Dear all,
I digitized 3D landmarks (n=299) using the software Checkpoint and exported
the files as .csv. I'm trying to upload multiple files in .csv format using
the function "read.csv.folder" from the Morpho package, or a single file
using the function "readLandmarks.csv" from the same package. However, the
issue is that the x, y, and z coordinates from the first landmark are not
uploaded, while only the other 298 points are included, and NAs are
introduced in the last row.
The code I'm using is:
landmark.array <- read.csv.folder("path", 1:299, y = 4:6, rownames = NULL,
header = TRUE,
dec = ".", sep = ",", pattern = "csv",
addSpec = NULL, back = TRUE)
This is the result:
, , Ind1
X Y Z
1 -2.18000000 0.237566000 5.2655400
2 -8.69000000 -6.650000000 1.2601890
3 3.77826400 -8.630000000 4.2642350
4 -7.99000000 -1.180000000 1.6310280
5 4.34564100 -2.930000000 4.6177230
6 -8.97000000 -7.350000000 0.6072258
7 -8.98000000 -8.300000000 1.2513500
8 3.99086800 -9.970000000 3.8588860
9 4.24589300 -9.110000000 3.3048690
10 3.95688200 -9.990000000 3.8555440
11 3.84379100 -10.000000000 4.3102960
12 3.26217500 -10.100000000 4.5509180
13 2.37966200 -10.100000000 4.7165460
14 1.34776000 -10.100000000 4.8121060
15 0.23383380 -9.990000000 4.8329710
16 -0.93400000 -10.000000000 4.7235750
17 -2.14000000 -10.300000000 4.5075430
18 -3.31000000 -10.300000000 4.2902630
19 -4.40000000 -10.000000000 4.0897090
20 -5.40000000 -9.460000000 3.8938110
21 -6.30000000 -9.120000000 3.6209790
22 -7.08000000 -8.910000000 3.2707120
23 -7.74000000 -8.740000000 2.8410040
24 -8.32000000 -8.630000000 2.3211320
25 -8.80000000 -8.530000000 1.7538540
26 -8.96000000 -8.310000000 1.2594320
27 4.25949900 -9.700000000 3.9731930
28 3.70783000 -10.100000000 4.4555560
29 2.75185600 -10.200000000 4.7467360
30 1.69306400 -10.100000000 4.9488820
31 0.66578200 -10.100000000 5.0655640
32 -0.37400000 -9.900000000 5.0958600
33 -1.40000000 -10.100000000 5.0577690
34 -2.46000000 -10.300000000 4.9589680
35 -3.52000000 -10.200000000 4.8004170
36 -4.50000000 -9.990000000 4.5865970
37 -5.37000000 -9.560000000 4.3144640
38 -6.15000000 -9.240000000 3.9876750
39 -6.88000000 -9.010000000 3.5826820
40 -7.57000000 -8.800000000 3.0799070
41 -8.27000000 -8.630000000 2.4552900
42 -8.96000000 -8.420000000 1.7132720
43 -9.28000000 -7.630000000 0.9160942
44 4.28558000 -9.380000000 4.0822780
45 3.80255400 -9.530000000 4.8178280
46 2.87347100 -9.910000000 5.2712720
47 1.66577000 -10.100000000 5.5316360
48 0.49480790 -10.100000000 5.6795720
49 -0.62500000 -9.940000000 5.6958760
50 -1.67000000 -9.830000000 5.6549180
51 -2.70000000 -9.770000000 5.5685380
52 -3.67000000 -9.630000000 5.4051990
53 -4.60000000 -9.470000000 5.1907800
54 -5.47000000 -9.260000000 4.9037640
55 -6.28000000 -9.070000000 4.5386360
