Dear Pablo,

Yes, I wrote a function to read all the landmark configurations stored in a
folder and sampled in Amira...

Try :
require(devtools)
install.github("evoshape/Arothron", local=FALSE)
data=read.amira.dir("pathofyourfolder","auto")

Best,

Antonio




Il 14 lug 2017 16:51, "Pablo Fisichella" <fisichellapa...@gmail.com> ha
scritto:

Dear Antonio

Excuse my delayed response. Thank you, your suggestion work quite fine, I
made the GPA. However, as Paolo mentioned the coords looks so strange. I
made .csv files from .pts files (in landmark). Here I attach one of my .csv
and the corresponding .pts file. There is a way to read multiple .txt files
from a folder similar to read.csv.folder?. which is the right format of the
data frame? I have 3D coordinates derived from Amira and microscribe.

Thank you

2017-07-13 5:30 GMT-03:00 Antonio Profico <antonio.prof...@uniroma1.it>:

> Dear Pablo,
>
> try:  proc <- ProcGPA(a$arr).
>
> The object "a" is a list, the array is an element (arr) of the list.
>
> Let me know if works,
>
> Antonio
>
> 2017-07-13 4:59 GMT+01:00 Pablo Fisichella <fisichellapa...@gmail.com>:
>
>> Dear All
>>
>> I am using the package Morpho in order to make some GM analyses but I
>> obtained some errors. Now I am trying to use the function read.csv.folder
>>
>> I ran this command
>>
>> a<-read.csv.folder("E:/Documents/Zan2", x = 2:44, y = 2:4, rownames =
>> NULL, header = TRUE, dec = ",", sep = ";", pattern = "csv", addSpec = NULL,
>> back = TRUE)
>>
>> In the r console appeared my 5 files .csv (see below) with 43
>> landmarks/semilandmark in 3 dimensions for 5 individuals (0093, 0137, 0377,
>> 1865, 1880)
>>
>> Then I tried perform a Procrustes Analysis using this function: proc <-
>> ProcGPA(a) however this error appear: Error in addo(a3) : please provide
>> 3D numeric array
>>
>> I feel that this error is related to my data array but I dont know how I
>> can solve this in order to run a GPA
>>
>> thanks in advance, I appreciate any help you can give me.
>>
>> cheers,
>>
>> Pablo
>>
>> $arr
>> , , 0093
>>
>>           X         Y        Z
>> 1  3.30e+08 -1.08e+08 5.22e+08
>> 2  2.94e+08 -5.35e+07 5.12e+08
>> 3  2.76e+08 -7.79e+07 5.59e+08
>> 4  3.13e+08 -1.37e+08 5.48e+08
>> 5  3.21e+08 -1.35e+08 5.45e+08
>> 6  3.27e+08 -1.33e+08 5.42e+08
>> 7  3.32e+08 -1.30e+08 5.39e+08
>> 8  3.36e+08 -1.28e+08 5.36e+08
>> 9  3.38e+08 -1.25e+08 5.34e+08
>> 10 3.39e+08 -1.23e+08 5.32e+08
>> 11 3.39e+08 -1.20e+08 5.30e+08
>> 12 3.37e+08 -1.17e+08 5.29e+08
>> 13 3.33e+08 -1.14e+08 5.27e+08
>> 14 3.29e+08 -9.43e+07 5.21e+08
>> 15 3.30e+08 -9.20e+07 5.19e+08
