[MORPHMET] Terminology: Morphometry or Morphometrics?

2016-09-07 Thread Emma Sherratt
Dear Morphmet-hive mind,

I've been curious for some time about the terms "morphometry" and 
"morphometrics" and whether they are in fact interchangeable or quite 
distinct. Also, is it related to the difference between phylogeny and 
phylogenetics? 

Regards,

Emma


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Re: [MORPHMET] How to export .obj with textures as .ply with colours for morphometric analyses?

2016-09-07 Thread Thomas O'Mahoney
Dear Viviana,
I had this problem recently. I seem to remember that it was solved by
saving the files with no spaces in the names.
so instead of, for example "skull 2.obj", save as "skull2.obj"
 This will help the textures associate properly.
Then when you've converted to .ply, it doesn't matter, as the textures are
per vertex and included in the file, rather than in a separate texture
file. But bear in the mind the caveats Bill mentioned earlier in the
message stream.

Best,
Tom


On 7 September 2016 at 17:03, Anneke van Heteren 
wrote:

> Dear Viviana
>
> If I remember correctly, you need to export, rather than save, your file
> to get a ply. I think there are some extra steps you need to take so that
> the ply doesn't come out colorless (something to do with the vertices I
> think), but like I said, I forgot the details and I don't have easy access
> to geomagic at the moment.
> Just keep fiddling with it. Good luck!
>
> All the best,
>
> Anneke
> On Sep 7, 2016 5:52 PM, "M. Viviana Toro Ibacache" <
> mtoroibaca...@odontologia.uchile.cl> wrote:
>
> Dear Anneke,
>
> Geomagic seems to read the three files and saves them to generate a .wrl
> (not .ply) file that has indeed colours, although they are not in the right
> place. But that is a good start. I assume there is a Geomagic setting to
> generate the file I am missing so I will keep on trying. Luckily in the lab
> I currently am there is Geomagic... a freware option for everyone would
> always be great!
>
> Thanks and best wishes,
> Viviana
>
> 2016-09-07 16:39 GMT+02:00 Anneke van Heteren :
>
>> Dear Viviana,
>>
>> Have you tried geomagic? It has been a while since I last used this
>> program so I forgot the details, but it is capable of importing obj files
>> with textures and then exporting coloured ply files. Like I said, I forgot
>> the exact steps you would have to take, but I have done it before, so it is
>> certainly possible.
>> I hope that somewhat helps you.
>>
>> Best wishes,
>>
>> Anneke van Heteren
>> On Sep 2, 2016 2:54 PM, "Antonio Profico" 
>> wrote:
>>
>> Dear Viviana,
>>
>> you can export the 3D model from MeshLab as wrl format (export mesh as).
>> After, you can open and display the new mesh in Avizo (Display Open
>> Inventor Scene). In this way you can acquire the landmark in Avizo.
>>
>> Best,
>> Antonio
>>
>>
>> 2016-09-01 13:31 GMT+02:00 M. Viviana Toro Ibacache <
>> mtoroibaca...@odontologia.uchile.cl>:
>>
>>> Deal Morphometricians,
>>>
>>> I have .obj files with textures from three .jpg photos. I can load and
>>> see the textures very nicely in Meshlab, but I need the textures to be
>>> transformed into a coloured .ply file to do geometric morphometric analyses
>>> (the landmarks are represented in the textures). So far it has not worked
>>> doing it from Meshlab, so my questions are:
>>>
>>> - I know I can place landmarks in Meshlab using the .obj file, but when
>>> I do it, the software crashes. any thoughts? the .obj file is 16 Mb big. Is
>>> there a limit to files size in Meshlab? I would rather not to downsample
>>> the mesh to not lose anatomical details.
>>>
>>> - When using the Transfer Texture to Vertex Color function, the texture
>>> gets messed. It seems from web forums that Mshlab takes only one of the (in
>>> this case) three .jpg files to do the colouring of the .ply mesh. Does
>>> anybody know how to fix this? Another freeware software?
>>>
>>> - Is there any landmark acquisition software that loads .obj files with
>>> textures? So far, I have not been able to do it in Landmark Editor, Evan
>>> toolbox, Avizo, Morpho nor Geomorph.
>>>
>>> Any help is greatly appreciated.
>>>
>>> Best (y saludos),
>>> Viviana
>>>
>>>
>>>
>>> --
>>>
>>> *Viviana Toro-Ibacache DDS MSc PhD*
>>> Profesora Asistente *(Assistant Professor)*
>>> Centro de Análisis Cuantitativo en Antropología Dental (CA2)
>>> Unidad de Anatomía, Instituto de Investigación en Ciencias Odontológicas
>>> Facultad de Odontología Universidad de Chile
>>>
>>> Dirección:  Sergio Livingstone Pohlhammer 943
>>> *(address)*   Independencia, Región Metropolitana
>>>  Chile
>>> Email:mtoroibaca...@odontologia.uchile.cl
>>> Web: www.researchgate.net/profile/Viviana_Toro_Ibacache/
>>>  www.cienciaymemoria.cl/staff.html
>>>
>>> --
>>> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
>>> ---
>>> You received this message because you are subscribed to the Google
>>> Groups "MORPHMET" group.
>>> To unsubscribe from this group and stop receiving emails from it, send
>>> an email to morphmet+unsubscr...@morphometrics.org.
>>>
>>
>>
>>
>> --
>> __
>>
>> Antonio Profico
>> PhD
>> Department of Environmental Biology – Dipartimento di Biologia Ambientale
>> SAPIENZA Università di Roma
>>
>> Lab.  06 4991 2690
>> Mob. 3293440766
>>
>> --
>> MORPHMET may be accessed via its webpage at 