56 -7.07000000 -8.870000000 4.0745110
57 -7.86000000 -8.620000000 3.4827130
58 -8.63000000 -8.250000000 2.7449090
59 -9.20000000 -7.720000000 1.9071930
60 -9.10000000 -7.040000000 0.9867042
61 4.10885900 -9.000000000 4.1947880
62 3.01131600 -8.840000000 4.8753070
63 1.93227000 -8.780000000 5.2088910
64 1.02626600 -8.810000000 5.5867010
65 0.02446002 -8.730000000 5.7317640
66 -0.94700000 -8.530000000 5.7142420
67 -1.88000000 -8.560000000 5.7892050
68 -2.80000000 -8.530000000 5.7559490
69 -3.70000000 -8.460000000 5.6377850
70 -4.52000000 -8.240000000 5.3832730
71 -5.31000000 -8.100000000 5.1187110
72 -6.07000000 -7.980000000 4.7943710
73 -6.80000000 -7.840000000 4.3558030
74 -7.50000000 -7.650000000 3.7806240
75 -8.05000000 -7.370000000 3.0464650
76 -8.61000000 -7.130000000 2.2179280
77 -8.89000000 -6.830000000 1.1045020
78 3.75444700 -8.620000000 4.3028460
79 2.51529100 -8.420000000 4.8644000
80 1.56739500 -8.270000000 5.2821570
81 0.68271470 -8.180000000 5.6998430
82 -0.27000000 -8.030000000 5.8278500
83 -1.17000000 -7.940000000 5.9681840
84 -2.05000000 -7.900000000 6.0620920
85 -2.91000000 -7.820000000 6.0226410
86 -3.74000000 -7.680000000 5.8630720
87 -4.50000000 -7.520000000 5.6175140
88 -5.23000000 -7.380000000 5.3332920
89 -5.91000000 -7.240000000 4.9526780
90 -6.60000000 -7.160000000 4.5310050
91 -7.23000000 -7.030000000 3.9443510
92 -7.78000000 -6.890000000 3.2141910
93 -8.31000000 -6.770000000 2.3801570
94 -8.69000000 -6.650000000 1.2574760
95 3.30150000 -8.280000000 4.3341590
96 2.19530300 -7.990000000 4.8782050
97 1.35706400 -7.790000000 5.5020470
98 0.45563390 -7.650000000 5.9144540
99 -0.45600000 -7.500000000 6.1137970
100 -1.33000000 -7.370000000 6.2494060
101 -2.17000000 -7.250000000 6.2873130
102 -2.99000000 -7.140000000 6.2416260
103 -3.76000000 -7.010000000 6.0900520
104 -4.49000000 -6.890000000 5.8684410
105 -5.18000000 -6.780000000 5.5725440
106 -5.82000000 -6.670000000 5.1629830
107 -6.47000000 -6.600000000 4.6995610
108 -7.11000000 -6.540000000 4.1244410
109 -7.65000000 -6.470000000 3.3780680
110 -8.13000000 -6.430000000 2.5233760
111 -8.50000000 -6.430000000 1.4426130
112 2.97829900 -7.820000000 4.3988980
113 2.03217000 -7.500000000 5.0857930
114 1.18382200 -7.280000000 5.7606320
115 0.29581110 -7.110000000 6.2103070
116 -0.59600000 -6.930000000 6.3823580
117 -1.44000000 -6.770000000 6.5033250
118 -2.25000000 -6.620000000 6.5101180
119 -3.03000000 -6.480000000 6.4460000
120 -3.77000000 -6.370000000 6.3107120
121 -4.47000000 -6.270000000 6.0932970
122 -5.14000000 -6.190000000 5.7995190
123 -5.78000000 -6.120000000 5.4028020
124 -6.39000000 -6.080000000 4.8908120
125 -7.01000000 -6.060000000 4.2984190
126 -7.56000000 -6.040000000 3.5404370
127 -8.06000000 -6.050000000 2.6823080
