[MORPHMET] Appending tps curves to landmarks

[Candice Neves]

Hi All

I'm currently trying to append curves to landmarks using the function in 
tpsUtil (I want to use the curve information as sliding landmarks) however 
any time I try to do this tpsUtil gives me an error message saying 
'0.004149' is not a valid floating point value.' I take this to mean that 
one of the points I made when digitizing is not "valid" and so tpsUtil 
cannot read the file? Is this right? When I was digitizing tpsDIG kept 
popping up error messages but I couldn't figure out what I was doing wrong, 
I was just tracing the outline using the 'draw curve' function. I'd delete 
the curve and start over, but it happened every time I outlined a molar so 
eventually I jut kept going. Did this mess me up? Was there a way to fix 
what I was doing that would have meant my curves would be read in tpsUtil? 
Is there a way I can manually append my curve data as landmarks that could 
still be read into Geomorph or Momocs as sliding landmarks? Could I edit 
the tps file manally to do this or am I going to have to start over 
redrawing the curves? I need to delete some landmarks as well, so I'm 
having the same problem with tpsUtil, I was planning on manually deleting 
the landmarks I no longer want for my specimens (or should I just tell the 
R packages I use to exclude certain landmarks? I think this might be 
better).

Any help would be greatly appreciated
Thanks
Candice Neves
MSc Candidate

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Re: [MORPHMET] Appending tps curves to landmarks

[Liu Idarraga Orozco]

I had de same problem in times several. If I remember correctly the 
problem comes out when some comma is in the scale number or something 
like that.


Liu


On 10/11/17 08:25, Candice Neves wrote:

Hi All

I'm currently trying to append curves to landmarks using the function 
in tpsUtil (I want to use the curve information as sliding landmarks) 
however any time I try to do this tpsUtil gives me an error message 
saying '0.004149' is not a valid floating point value.' I take this to 
mean that one of the points I made when digitizing is not "valid" and 
so tpsUtil cannot read the file? Is this right? When I was digitizing 
tpsDIG kept popping up error messages but I couldn't figure out what I 
was doing wrong, I was just tracing the outline using the 'draw curve' 
function. I'd delete the curve and start over, but it happened every 
time I outlined a molar so eventually I jut kept going. Did this mess 
me up? Was there a way to fix what I was doing that would have meant 
my curves would be read in tpsUtil? Is there a way I can manually 
append my curve data as landmarks that could still be read into 
Geomorph or Momocs as sliding landmarks? Could I edit the tps file 
manally to do this or am I going to have to start over redrawing the 
curves? I need to delete some landmarks as well, so I'm having the 
same problem with tpsUtil, I was planning on manually deleting the 
landmarks I no longer want for my specimens (or should I just tell the 
R packages I use to exclude certain landmarks? I think this might be 
better).


Any help would be greatly appreciated
Thanks
Candice Neves
MSc Candidate
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Liu Idárraga O.
Estudiante Doctoral
Facultad de Ciencias Naturales y Museo
Universidad Nacional de La Plata
División de Mastozoología
Museo Argentino de Ciencias Naturales "Bernardino Rivadavia"
Av. Angel Gallardo 470
C1405DJR Ciudad Autónoma de Buenos Aires - Argentina
Phone: +5411- 4982 8370/6670 Ext. 209

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RE: [MORPHMET] Appending tps curves to landmarks

[F. James Rohlf]

Please send me a copy of the tps file you are having a problem with (I do not 
need all of the images). Should be an easy fix but I would like to check your 
file to be sure.

 

_ _ _ _ _ _ _ _ _

F. James Rohlf, Distinguished Prof. Emeritus



Depts. of Anthropology and of Ecology & Evolution

 

 

From: Candice Neves [mailto:536...@students.wits.ac.za] 
Sent: Friday, November 10, 2017 5:26 AM
To: MORPHMET 
Subject: [MORPHMET] Appending tps curves to landmarks

 

Hi All

 

I'm currently trying to append curves to landmarks using the function in 
tpsUtil (I want to use the curve information as sliding landmarks) however any 
time I try to do this tpsUtil gives me an error message saying '0.004149' is 
not a valid floating point value.' I take this to mean that one of the points I 
made when digitizing is not "valid" and so tpsUtil cannot read the file? Is 
this right? When I was digitizing tpsDIG kept popping up error messages but I 
couldn't figure out what I was doing wrong, I was just tracing the outline 
using the 'draw curve' function. I'd delete the curve and start over, but it 
happened every time I outlined a molar so eventually I jut kept going. Did this 
mess me up? Was there a way to fix what I was doing that would have meant my 
curves would be read in tpsUtil? Is there a way I can manually append my curve 
data as landmarks that could still be read into Geomorph or Momocs as sliding 
landmarks? Could I edit the tps file manally to do this or am I going to have 
to start over redrawing the curves? I need to delete some landmarks as well, so 
I'm having the same problem with tpsUtil, I was planning on manually deleting 
the landmarks I no longer want for my specimens (or should I just tell the R 
packages I use to exclude certain landmarks? I think this might be better).