Re: [MORPHMET] How to export .obj with textures as .ply with colours for morphometric analyses?

2016-09-07 Thread Anneke van Heteren
Dear Viviana

If I remember correctly, you need to export, rather than save, your file to
get a ply. I think there are some extra steps you need to take so that the
ply doesn't come out colorless (something to do with the vertices I think),
but like I said, I forgot the details and I don't have easy access to
geomagic at the moment.
Just keep fiddling with it. Good luck!

All the best,

Anneke
On Sep 7, 2016 5:52 PM, "M. Viviana Toro Ibacache" <
mtoroibaca...@odontologia.uchile.cl> wrote:

Dear Anneke,

Geomagic seems to read the three files and saves them to generate a .wrl
(not .ply) file that has indeed colours, although they are not in the right
place. But that is a good start. I assume there is a Geomagic setting to
generate the file I am missing so I will keep on trying. Luckily in the lab
I currently am there is Geomagic... a freware option for everyone would
always be great!

Thanks and best wishes,
Viviana

2016-09-07 16:39 GMT+02:00 Anneke van Heteren :

> Dear Viviana,
>
> Have you tried geomagic? It has been a while since I last used this
> program so I forgot the details, but it is capable of importing obj files
> with textures and then exporting coloured ply files. Like I said, I forgot
> the exact steps you would have to take, but I have done it before, so it is
> certainly possible.
> I hope that somewhat helps you.
>
> Best wishes,
>
> Anneke van Heteren
> On Sep 2, 2016 2:54 PM, "Antonio Profico" 
> wrote:
>
> Dear Viviana,
>
> you can export the 3D model from MeshLab as wrl format (export mesh as).
> After, you can open and display the new mesh in Avizo (Display Open
> Inventor Scene). In this way you can acquire the landmark in Avizo.
>
> Best,
> Antonio
>
>
> 2016-09-01 13:31 GMT+02:00 M. Viviana Toro Ibacache <
> mtoroibaca...@odontologia.uchile.cl>:
>
>> Deal Morphometricians,
>>
>> I have .obj files with textures from three .jpg photos. I can load and
>> see the textures very nicely in Meshlab, but I need the textures to be
>> transformed into a coloured .ply file to do geometric morphometric analyses
>> (the landmarks are represented in the textures). So far it has not worked
>> doing it from Meshlab, so my questions are:
>>
>> - I know I can place landmarks in Meshlab using the .obj file, but when I
>> do it, the software crashes. any thoughts? the .obj file is 16 Mb big. Is
>> there a limit to files size in Meshlab? I would rather not to downsample
>> the mesh to not lose anatomical details.
>>
>> - When using the Transfer Texture to Vertex Color function, the texture
>> gets messed. It seems from web forums that Mshlab takes only one of the (in
>> this case) three .jpg files to do the colouring of the .ply mesh. Does
>> anybody know how to fix this? Another freeware software?
>>
>> - Is there any landmark acquisition software that loads .obj files with
>> textures? So far, I have not been able to do it in Landmark Editor, Evan
>> toolbox, Avizo, Morpho nor Geomorph.
>>
>> Any help is greatly appreciated.
>>
>> Best (y saludos),
>> Viviana
>>
>>
>>
>> --
>>
>> *Viviana Toro-Ibacache DDS MSc PhD*
>> Profesora Asistente *(Assistant Professor)*
>> Centro de Análisis Cuantitativo en Antropología Dental (CA2)
>> Unidad de Anatomía, Instituto de Investigación en Ciencias Odontológicas
>> Facultad de Odontología Universidad de Chile
>>
>> Dirección:  Sergio Livingstone Pohlhammer 943
>> *(address)*   Independencia, Región Metropolitana
>>  Chile
>> Email:mtoroibaca...@odontologia.uchile.cl
>> Web: www.researchgate.net/profile/Viviana_Toro_Ibacache/
>>  www.cienciaymemoria.cl/staff.html
>>
>> --
>> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
>> ---
>> You received this message because you are subscribed to the Google Groups
>> "MORPHMET" group.
>> To unsubscribe from this group and stop receiving emails from it, send an
>> email to morphmet+unsubscr...@morphometrics.org.
>>
>
>
>
> --
> __
>
> Antonio Profico
> PhD
> Department of Environmental Biology – Dipartimento di Biologia Ambientale
> SAPIENZA Università di Roma
>
> Lab.  06 4991 2690
> Mob. 3293440766
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> ---
> You received this message because you are subscribed to the Google Groups
> "MORPHMET" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to morphmet+unsubscr...@morphometrics.org.
>
>