128 -8.40000000 -6.110000000 1.6489780
129 2.77299200 -7.310000000 4.5539250
130 1.91551200 -7.000000000 5.3642300
131 1.07253300 -6.760000000 6.0986120
132 0.18507230 -6.540000000 6.4596450
133 -0.68000000 -6.330000000 6.6232190
134 -1.50000000 -6.130000000 6.6832550
135 -2.28000000 -5.970000000 6.6998620
136 -3.03000000 -5.830000000 6.6128910
137 -3.74000000 -5.720000000 6.4739280
138 -4.42000000 -5.630000000 6.2608390
139 -5.09000000 -5.580000000 5.9735130
140 -5.74000000 -5.550000000 5.6024800
141 -6.35000000 -5.540000000 5.0869210
142 -6.95000000 -5.560000000 4.4677590
143 -7.48000000 -5.600000000 3.7069780
144 -8.00000000 -5.660000000 2.8466630
145 -8.33000000 -5.770000000 1.8582010
146 2.66770300 -6.810000000 4.7262430
147 1.86144800 -6.510000000 5.6374420
148 1.01052700 -6.220000000 6.2719550
149 0.13896630 -5.950000000 6.5830020
150 -0.70200000 -5.700000000 6.7505190
151 -1.50000000 -5.490000000 6.8400020
152 -2.26000000 -5.310000000 6.8188040
153 -2.99000000 -5.170000000 6.7217130
154 -3.68000000 -5.060000000 6.5612970
155 -4.36000000 -4.990000000 6.3690760
156 -5.02000000 -4.950000000 6.0887320
157 -5.67000000 -4.950000000 5.7230390
158 -6.31000000 -4.970000000 5.2366770
159 -6.90000000 -5.030000000 4.6082540
160 -7.43000000 -5.120000000 3.8506270
161 -7.94000000 -5.240000000 3.0098780
162 -8.27000000 -5.400000000 2.0474690
163 2.68803800 -6.330000000 4.8775010
164 1.90268600 -6.020000000 5.7836710
165 1.05038800 -5.670000000 6.3662480
166 0.18388930 -5.350000000 6.6590510
167 -0.64700000 -5.070000000 6.8431360
168 -1.44000000 -4.830000000 6.9117180
169 -2.19000000 -4.640000000 6.8782390
170 -2.91000000 -4.500000000 6.7445040
171 -3.60000000 -4.400000000 6.6120310
172 -4.27000000 -4.330000000 6.4204160
173 -4.94000000 -4.310000000 6.1494530
174 -5.61000000 -4.320000000 5.7892010
175 -6.25000000 -4.370000000 5.3065590
176 -6.86000000 -4.470000000 4.6930880
177 -7.38000000 -4.600000000 3.9471420
178 -7.89000000 -4.760000000 3.1285350
179 -8.24000000 -4.970000000 2.2044620
180 2.82702400 -5.830000000 4.9467000
181 2.05371100 -5.500000000 5.8308200
182 1.19460400 -5.110000000 6.3915270
183 0.31641750 -4.740000000 6.6787820
184 -0.51800000 -4.430000000 6.8774210
185 -1.31000000 -4.180000000 6.9387020
186 -2.07000000 -3.980000000 6.8780140
187 -2.79000000 -3.830000000 6.7569550
188 -3.48000000 -3.730000000 6.6070700
189 -4.16000000 -3.670000000 6.3980770
190 -4.85000000 -3.660000000 6.1323900
191 -5.54000000 -3.680000000 5.7833840
192 -6.20000000 -3.750000000 5.3143680
193 -6.81000000 -3.870000000 4.7064390
194 -7.35000000 -4.030000000 3.9822400
195 -7.85000000 -4.240000000 3.1729150
196 -8.22000000 -4.480000000 2.3136000
197 3.08097900 -5.320000000 4.9822890
198 2.29895800 -4.970000000 5.8333040
