contains everything to install AFNI except AFNI itself :)Rodolphehttps://www.blogger.com/profile/06359856059350959406noreply@blogger.com