>> 16 3.31e+08 -8.92e+07 5.17e+08
>> 17 3.31e+08 -8.59e+07 5.16e+08
>> 18 3.30e+08 -8.20e+07 5.15e+08
>> 19 3.28e+08 -7.77e+07 5.14e+08
>> 20 3.24e+08 -7.33e+07 5.13e+08
>> 21 3.19e+08 -6.86e+07 5.11e+08
>> 22 3.12e+08 -6.36e+07 5.10e+08
>> 23 3.04e+08 -5.84e+07 5.08e+08
>> 24 2.84e+08 -4.42e+07 5.20e+08
>> 25 2.81e+08 -4.40e+07 5.27e+08
>> 26 2.79e+08 -4.37e+07 5.32e+08
>> 27 2.78e+08 -4.28e+07 5.38e+08
>> 28 2.77e+08 -4.35e+07 5.43e+08
>> 29 2.76e+08 -4.60e+07 5.47e+08
>> 30 2.76e+08 -4.93e+07 5.50e+08
>> 31 2.75e+08 -5.34e+07 5.53e+08
>> 32 2.76e+08 -5.83e+07 5.55e+08
>> 33 2.76e+08 -6.43e+07 5.56e+08
>> 34 2.83e+08 -8.41e+07 5.67e+08
>> 35 2.85e+08 -8.59e+07 5.69e+08
>> 36 2.87e+08 -8.77e+07 5.70e+08
>> 37 2.89e+08 -8.99e+07 5.72e+08
>> 38 2.91e+08 -9.27e+07 5.73e+08
>> 39 2.93e+08 -9.67e+07 5.74e+08
>> 40 2.96e+08 -1.02e+08 5.74e+08
>> 41 2.97e+08 -1.09e+08 5.73e+08
>> 42 2.97e+08 -1.17e+08 5.69e+08
>> 43 2.96e+08 -1.26e+08 5.65e+08
>>
>> , , 0137
>>
>>           X        Y        Z
>> 1  5.31e+08 56600000 1.45e+08
>> 2  5.64e+08 -3300000 1.47e+08
>> 3  5.85e+08 21900000 1.03e+08
>> 4  5.35e+08 73100000 9.86e+07
>> 5  5.35e+08 75800000 1.07e+08
>> 6  5.34e+08 77800000 1.14e+08
>> 7  5.35e+08 79400000 1.20e+08
>> 8  5.34e+08 79900000 1.26e+08
>> 9  5.34e+08 79100000 1.31e+08
>> 10 5.33e+08 77500000 1.35e+08
>> 11 5.33e+08 74900000 1.38e+08
>> 12 5.31e+08 70900000 1.40e+08
>> 13 5.30e+08 66200000 1.41e+08
>> 14 5.39e+08 54700000 1.50e+08
>> 15 5.42e+08 53200000 1.53e+08
>> 16 5.44e+08 51600000 1.55e+08
>> 17 5.47e+08 49400000 1.57e+08
>> 18 5.49e+08 46100000 1.59e+08
>> 19 5.52e+08 41200000 1.61e+08
>> 20 5.54e+08 34000000 1.61e+08
>> 21 5.56e+08 24900000 1.59e+08
>> 22 5.57e+08 14500000 1.57e+08
>> 23 5.58e+08  2910000 1.54e+08
>> 24 5.77e+08 -6540000 1.40e+08
>> 25 5.82e+08 -3350000 1.34e+08
>> 26 5.88e+08   632000 1.31e+08
>> 27 5.92e+08  4170000 1.27e+08
>> 28 5.94e+08  6870000 1.23e+08
>> 29 5.95e+08  9310000 1.19e+08
>> 30 5.94e+08 11500000 1.16e+08
>> 31 5.93e+08 13400000 1.13e+08
>> 32 5.92e+08 15300000 1.11e+08
>> 33 5.90e+08 17300000 1.09e+08
>> 34 5.85e+08 32800000 9.65e+07
>> 35 5.85e+08 36100000 9.61e+07
>> 36 5.84e+08 39300000 9.58e+07
>> 37 5.84e+08 42700000 9.54e+07
>> 38 5.83e+08 46500000 9.45e+07
>> 39 5.81e+08 50400000 9.30e+07
>> 40 5.76e+08 54200000 9.10e+07
>> 41 5.70e+08 58300000 8.85e+07
>> 42 5.62e+08 60800000 8.60e+07
>> 43 5.52e+08 63100000 8.31e+07
>>
>> , , 0377
>>
>>           X        Y        Z
>> 1  5.48e+08 74100000 1.08e+08
>> 2  5.79e+08 14000000 1.01e+08
>> 3  6.04e+08 47100000 5.61e+07