199 1.41497200 -4.530000000 6.3506440
200 0.52100050 -4.130000000 6.6261750
201 -0.32900000 -3.790000000 6.8034410
202 -1.13000000 -3.510000000 6.8966640
203 -1.90000000 -3.310000000 6.8182760
204 -2.62000000 -3.160000000 6.6941330
205 -3.34000000 -3.060000000 6.5647290
206 -4.05000000 -3.000000000 6.3470340
207 -4.76000000 -2.990000000 6.0664830
208 -5.47000000 -3.030000000 5.7073250
209 -6.15000000 -3.110000000 5.2333560
210 -6.78000000 -3.250000000 4.6464220
211 -7.32000000 -3.440000000 3.9304620
212 -7.83000000 -3.670000000 3.1472680
213 -8.21000000 -3.930000000 2.3631640
214 3.39223900 -4.800000000 4.9659660
215 2.60032300 -4.430000000 5.7800730
216 1.68895800 -3.940000000 6.2552800
217 0.77682770 -3.510000000 6.5265930
218 -0.08230000 -3.140000000 6.7131680
219 -0.89800000 -2.840000000 6.8060150
220 -1.68000000 -2.640000000 6.7059600
221 -2.42000000 -2.490000000 6.5855740
222 -3.17000000 -2.370000000 6.4732960
223 -3.91000000 -2.320000000 6.2396420
224 -4.64000000 -2.320000000 5.9223800
225 -5.38000000 -2.370000000 5.5366260
226 -6.08000000 -2.480000000 5.0589720
227 -6.73000000 -2.630000000 4.4890640
228 -7.29000000 -2.840000000 3.8031080
229 -7.79000000 -3.090000000 3.0483220
230 -8.17000000 -3.350000000 2.3356600
231 3.71774600 -4.280000000 4.9254030
232 2.92679700 -3.880000000 5.6861150
233 1.99234100 -3.350000000 6.1143080
234 1.06585400 -2.890000000 6.3607580
235 0.20066790 -2.500000000 6.5325130
236 -0.61700000 -2.160000000 6.6705480
237 -1.41000000 -1.940000000 6.6024580
238 -2.19000000 -1.790000000 6.4638170
239 -2.96000000 -1.680000000 6.3001770
240 -3.74000000 -1.640000000 6.0410610
241 -4.52000000 -1.660000000 5.6940880
242 -5.28000000 -1.730000000 5.2799060
243 -5.99000000 -1.850000000 4.7980760
244 -6.67000000 -2.010000000 4.2535300
245 -7.25000000 -2.240000000 3.6009800
246 -7.74000000 -2.510000000 2.8840790
247 -8.13000000 -2.770000000 2.2342210
248 3.97118700 -3.770000000 4.8390360
249 3.22193700 -3.320000000 5.5322630
250 2.30483700 -2.750000000 5.9389680
251 1.38410000 -2.270000000 6.1664470
252 0.53003250 -1.850000000 6.3445430
253 -0.29500000 -1.500000000 6.4360500
254 -1.11000000 -1.280000000 6.3516530
255 -1.90000000 -1.120000000 6.2129660
256 -2.72000000 -0.998000000 6.0384500
257 -3.55000000 -0.970000000 5.7457130
258 -4.37000000 -1.010000000 5.3679390
259 -5.14000000 -1.120000000 4.9263980
260 -5.89000000 -1.250000000 4.4499220
261 -6.60000000 -1.420000000 3.9335270
262 -7.20000000 -1.660000000 3.3298900
263 -7.69000000 -1.940000000 2.6706230
264 -8.08000000 -2.210000000 2.0644670
265 4.11903900 -3.300000000 4.6961930
266 3.46500100 -2.770000000 5.3423200
267 2.59829700 -2.160000000 5.7209770
268 1.72666800 -1.640000000 5.9567510
269 0.89305940 -1.190000000 6.1180350
270 0.06544720 -0.846000000 6.1472300
