[MINC-users] SOLVED: pyminc problem getting dimension sizes

[Vladimir S. FONOV]

Hello,

I would imagine that pyminc was adapted to work with develop version of 
MINC2 ( https://github.com/BIC-MNI/libminc/tree/develop )

there : 
https://github.com/BIC-MNI/libminc/blob/develop/libsrc2/minc2_api.h#L552

which defined these parameters as misize_t , which is actually hsize_t 
from HDF5 
(http://www.hdfgroup.org/HDF5/doc/TechNotes/BigDataSmMach.html) which is 
in turn  unsigned long long


Previous version : 
https://github.com/BIC-MNI/libminc/blob/master/libsrc2/minc2.h#L315


On 14-03-05 02:02 PM, Thomas Funck wrote:
> Fixed my problem.  Just had to change  <int_sizes = c_ulonglong * 5>  to <int_sizes = c_unit * 5> in libpyminc2.py
>
> Thomas
>
> ________________________________________
> From: Thomas Funck
> Sent: Wednesday, March 05, 2014 1:38 PM
> To: minc-users at bic.mni.mcgill.ca
> Subject: pyminc problem getting dimension sizes
>
> Hi again,
>
> I'm trying to read in a minc file (minc 2, float) with pyminc, but I'm getting issues with the sizes of the dimensions. Using "libminc.miget_volumes_sizes" in volumes.py I get dimensions of [932007903413L, 181L, 0L]  instead of of [181, 217, 181]  (which is what mincinfo gives me) . There appears to have been earlier issues (https://github.com/mcvaneede/pyminc/pull/5) with a discrepancy between the data type used in libpyminc2.py and minc-2.2. I tried changing "misize_t" in libpyminc2.py to c_uint, c_ulong from the default of c_ulonglong, but to no avail.
>
> Thanks again for any help!
>
> Thomas
>
>
> ________________________________________
> From: minc-users-bounces at bic.mni.mcgill.ca [minc-users-bounces at bic.mni.mcgill.ca] on behalf of minc-users-request at bic.mni.mcgill.ca [minc-users-request at bic.mni.mcgill.ca]
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> Subject: MINC-users Digest, Vol 104, Issue 2
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> Today's Topics:
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>     1. Shared minc libraries on BIC server (Thomas Funck)
>     2. Re: Shared minc libraries on BIC server (Vladimir S. FONOV)
>
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> ----------------------------------------------------------------------
>
> Message: 1
> Date: Tue, 4 Mar 2014 22:16:17 +0000
> From: Thomas Funck <thomas.funck at mail.mcgill.ca>
> To: "minc-users at bic.mni.mcgill.ca" <minc-users at bic.mni.mcgill.ca>
> Subject: [MINC-users] Shared minc libraries on BIC server
> Message-ID:
>          <53F3FD0032C9CC4BA836E8F0FC289065317BF46E at EXMBX2010-3.campus.MCGILL.CA>
>
> Content-Type: text/plain; charset="us-ascii"
>
> Hi,
>
> I want to use pyminc, but I can't seem locate shared minc libraries on the BIC server. Do you I just need to recompile minc on my own terminal with the "--enable=shared" flag or there some way around this (maybe using pyminc with static libraries)?
>
> Thanks,
>
> Thomas
>
> ------------------------------
>
> Message: 2
> Date: Tue, 04 Mar 2014 17:28:02 -0500
> From: "Vladimir S. FONOV" <vladimir.fonov at gmail.com>
> To: minc-users at bic.mni.mcgill.ca
> Subject: Re: [MINC-users] Shared minc libraries on BIC server
> Message-ID: <53165372.1080909 at gmail.com>
> Content-Type: text/plain; charset=ISO-8859-1; format=flowed
>
> Hello,
>
>
> I prefer compiling it all statically to avoid conflicts between
> different versions of minc, HDF5 and NETCDF which are floating around.
>
> If you decide to build latest minc yourself , then I suggest using cmake
> to build it.
>
>
> On 14-03-04 05:16 PM, Thomas Funck wrote:
>> I want to use pyminc, but I can't seem locate shared minc libraries on the BIC server. Do you I just need to recompile minc on my own terminal with the "--enable=shared" flag or there some way around this (maybe using pyminc with static libraries)?
>>
>> Thanks,
>
>
> --
> Best regards,
>
>    Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com
>
>
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-- 
Best regards,

  Vladimir S. FONOV ~ vladimir.fonov <at> gmail.com