>> 4  5.56e+08 97700000 5.76e+07
>> 5  5.57e+08 98500000 6.97e+07
>> 6  5.56e+08 97400000 8.03e+07
>> 7  5.55e+08 96300000 8.91e+07
>> 8  5.54e+08 94400000 9.59e+07
>> 9  5.52e+08 91900000 1.01e+08
>> 10 5.50e+08 88500000 1.03e+08
>> 11 5.49e+08 85800000 1.04e+08
>> 12 5.49e+08 83500000 1.04e+08
>> 13 5.49e+08 80600000 1.04e+08
>> 14 5.56e+08 68300000 1.14e+08
>> 15 5.58e+08 66000000 1.16e+08
>> 16 5.60e+08 63600000 1.17e+08
>> 17 5.63e+08 61200000 1.19e+08
>> 18 5.66e+08 58200000 1.21e+08
>> 19 5.69e+08 54100000 1.22e+08
>> 20 5.71e+08 48000000 1.22e+08
>> 21 5.72e+08 39600000 1.20e+08
>> 22 5.73e+08 29600000 1.19e+08
>> 23 5.71e+08 20000000 1.13e+08
>> 24 5.93e+08 11100000 9.49e+07
>> 25 5.99e+08 13800000 9.20e+07
>> 26 6.04e+08 16500000 8.87e+07
>> 27 6.08e+08 19300000 8.54e+07
>> 28 6.11e+08 22300000 8.19e+07
>> 29 6.13e+08 25300000 7.83e+07
>> 30 6.14e+08 28300000 7.44e+07
>> 31 6.13e+08 31400000 7.05e+07
>> 32 6.12e+08 34600000 6.64e+07
>> 33 6.10e+08 38100000 6.21e+07
>> 34 6.05e+08 59700000 5.27e+07
>> 35 6.05e+08 63900000 5.30e+07
>> 36 6.04e+08 67800000 5.28e+07
>> 37 6.02e+08 71500000 5.25e+07
>> 38 6.01e+08 75300000 5.22e+07
>> 39 5.99e+08 79300000 5.19e+07
>> 40 5.96e+08 83500000 5.13e+07
>> 41 5.91e+08 87200000 4.98e+07
>> 42 5.84e+08 88800000 4.73e+07
>> 43 5.77e+08 90300000 4.48e+07
>>
>> , , 1865
>>
>>           X         Y        Z
>> 1  4.06e+08 -3.58e+08 5.56e+08
>> 2  3.76e+08 -2.90e+08 5.60e+08
>> 3  3.62e+08 -3.32e+08 5.99e+08
>> 4  3.84e+08 -3.85e+08 5.76e+08
>> 5  3.89e+08 -3.84e+08 5.74e+08
>> 6  3.93e+08 -3.83e+08 5.73e+08
>> 7  3.98e+08 -3.81e+08 5.72e+08
>> 8  4.01e+08 -3.79e+08 5.70e+08
>> 9  4.03e+08 -3.77e+08 5.68e+08
>> 10 4.05e+08 -3.74e+08 5.67e+08
>> 11 4.07e+08 -3.71e+08 5.65e+08
>> 12 4.08e+08 -3.68e+08 5.63e+08
>> 13 4.08e+08 -3.64e+08 5.61e+08
>> 14 4.07e+08 -3.45e+08 5.55e+08
>> 15 4.09e+08 -3.40e+08 5.54e+08
>> 16 4.11e+08 -3.36e+08 5.54e+08
>> 17 4.11e+08 -3.31e+08 5.53e+08
>> 18 4.10e+08 -3.26e+08 5.53e+08
>> 19 4.08e+08 -3.21e+08 5.52e+08
>> 20 4.02e+08 -3.16e+08 5.51e+08
>> 21 3.97e+08 -3.10e+08 5.51e+08
>> 22 3.92e+08 -3.02e+08 5.51e+08
>> 23 3.85e+08 -2.94e+08 5.51e+08
>> 24 3.68e+08 -2.87e+08 5.71e+08
>> 25 3.67e+08 -2.88e+08 5.76e+08
>> 26 3.67e+08 -2.88e+08 5.81e+08
>> 27 3.66e+08 -2.90e+08 5.85e+08
>> 28 3.64e+08 -2.94e+08 5.88e+08
>> 29 3.63e+08 -2.98e+08 5.90e+08
>> 30 3.61e+08 -3.02e+08 5.93e+08
>> 31 3.59e+08 -3.07e+08 5.95e+08
>> 32 3.57e+08 -3.13e+08 5.95e+08
>> 33 3.56e+08 -3.20e+08 5.95e+08
>> 34 3.66e+08 -3.40e+08 6.04e+08
>> 35 3.68e+08 -3.42e+08 6.05e+08
>> 36 3.69e+08 -3.45e+08 6.06e+08