 

Any help would be greatly appreciated

Thanks

Candice Neves

MSc Candidate

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[MORPHMET] Re: Appending tps curves to landmarks

[Candice Neves]

UPDATE: The problem was that I was working with an older version of 
tpsUtil, I think. Or possibly an error in the original download. After 
re-downloading the software to the newer version my files now open without 
error. Thanks all for your advice

Candice

On Friday, 10 November 2017 12:25:52 UTC+2, Candice Neves wrote:
>
> Hi All
>
> I'm currently trying to append curves to landmarks using the function in 
> tpsUtil (I want to use the curve information as sliding landmarks) however 
> any time I try to do this tpsUtil gives me an error message saying 
> '0.004149' is not a valid floating point value.' I take this to mean that 
> one of the points I made when digitizing is not "valid" and so tpsUtil 
> cannot read the file? Is this right? When I was digitizing tpsDIG kept 
> popping up error messages but I couldn't figure out what I was doing wrong, 
> I was just tracing the outline using the 'draw curve' function. I'd delete 
> the curve and start over, but it happened every time I outlined a molar so 
> eventually I jut kept going. Did this mess me up? Was there a way to fix 
> what I was doing that would have meant my curves would be read in tpsUtil? 
> Is there a way I can manually append my curve data as landmarks that could 
> still be read into Geomorph or Momocs as sliding landmarks? Could I edit 
> the tps file manally to do this or am I going to have to start over 
> redrawing the curves? I need to delete some landmarks as well, so I'm 
> having the same problem with tpsUtil, I was planning on manually deleting 
> the landmarks I no longer want for my specimens (or should I just tell the 
> R packages I use to exclude certain landmarks? I think this might be 
> better).
>
> Any help would be greatly appreciated
> Thanks
> Candice Neves
> MSc Candidate
>

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Re: [MORPHMET] error in landmarks from MRI

[Jimena Barbeito Andres]

Hello Andrea,
last year we published a paper using landmark-based measurements on  
mouse brain MRI, and we have included a section on repeatability and  
error.



Barbeito-Andrés J, Bernal V, Gonzalez PN. (2016).Morphological  
asymmetries of mouse brain assessed by geometric morphometric analysis  
of MRI data. Magnetic Resonance Imaging 34:  
980-989.doi.org/10.1016/j.mri.2016.04.006



Hope it helps!
Jimena


andrea cardini  escribió:


Dear All,
I'd greatly appreciate references on measurement error in landmarks  
from MRI data. It does not matter if it's 2D or 3D as long as it is  
specific to MRI.


Thanks in advance.
Cheers

Andrea



--

Dr. Andrea Cardini
Researcher, Dipartimento di Scienze Chimiche e Geologiche,  
Università di Modena e Reggio Emilia, Via Campi, 103 - 41125 Modena  
- Italy

tel. 0039 059 2058472

Adjunct Associate Professor, School of Anatomy, Physiology and Human  
Biology, The University of Western Australia, 35 Stirling Highway,  
Crawley WA 6009, Australia


E-mail address: alcard...@gmail.com, andrea.card...@unimore.it
WEBPAGE: https://sites.google.com/site/alcardini/home/main

FREE Yellow BOOK on Geometric Morphometrics:  
http://www.italian-journal-of-mammalogy.it/public/journals/3/issue_241_complete_100.pdf


ESTIMATE YOUR GLOBAL FOOTPRINT:  
http://www.footprintnetwork.org/en/index.php/GFN/page/calculators/


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Jimena Barbeito Andrés
División Antropología. Museo de La Plata
Facultad de Ciencias Naturales y Museo
Universidad Nacional de La Plata
Paseo del Bosque s/n. 1900, La Plata, Argentina
TE ++54 +221 4259161 o 4257744, int 138
*




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[MORPHMET] NextEngine Laser Scanner

[Callie Diduck]

Hello, 

I am working with a NextEngine Laser scanner trying to create 3D models of 
Avonlea Projectile Points for my Masters Thesis. I am having difficulty 
with the scanner not being about to stitch the individual scans together to 
create a 3D model. I think I've tried just about everything I can think of 
to make it work but I still come up short. 

I am wondering if the problem is that the projectile points I am working 
with are just too small for the scanner to handle? The points range from 14 
to 23mm, and about 2-3mm thick.

I have been able to scan points that are larger about 26 to 35mm in length, 
6mm at their widest point and get a successful 3D model out of it. Does 
anyone have any suggestions? 

The settings I am using right now are a 360 scan, 14-16 divisions, 3.3 
thousand points per inch, neutral for colour, and a distance from the 
scanner of about 9.5 inches. I am covering the scanner completely with a 
card board box to ensure there is no change in light. 

Any help or suggestions would be great. I have been trying to make this 
work for the past 2 months. 

Thanks, 

Callie Diduck
Master's Candidate
Department of Archaeology and Anthropology 
University of Saskatchwan 

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