271 -0.75300000 -0.621000000 6.0545990
272 -1.57000000 -0.491000000 5.8699780
273 -2.44000000 -0.369000000 5.6678410
274 -3.33000000 -0.325000000 5.3729640
275 -4.20000000 -0.369000000 4.9944420
276 -5.00000000 -0.512000000 4.5231720
277 -5.78000000 -0.665000000 4.0474330
278 -6.50000000 -0.854000000 3.5439690
279 -7.12000000 -1.100000000 2.9874890
280 -7.64000000 -1.390000000 2.4052130
281 -8.04000000 -1.670000000 1.8520060
282 4.34296300 -2.920000000 4.6258990
283 3.62177200 -2.200000000 5.1395670
284 2.84145700 -1.550000000 5.4662790
285 2.06232900 -1.020000000 5.6505990
286 1.29929700 -0.591000000 5.7613550
287 0.51633110 -0.250000000 5.7881260
288 -0.31100000 0.007965269 5.7201490
289 -1.19000000 0.155720400 5.5293150
290 -2.12000000 0.252159300 5.2654910
291 -3.12000000 0.323921600 4.9478560
292 -4.13000000 0.283673000 4.5344500
293 -5.06000000 0.064145830 3.9873830
294 -5.95000000 -0.164000000 3.4330840
295 -6.74000000 -0.415000000 2.8827030
296 -7.36000000 -0.693000000 2.3482680
297 -7.77000000 -0.971000000 1.8882020
298 -8.00000000 -1.190000000 1.6149230
299 NA NA NA
The same issue occurs when I try to upload a single file using the
following line:
readLandmarks.csv("path/Ind1.csv", 1:299, y = 4:6, rownames = NULL, header
= TRUE,
dec = ".", sep = ",")
I have attached an example of the file I tried to upload in the second
case. As you can see, the coordinates for the first landmark
(-3.34E+00,-1.03E+01,4.279302e+00) were not uploaded in R.
Can somebody tell me where the error is?
Thanks in advance,
Paolo
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#,Name,Type,X,Y,Z
1,S.1,normal,-3.34E+00,-1.03E+01,4.279302e+00
2,S.2,normal,-2.18E+00,2.375660e-01,5.265540e+00
3,S.3,normal,-8.69E+00,-6.65E+00,1.260189e+00
4,S.4,normal,3.778264e+00,-8.63E+00,4.264235e+00
5,S.5,normal,-7.99E+00,-1.18E+00,1.631028e+00
6,S.6,normal,4.345641e+00,-2.93E+00,4.617723e+00
7,S.7,normal,-8.97E+00,-7.35E+00,6.072258e-01
8,S.8,normal,-8.98E+00,-8.30E+00,1.251350e+00
9,S.9,normal,3.990868e+00,-9.97E+00,3.858886e+00
10,S.10,normal,4.245893e+00,-9.11E+00,3.304869e+00
11,P.1.01.01,normal,3.956882e+00,-9.99E+00,3.855544e+00
12,P.1.01.02,normal,3.843791e+00,-1.00E+01,4.310296e+00
13,P.1.01.03,normal,3.262175e+00,-1.01E+01,4.550918e+00
14,P.1.01.04,normal,2.379662e+00,-1.01E+01,4.716546e+00
15,P.1.01.05,normal,1.347760e+00,-1.01E+01,4.812106e+00
16,P.1.01.06,normal,2.338338e-01,-9.99E+00,4.832971e+00
17,P.1.01.07,normal,-9.34E-01,-1.00E+01,4.723575e+00
18,P.1.01.08,normal,-2.14E+00,-1.03E+01,4.507543e+00
19,P.1.01.09,normal,-3.31E+00,-1.03E+01,4.290263e+00
20,P.1.01.10,normal,-4.40E+00,-1.00E+01,4.089709e+00
21,P.1.01.11,normal,-5.40E+00,-9.46E+00,3.893811e+00
22,P.1.01.12,normal,-6.30E+00,-9.12E+00,3.620979e+00