>> 37 3.69e+08 -3.48e+08 6.06e+08
>> 38 3.70e+08 -3.52e+08 6.06e+08
>> 39 3.70e+08 -3.56e+08 6.05e+08
>> 40 3.71e+08 -3.61e+08 6.04e+08
>> 41 3.70e+08 -3.66e+08 6.02e+08
>> 42 3.69e+08 -3.71e+08 5.99e+08
>> 43 3.67e+08 -3.77e+08 5.94e+08
>>
>> , , 1880
>>
>>           X         Y        Z
>> 1  3.49e+08 -1.07e+08 6.05e+08
>> 2  3.17e+08 -2.81e+07 6.07e+08
>> 3  3.00e+08 -6.88e+07 6.51e+08
>> 4  3.22e+08 -1.39e+08 6.27e+08
>> 5  3.30e+08 -1.36e+08 6.23e+08
>> 6  3.37e+08 -1.34e+08 6.20e+08
>> 7  3.42e+08 -1.32e+08 6.17e+08
>> 8  3.47e+08 -1.30e+08 6.15e+08
>> 9  3.50e+08 -1.27e+08 6.14e+08
>> 10 3.52e+08 -1.24e+08 6.12e+08
>> 11 3.53e+08 -1.21e+08 6.11e+08
>> 12 3.53e+08 -1.19e+08 6.11e+08
>> 13 3.52e+08 -1.15e+08 6.11e+08
>> 14 3.50e+08 -9.35e+07 6.04e+08
>> 15 3.53e+08 -8.75e+07 6.03e+08
>> 16 3.54e+08 -8.14e+07 6.01e+08
>> 17 3.55e+08 -7.53e+07 6.01e+08
>> 18 3.54e+08 -6.91e+07 6.00e+08
>> 19 3.53e+08 -6.26e+07 6.00e+08
>> 20 3.50e+08 -5.61e+07 5.99e+08
>> 21 3.44e+08 -4.97e+07 5.98e+08
>> 22 3.38e+08 -4.26e+07 5.98e+08
>> 23 3.30e+08 -3.65e+07 5.97e+08
>> 24 3.11e+08 -2.72e+07 6.21e+08
>> 25 3.09e+08 -3.05e+07 6.27e+08
>> 26 3.09e+08 -3.28e+07 6.33e+08
>> 27 3.09e+08 -3.43e+07 6.39e+08
>> 28 3.09e+08 -3.73e+07 6.44e+08
>> 29 3.07e+08 -4.08e+07 6.47e+08
>> 30 3.06e+08 -4.44e+07 6.49e+08
>> 31 3.05e+08 -4.82e+07 6.50e+08
>> 32 3.04e+08 -5.23e+07 6.51e+08
>> 33 3.03e+08 -5.67e+07 6.51e+08
>> 34 3.04e+08 -7.65e+07 6.56e+08
>> 35 3.05e+08 -8.11e+07 6.58e+08
>> 36 3.06e+08 -8.54e+07 6.60e+08
>> 37 3.07e+08 -8.99e+07 6.61e+08
>> 38 3.08e+08 -9.48e+07 6.62e+08
>> 39 3.09e+08 -1.00e+08 6.62e+08
>> 40 3.10e+08 -1.07e+08 6.60e+08
>> 41 3.08e+08 -1.13e+08 6.56e+08
>> 42 3.06e+08 -1.20e+08 6.48e+08
>> 43 3.05e+08 -1.28e+08 6.43e+08
>>
>>
>> $NAs
>> NULL
>>
>> $NA.list
>> NULL
>>
>> --
>> MORPHMET may be accessed via its webpage at http://www.morphometrics.org
>> ---
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>>
>
>
>
> --
> ______________________________________
>
> Antonio Profico
> PhD
> Department of Environmental Biology – Dipartimento di Biologia Ambientale
> SAPIENZA Università di Roma
>
> Lab.  06 4991 2690
> Mob. 3293440766
>
> ___________________________________________
> *Il tuo 5 diventa 1000*
> Fai crescere la tua università
> Dona il 5 per mille alla Sapienza
> Codice fiscale: *80209930587*
>

-- 
___________________________________________
*Il tuo 5 diventa 1000*
Fai crescere la tua università
Dona il 5 per mille alla Sapienza
Codice fiscale: *80209930587*

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