Christophe Grova said:
j ai qques problemes pour convertir en GIS des cartes T IRMf qui sont en MINC .... en effet l outil que tu m avais file , que j ai un peu modifie pour mes besoin (qques Flips !) ... ne sort que des donnees en 16 bits or la il faudrait que je sorte du flottant ... d ou deux questions :
- as tu deja fait evolue cette outil (minc2gis) pour qu il sorte du flottant ?
- sinon, je veux bien le faire ...mais pour cela il me faudrait tes sources, car je n ai que l executable VipConvertmincTOgis, et il me faudrait qques pistes ou le source, car visiblement cet outil fait plus qu un simple minctoraw.
Hi Christophe,
we would appreciate a lot if you
could integrate the MINC format in brainVISA
framework. We plan that for a long time but
never find time. The VipConvertmincTOGIS
was an attempt I did while working in the MNI
in 2001, before the advent of brainVISA first release.
I get so confused by the multiple layers of
MINC IO, I finally gave up doing something
generic. I think we should forget about this code now.
The right way to proceed should be something like:
Download sources of AimsData, which relates to the IO
system of Anatomist and all the AimsSomething command lines
used by brainVISA (unfortunally, the C-based Vip library relies
on an out of date IO system, but brainVISA can convert
anything in GIS format before feeding Vip Command lines).
AimsData includes a system of modules, which allows the addition of
new formats as long as the corresponding dynamic library
is somewhere in the path of the user (Denis Rivière did this
nice stuff). I think you should put there
some kind of wrapper towards mincIO, I guess something
above volumeio library. The simplest way to do it would
be to ask Jason Lerch to give you access to his C++
encapsulation of volumio.
Home you will manage to do that.
Jeff
MINC format
- Jean-Francois Mangin
- Posts: 337
- Joined: Mon Mar 01, 2004 10:24 am
- Location: Neurospin, CEA, France
- Contact:
MINC converter
I will try to do something ... but where are the source I should download and compile to look at that ?
There are so many pack that you could download on the site ... I don t know what to choose
Jeff, are the source of your VipConvertmincTOgis included somewhere ?
It may be a good step to start with ...because at least you solved the problem of orientation for minc axial files
Thanks in advance , Christophe
There are so many pack that you could download on the site ... I don t know what to choose
Jeff, are the source of your VipConvertmincTOgis included somewhere ?
It may be a good step to start with ...because at least you solved the problem of orientation for minc axial files
Thanks in advance , Christophe
***************************
Christophe Grova, PhD
PostDoc - EEG department
Montreal Neurological Institute, McGill University
email : christophe.grova@mail.mcgill.ca
tel : (514) 398 2184
fax : (514) 398 8106
***************************
Christophe Grova, PhD
PostDoc - EEG department
Montreal Neurological Institute, McGill University
email : christophe.grova@mail.mcgill.ca
tel : (514) 398 2184
fax : (514) 398 8106
***************************
- riviere
- Site Admin
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- Location: CEA NeuroSpin, Saint Aubin, France
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You can get the sources on the download section of the web site: http://brainvisa.info/downloadpage.html. The sources of the latest stable release are those from the 2.3 package.
You need aimsdata-2.13, graph-1.16, cartobase-1.1, and the build tools: build-config, configure and maker. ecat and vidaIO plugins are optional.
Compilation instructions on http://brainvisa.info/compilation.html are a bit outdated, but basically you need to untar the source packages in the same directory, make the compilation tools accessible in your PATH, and do a:
This should configure and build everything needed. For more information and options of build-config, look at http://brainvisa.info/build.html
As you will soon see, there is quite a lack of documentation. However you can build a coarse doc using doxygen: doxygen is inclued in all good linux distributions and builds HTML documentation pages from a set of .h files. If you build this doc, you will find a small doc on the IO system of Aims (this is the only part which has a bit of doc, how lucky you are...)
Good luck...
Denis
You need aimsdata-2.13, graph-1.16, cartobase-1.1, and the build tools: build-config, configure and maker. ecat and vidaIO plugins are optional.
Compilation instructions on http://brainvisa.info/compilation.html are a bit outdated, but basically you need to untar the source packages in the same directory, make the compilation tools accessible in your PATH, and do a:
Code: Select all
build-config --build aimsdata
As you will soon see, there is quite a lack of documentation. However you can build a coarse doc using doxygen: doxygen is inclued in all good linux distributions and builds HTML documentation pages from a set of .h files. If you build this doc, you will find a small doc on the IO system of Aims (this is the only part which has a bit of doc, how lucky you are...)
Good luck...
Denis
-
- Posts: 22
- Joined: Wed Mar 17, 2004 5:25 pm
- Location: LENA/CNRS, Paris
Hi Christophe (and everyone!)
Until now, I only imported 16bit data and the Vip command was perfect for that.
But I will be interested to import float as well in the near future.
If you want, I can try to give you a little help with this.
I don't know much about minc but want to learn a bit of Aims. So it could be a good occasion to get into it
Olivier
(email me : colliot@bic)
Until now, I only imported 16bit data and the Vip command was perfect for that.
But I will be interested to import float as well in the near future.
If you want, I can try to give you a little help with this.
I don't know much about minc but want to learn a bit of Aims. So it could be a good occasion to get into it
Olivier
(email me : colliot@bic)
- Jean-Francois Mangin
- Posts: 337
- Joined: Mon Mar 01, 2004 10:24 am
- Location: Neurospin, CEA, France
- Contact:
- Jean-Francois Mangin
- Posts: 337
- Joined: Mon Mar 01, 2004 10:24 am
- Location: Neurospin, CEA, France
- Contact:
work in progress
Just a couple of information.
Olivier Coliot did a great job during the last weeks.
Thanks to him and Denis, Anatomist and BrainVISA
should be able to read Minc-1 format in the next release.
Jeff
Olivier Coliot did a great job during the last weeks.
Thanks to him and Denis, Anatomist and BrainVISA
should be able to read Minc-1 format in the next release.
Jeff