-- 

*Viviana Toro-Ibacache DDS MSc PhD*
Profesora Asistente *(Assistant Professor)*
Centro de Análisis Cuantitativo en Antropología Dental (CA2)
Unidad de Anatomía, Instituto de Investigación en Ciencias Odontológicas
Facultad de Odontología Universidad de Chile

Dirección:  Sergio Livingstone Pohlhammer 943
*(address)*   Independencia, Región Metropolitana
 Chile
Email:mtoroibaca...@odontologia.uchile.cl
Web: 

Re: [MORPHMET] How to export .obj with textures as .ply with colours for morphometric analyses?

2016-09-07 Thread M. Viviana Toro Ibacache
Dear Anneke,

Geomagic seems to read the three files and saves them to generate a .wrl
(not .ply) file that has indeed colours, although they are not in the right
place. But that is a good start. I assume there is a Geomagic setting to
generate the file I am missing so I will keep on trying. Luckily in the lab
I currently am there is Geomagic... a freware option for everyone would
always be great!

Thanks and best wishes,
Viviana

2016-09-07 16:39 GMT+02:00 Anneke van Heteren :

> Dear Viviana,
>
> Have you tried geomagic? It has been a while since I last used this
> program so I forgot the details, but it is capable of importing obj files
> with textures and then exporting coloured ply files. Like I said, I forgot
> the exact steps you would have to take, but I have done it before, so it is
> certainly possible.
> I hope that somewhat helps you.
>
> Best wishes,
>
> Anneke van Heteren
> On Sep 2, 2016 2:54 PM, "Antonio Profico" 
> wrote:
>
> Dear Viviana,
>
> you can export the 3D model from MeshLab as wrl format (export mesh as).
> After, you can open and display the new mesh in Avizo (Display Open
> Inventor Scene). In this way you can acquire the landmark in Avizo.
>
> Best,
> Antonio
>
>
> 2016-09-01 13:31 GMT+02:00 M. Viviana Toro Ibacache <
> mtoroibaca...@odontologia.uchile.cl>:
>
>> Deal Morphometricians,
>>
>> I have .obj files with textures from three .jpg photos. I can load and
>> see the textures very nicely in Meshlab, but I need the textures to be
>> transformed into a coloured .ply file to do geometric morphometric analyses
>> (the landmarks are represented in the textures). So far it has not worked
>> doing it from Meshlab, so my questions are:
>>
>> - I know I can place landmarks in Meshlab using the .obj file, but when I
>> do it, the software crashes. any thoughts? the .obj file is 16 Mb big. Is
>> there a limit to files size in Meshlab? I would rather not to downsample
>> the mesh to not lose anatomical details.
>>
>> - When using the Transfer Texture to Vertex Color function, the texture
>> gets messed. It seems from web forums that Mshlab takes only one of the (in
>> this case) three .jpg files to do the colouring of the .ply mesh. Does
>> anybody know how to fix this? Another freeware software?
>>
>> - Is there any landmark acquisition software that loads .obj files with
>> textures? So far, I have not been able to do it in Landmark Editor, Evan
>> toolbox, Avizo, Morpho nor Geomorph.
>>
>> Any help is greatly appreciated.
>>
>> Best (y saludos),
>> Viviana
>>
>>
>>
>> --
>>
>> *Viviana Toro-Ibacache DDS MSc PhD*
>> Profesora Asistente *(Assistant Professor)*
>> Centro de Análisis Cuantitativo en Antropología Dental (CA2)
>> Unidad de Anatomía, Instituto de Investigación en Ciencias Odontológicas
>> Facultad de Odontología Universidad de Chile
>>
>> Dirección:  Sergio Livingstone Pohlhammer 943
>> *(address)*   Independencia, Región Metropolitana
>>  Chile
>> Email:mtoroibaca...@odontologia.uchile.cl
>> Web: www.researchgate.net/profile/Viviana_Toro_Ibacache/
>>  www.cienciaymemoria.cl/staff.html
>>
>> --
>> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
>> ---
>> You received this message because you are subscribed to the Google Groups
>> "MORPHMET" group.
>> To unsubscribe from this group and stop receiving emails from it, send an
>> email to morphmet+unsubscr...@morphometrics.org.
>>
>
>
>
> --
> __
>
> Antonio Profico
> PhD
> Department of Environmental Biology – Dipartimento di Biologia Ambientale
> SAPIENZA Università di Roma
>
> Lab.  06 4991 2690
> Mob. 3293440766
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> ---
> You received this message because you are subscribed to the Google Groups
> "MORPHMET" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to morphmet+unsubscr...@morphometrics.org.
>
>


