mriconvert: mri_convert installation on mac os sierra

[Jolinda]

Great, thanks, just wanted to make sure we were talking about the same
thing. Unfortunately, I haven’t compiled in for Sierra myself (I don’t even
have access to a machine running sierra at the moment), so I don’t think I
can be much help. I am however finally able to spend a little more time on
MRIConvert than I have lately, so please do keep in touch with your progress
and I’ll do the same. One warning: the source code you have is probably a
bit out of date, so be extra careful to verify the results (especially
things like the bvec files, if you are doing diffusion imaging).

 

Jolinda

 

From: mriconvert-bounces at lists.uoregon.edu
[mailto:mriconvert-bounces at lists.uoregon.edu] On Behalf Of Erik Olsson
Sent: Friday, December 1, 2017 2:25 AM
To: 'MRIConvert user's list' <mriconvert at lists.uoregon.edu>
Subject: Re: mriconvert: mri_convert installation on mac os sierra

 

Hi

 

Sorry about the name confusion.

 

I tried dicom to nii conversion with MRIConvert and it did a more consistent
orientation job with my dicom files than the command line converter
mri_convert. Hence I would like to use a command line version of MRIConvert
and I suppose it is McVerter I should install?

 

However, when I try gcc compilation of McVerter I get the error:

"

In file included from /MRIConvert-2.1.0-src/McVerter.cpp:5:
/MRIConvert-2.1.0-src/McVerter.h:21:10: fatal error: 'wx/app.h' file not
found
#include <wx/app.h>

"

 

 

The app.h seems to be in the PATH. Do you have any idea what goes wrong?

 

best regards

Erik

  _____  

Från: mriconvert-bounces at lists.uoregon.edu
<mailto:mriconvert-bounces at lists.uoregon.edu>
<mriconvert-bounces at lists.uoregon.edu
<mailto:mriconvert-bounces at lists.uoregon.edu> > för Jolinda
<jolinda at uoregon.edu <mailto:jolinda at uoregon.edu> >
Skickat: den 30 november 2017 23:50:35
Till: 'MRIConvert user's list'
Ämne: Re: mriconvert: mri_convert installation on mac os sierra 

 

There is no mri_convert 2.1.0 as far as I know, and if there were, you’d
want to ask about it on a different mailing list, because this one is for
MRIConvert/mcverter. There is also no MriConvert, unless someone decided to
write a third confusingly-named piece of software. What website did you
download these from that is misspelling everything? And are you sure you
want to replace mri_convert with a completely different piece of software?

 

Jolinda

 

From: mriconvert-bounces at lists.uoregon.edu
<mailto:mriconvert-bounces at lists.uoregon.edu>
[mailto:mriconvert-bounces at lists.uoregon.edu] On Behalf Of Erik Olsson
Sent: Thursday, November 30, 2017 2:12 PM
To: 'MRIConvert user's list' <mriconvert at lists.uoregon.edu
<mailto:mriconvert at lists.uoregon.edu> >
Subject: Re: mriconvert: mri_convert installation on mac os sierra

 

Hi

 

But my thought was to replace my mri_convert 1.179 (and it is installed
within Freesurfer 5.1) with mri_convert 2.1.0.  (both mri_convert 2.1.0 and
MriConvert were downloaded from the same website)

 

best regards
Erik

  _____  

Från: mriconvert-bounces at lists.uoregon.edu
<mailto:mriconvert-bounces at lists.uoregon.edu>
<mriconvert-bounces at lists.uoregon.edu
<mailto:mriconvert-bounces at lists.uoregon.edu> > för Jolinda
<jolinda at uoregon.edu <mailto:jolinda at uoregon.edu> >
Skickat: den 30 november 2017 22:37:28
Till: 'MRIConvert user's list'
Ämne: Re: mriconvert: mri_convert installation on mac os sierra 

 

There may be some confusion here. MRIConvert (no underscore) is a different
program than mri_convert that comes with Freesurfer. They were
developed/named at about the same time, and neither of us ever bothered to
rename our software.

 

J

 

From: mriconvert-bounces at lists.uoregon.edu
<mailto:mriconvert-bounces at lists.uoregon.edu>
[mailto:mriconvert-bounces at lists.uoregon.edu] On Behalf Of Erik Olsson
Sent: Thursday, November 30, 2017 10:41 AM
To: MRIConvert user's list <mriconvert at lists.uoregon.edu
<mailto:mriconvert at lists.uoregon.edu> >
Subject: Re: mriconvert: mri_convert installation on mac os sierra

 

Hi there!

 

Thanks for your replies.

 

When I try gcc I get the message: 

fatal error: 'wx/wxprec.h' file not
      found

so maybe my wxWidget 3.0.3 installation is faulty (however the wxprec.h file
is in the PATH)

 

Do you know which mri_convert version the latest version of Freesurfer is
using? It may be a "workaround" to update Freesurfer in order to get a newer
mri_convert. My mri_convert version at the moment is 1.179.2.7 2012/09/05
and unfortunately it gets the orientation wrong for some of my
dicomacquisitions when converting to nifti. The latest MriConvert app can
handle these dicom aqcuisitions in a better way and that is why I want a
late verion of mri_convert.

 

best regards

Erik

  _____  

Från: mriconvert-bounces at lists.uoregon.edu
<mailto:mriconvert-bounces at lists.uoregon.edu>
<mriconvert-bounces at lists.uoregon.edu
<mailto:mriconvert-bounces at lists.uoregon.edu> > för Will Moore
<william.e.moore.iii at gmail.com <mailto:william.e.moore.iii at gmail.com> >
Skickat: den 29 november 2017 18:31:45
Till: MRIConvert user's list
Ämne: Re: mriconvert: mri_convert installation on mac os sierra 

 

I have successfully used gcc to compile mriconvert/mcverter on OS X (Leopard
through Mavericks), but haven't tried on macOS (Sierra/High Sierra_.

 

~Will

 

On Nov 28, 2017, at 12:41 PM, Jolinda <jolinda at uoregon.edu
<mailto:jolinda at uoregon.edu> > wrote:

 

I think I used gcc. Been a long time since I did any building for osx (I
handed that off to someone who isn’t here any more and haven’t had time to
go back to it).

 

J

 

From: mriconvert-bounces at lists.uoregon.edu
<mailto:mriconvert-bounces at lists.uoregon.edu>
[mailto:mriconvert-bounces at lists.uoregon.edu] On Behalf Of Erik Olsson
Sent: Tuesday, November 28, 2017 8:56 AM
To: mriconvert at lists.uoregon.edu <mailto:mriconvert at lists.uoregon.edu> 
Subject: mriconvert: mri_convert installation on mac os sierra

 

Hi,

I wonder if you have any suggestion how to make a command line installation
of mri_convert 2.1.0 on 

Mac os sierra 10.12.3? (e.g what compiler to use)

 

best regards

Erik

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