ERROR: Problem adding a tip to the tree

[Shea Lambert]

Hello,

I'm using DPPDIV on CIPRES and I get from stderr: "ERROR: Problem adding a tip to the tree"

The end of stdout:

Expected cp = 4.49015
Initialized = 4.96437
DPM fossil calibration lambda parameter = 22.9281
Rate Group Elements: (1.07769) -> 0 2 21 32 35 36 39 42 47 53 55 60 61 65 70 74 75 85 87 91 93 98 101 103 105 108 113 117 118 122 124 125 128 132 133 134 136 137 138 140 141 143 144 154 162 164 165 170 181 182 184 185 188 191 196 200 202 210 211 213 215 223 225 226 230 231 232 239 240 241 243 245 250 255 257 259 260 265 266 267 268 274 276 277 279 280 282 284 288 289 291 296 298 305 306 310 313 314 315 320 322 324 327 328 330 332 335 336 
Rate Group Elements: (0.561959) -> 1 23 27 43 45 54 56 62 68 69 71 76 83 92 97 126 131 135 139 158 178 179 189 197 214 233 238 263 275 286 293 304 326 337 
Rate Group Elements: (0.31449) -> 3 5 8 16 24 28 31 34 38 40 58 63 66 77 80 96 116 119 120 129 142 145 153 156 159 161 175 177 180 190 194 199 205 208 209 222 229 234 237 246 251 254 292 318 334 
Rate Group Elements: (0.0923747) -> 4 10 14 15 18 25 26 29 30 33 37 44 46 48 50 51 52 57 67 73 78 82 84 86 95 100 102 106 107 110 115 121 123 146 148 149 150 157 160 166 167 169 172 173 176 183 186 192 195 201 203 204 206 207 216 218 219 221 235 244 247 248 249 253 256 258 262 269 270 273 278 281 295 299 301 307 311 312 316 319 321 325 329 331 333 339 340 
Rate Group Elements: (0.135017) -> 6 7 9 11 17 19 49 59 72 79 81 88 89 99 114 130 155 163 187 198 212 227 228 236 252 261 264 271 272 283 285 300 303 317 
Rate Group Elements: (0.926871) -> 12 20 94 112 
Rate Group Elements: (0.875464) -> 13 111 193 242 
Rate Group Elements: (0.209629) -> 22 151 220 309 
Rate Group Elements: (0.414696) -> 41 64 287 
Rate Group Elements: (0.120809) -> 90 174 294 
Rate Group Elements: (0.559623) -> 104 
Rate Group Elements: (0.555625) -> 109 147 224 
Rate Group Elements: (0.282509) -> 127 
Rate Group Elements: (1.01427) -> 152 168 
Rate Group Elements: (0.726057) -> 217 302 338 
Rate Group Elements: (0.67357) -> 290 
Rate Group Elements: (0.56571) -> 297 
Rate Group Elements: (0.370482) -> 308 
Rate Group Elements: (0.532841) -> 323 


Any advice on how to avoid this error would be much appreciated. 

Thank you,
Shea 

[Tracy Heath]

Hi Shea,

It seems like there may be an issue reading in the tree. You may want to check a few things: (1) make sure the tree is fully bifrucating and (2) rooted. If you still have problems, send me the tree file and I will look into it.

Thanks,

Tracy

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[Shea Lambert]

Hi Tracy,

It does turn out that the tree was not fully bifurcating. Fixed with multi2di() of R's ape package.

In hindsight I obviously should have checked the treefile. Hopefully this will serve as an effective signpost for future dummies.

Thanks Tracy!