23,P.1.01.13,normal,-7.08E+00,-8.91E+00,3.270712e+00
24,P.1.01.14,normal,-7.74E+00,-8.74E+00,2.841004e+00
25,P.1.01.15,normal,-8.32E+00,-8.63E+00,2.321132e+00
26,P.1.01.16,normal,-8.80E+00,-8.53E+00,1.753854e+00
27,P.1.01.17,normal,-8.96E+00,-8.31E+00,1.259432e+00
28,P.1.02.01,normal,4.259499e+00,-9.70E+00,3.973193e+00
29,P.1.02.02,normal,3.707830e+00,-1.01E+01,4.455556e+00
30,P.1.02.03,normal,2.751856e+00,-1.02E+01,4.746736e+00
31,P.1.02.04,normal,1.693064e+00,-1.01E+01,4.948882e+00
32,P.1.02.05,normal,6.657820e-01,-1.01E+01,5.065564e+00
33,P.1.02.06,normal,-3.74E-01,-9.90E+00,5.095860e+00
34,P.1.02.07,normal,-1.40E+00,-1.01E+01,5.057769e+00
35,P.1.02.08,normal,-2.46E+00,-1.03E+01,4.958968e+00
36,P.1.02.09,normal,-3.52E+00,-1.02E+01,4.800417e+00
37,P.1.02.10,normal,-4.50E+00,-9.99E+00,4.586597e+00
38,P.1.02.11,normal,-5.37E+00,-9.56E+00,4.314464e+00
39,P.1.02.12,normal,-6.15E+00,-9.24E+00,3.987675e+00
40,P.1.02.13,normal,-6.88E+00,-9.01E+00,3.582682e+00
41,P.1.02.14,normal,-7.57E+00,-8.80E+00,3.079907e+00
42,P.1.02.15,normal,-8.27E+00,-8.63E+00,2.455290e+00
43,P.1.02.16,normal,-8.96E+00,-8.42E+00,1.713272e+00
44,P.1.02.17,normal,-9.28E+00,-7.63E+00,9.160942e-01
45,P.1.03.01,normal,4.285580e+00,-9.38E+00,4.082278e+00
46,P.1.03.02,normal,3.802554e+00,-9.53E+00,4.817828e+00
47,P.1.03.03,normal,2.873471e+00,-9.91E+00,5.271272e+00
48,P.1.03.04,normal,1.665770e+00,-1.01E+01,5.531636e+00
49,P.1.03.05,normal,4.948079e-01,-1.01E+01,5.679572e+00
50,P.1.03.06,normal,-6.25E-01,-9.94E+00,5.695876e+00
51,P.1.03.07,normal,-1.67E+00,-9.83E+00,5.654918e+00
52,P.1.03.08,normal,-2.70E+00,-9.77E+00,5.568538e+00
53,P.1.03.09,normal,-3.67E+00,-9.63E+00,5.405199e+00
54,P.1.03.10,normal,-4.60E+00,-9.47E+00,5.190780e+00
55,P.1.03.11,normal,-5.47E+00,-9.26E+00,4.903764e+00
56,P.1.03.12,normal,-6.28E+00,-9.07E+00,4.538636e+00
57,P.1.03.13,normal,-7.07E+00,-8.87E+00,4.074511e+00
58,P.1.03.14,normal,-7.86E+00,-8.62E+00,3.482713e+00
59,P.1.03.15,normal,-8.63E+00,-8.25E+00,2.744909e+00
60,P.1.03.16,normal,-9.20E+00,-7.72E+00,1.907193e+00
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288,P.1.17.06,normal,5.163311e-01,-2.50E-01,5.788126e+00
289,P.1.17.07,normal,-3.11E-01,7.965269e-03,5.720149e+00
290,P.1.17.08,normal,-1.19E+00,1.557204e-01,5.529315e+00
291,P.1.17.09,normal,-2.12E+00,2.521593e-01,5.265491e+00
292,P.1.17.10,normal,-3.12E+00,3.239216e-01,4.947856e+00
293,P.1.17.11,normal,-4.13E+00,2.836730e-01,4.534450e+00
294,P.1.17.12,normal,-5.06E+00,6.414583e-02,3.987383e+00
295,P.1.17.13,normal,-5.95E+00,-1.64E-01,3.433084e+00
296,P.1.17.14,normal,-6.74E+00,-4.15E-01,2.882703e+00
297,P.1.17.15,normal,-7.36E+00,-6.93E-01,2.348268e+00
298,P.1.17.16,normal,-7.77E+00,-9.71E-01,1.888202e+00
299,P.1.17.17,normal,-8.00E+00,-1.19E+00,1.614923e+00