-- 

*Viviana Toro-Ibacache DDS MSc PhD*
Profesora Asistente *(Assistant Professor)*
Centro de Análisis Cuantitativo en Antropología Dental (CA2)
Unidad de Anatomía, Instituto de Investigación en Ciencias Odontológicas
Facultad de Odontología Universidad de Chile

Dirección:  Sergio Livingstone Pohlhammer 943
*(address)*   Independencia, Región Metropolitana
 Chile
Email:mtoroibaca...@odontologia.uchile.cl
Web: www.researchgate.net/profile/Viviana_Toro_Ibacache/
 www.cienciaymemoria.cl/staff.html

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.


Re: [MORPHMET] How to export .obj with textures as .ply with colours for morphometric analyses?

2016-09-07 Thread M. Viviana Toro Ibacache
Dear Antonio,

I tried that after your email, but I hit the same rock: Meshlab creates the
.wrl file using only one of the .jpg files representing texture (there is
no way I have found to select the three of them). I have no correct
allocation of the texture over the surface.

Thanks for your suggestion,

Viviana

2016-09-02 14:54 GMT+02:00 Antonio Profico :

> Dear Viviana,
>
> you can export the 3D model from MeshLab as wrl format (export mesh as).
> After, you can open and display the new mesh in Avizo (Display Open
> Inventor Scene). In this way you can acquire the landmark in Avizo.
>
> Best,
> Antonio
>
>
> 2016-09-01 13:31 GMT+02:00 M. Viviana Toro Ibacache <
> mtoroibaca...@odontologia.uchile.cl>:
>
>> Deal Morphometricians,
>>
>> I have .obj files with textures from three .jpg photos. I can load and
>> see the textures very nicely in Meshlab, but I need the textures to be
>> transformed into a coloured .ply file to do geometric morphometric analyses
>> (the landmarks are represented in the textures). So far it has not worked
>> doing it from Meshlab, so my questions are:
>>
>> - I know I can place landmarks in Meshlab using the .obj file, but when I
>> do it, the software crashes. any thoughts? the .obj file is 16 Mb big. Is
>> there a limit to files size in Meshlab? I would rather not to downsample
>> the mesh to not lose anatomical details.
>>
>> - When using the Transfer Texture to Vertex Color function, the texture
>> gets messed. It seems from web forums that Mshlab takes only one of the (in
>> this case) three .jpg files to do the colouring of the .ply mesh. Does
>> anybody know how to fix this? Another freeware software?
>>
>> - Is there any landmark acquisition software that loads .obj files with
>> textures? So far, I have not been able to do it in Landmark Editor, Evan
>> toolbox, Avizo, Morpho nor Geomorph.
>>
>> Any help is greatly appreciated.
>>
>> Best (y saludos),
>> Viviana
>>
>>
>>
>> --
>>
>> *Viviana Toro-Ibacache DDS MSc PhD*
>> Profesora Asistente *(Assistant Professor)*
>> Centro de Análisis Cuantitativo en Antropología Dental (CA2)
>> Unidad de Anatomía, Instituto de Investigación en Ciencias Odontológicas
>> Facultad de Odontología Universidad de Chile
>>
>> Dirección:  Sergio Livingstone Pohlhammer 943
>> *(address)*   Independencia, Región Metropolitana
>>  Chile
>> Email:mtoroibaca...@odontologia.uchile.cl
>> Web: www.researchgate.net/profile/Viviana_Toro_Ibacache/
>>  www.cienciaymemoria.cl/staff.html
>>
>> --
>> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
>> ---
>> You received this message because you are subscribed to the Google Groups
>> "MORPHMET" group.
>> To unsubscribe from this group and stop receiving emails from it, send an
>> email to morphmet+unsubscr...@morphometrics.org.
>>
>
>
>
> --
> __
>
> Antonio Profico
> PhD
> Department of Environmental Biology – Dipartimento di Biologia Ambientale
> SAPIENZA Università di Roma
>
> Lab.  06 4991 2690
> Mob. 3293440766
>



-- 

*Viviana Toro-Ibacache DDS MSc PhD*
Profesora Asistente *(Assistant Professor)*
Centro de Análisis Cuantitativo en Antropología Dental (CA2)
Unidad de Anatomía, Instituto de Investigación en Ciencias Odontológicas
Facultad de Odontología Universidad de Chile

Dirección:  Sergio Livingstone Pohlhammer 943
*(address)*   Independencia, Región Metropolitana
 Chile
Email:mtoroibaca...@odontologia.uchile.cl
Web: www.researchgate.net/profile/Viviana_Toro_Ibacache/
 www.cienciaymemoria.cl/staff.html

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
--- 
You received this message because you are subscribed to the Google Groups 
"MORPHMET" group.
To unsubscribe from this group and stop receiving emails from it, send an email 
to morphmet+unsubscr...@morphometrics.org.


Re: [MORPHMET] How to export .obj with textures as .ply with colours for morphometric analyses?

2016-09-07 Thread Anneke van Heteren
Dear Viviana,

Have you tried geomagic? It has been a while since I last used this program
so I forgot the details, but it is capable of importing obj files with
textures and then exporting coloured ply files. Like I said, I forgot the
exact steps you would have to take, but I have done it before, so it is
certainly possible.
I hope that somewhat helps you.

Best wishes,

Anneke van Heteren
On Sep 2, 2016 2:54 PM, "Antonio Profico" 
wrote:

Dear Viviana,

you can export the 3D model from MeshLab as wrl format (export mesh as).
After, you can open and display the new mesh in Avizo (Display Open
Inventor Scene). In this way you can acquire the landmark in Avizo.

Best,
Antonio


2016-09-01 13:31 GMT+02:00 M. Viviana Toro Ibacache <
mtoroibaca...@odontologia.uchile.cl>:

> Deal Morphometricians,
>
> I have .obj files with textures from three .jpg photos. I can load and see
> the textures very nicely in Meshlab, but I need the textures to be
> transformed into a coloured .ply file to do geometric morphometric analyses
> (the landmarks are represented in the textures). So far it has not worked
> doing it from Meshlab, so my questions are:
>
> - I know I can place landmarks in Meshlab using the .obj file, but when I
> do it, the software crashes. any thoughts? the .obj file is 16 Mb big. Is
> there a limit to files size in Meshlab? I would rather not to downsample
> the mesh to not lose anatomical details.
>
> - When using the Transfer Texture to Vertex Color function, the texture
> gets messed. It seems from web forums that Mshlab takes only one of the (in
> this case) three .jpg files to do the colouring of the .ply mesh. Does
> anybody know how to fix this? Another freeware software?
>
> - Is there any landmark acquisition software that loads .obj files with
> textures? So far, I have not been able to do it in Landmark Editor, Evan
> toolbox, Avizo, Morpho nor Geomorph.
>
> Any help is greatly appreciated.
>
> Best (y saludos),
> Viviana
>
>
>
> --
>
> *Viviana Toro-Ibacache DDS MSc PhD*
> Profesora Asistente *(Assistant Professor)*
> Centro de Análisis Cuantitativo en Antropología Dental (CA2)
> Unidad de Anatomía, Instituto de Investigación en Ciencias Odontológicas
> Facultad de Odontología Universidad de Chile
>
> Dirección:  Sergio Livingstone Pohlhammer 943
> *(address)*   Independencia, Región Metropolitana
>  Chile
> Email:mtoroibaca...@odontologia.uchile.cl
> Web: www.researchgate.net/profile/Viviana_Toro_Ibacache/
>  www.cienciaymemoria.cl/staff.html
>
> --
> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
> ---
> You received this message because you are subscribed to the Google Groups
> "MORPHMET" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to morphmet+unsubscr...@morphometrics.org.
>



-- 
__

Antonio Profico
PhD
Department of Environmental Biology – Dipartimento di Biologia Ambientale
SAPIENZA Università di Roma

Lab.  06 4991 2690
Mob. 3293440766

-- 
MORPHMET may be accessed via its webpage at http://www.morphometrics.org
---
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To unsubscribe from this group and stop receiving emails from it, send an
email to morphmet+unsubscr...@morphometrics.org.

-- 
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