Mercurial > repos > iuc > graphlan_annotate

comparison test-data/intermediary_tree @ 0:5d6f8f0bef7c draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/humann2/ commit 6e73e77d186e02d200fc3a61d25311e67864a824
author iuc
date Sat, 04 Mar 2017 10:27:20 -0500
parents
children cf1df6b2220a
comparison
equal deleted inserted replaced
-1:000000000000 0:5d6f8f0bef7c
1 <phyloxml xmlns="http://www.phyloxml.org" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.phyloxml.org http://www.phyloxml.org/1.10/phyloxml.xsd">
2 <phylogeny rooted="true">
3 <clade>
4 <clade>
5 <name>k__Archaea</name>
6 <branch_length>1.0</branch_length>
7 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.0748302504</property>
8 <clade>
9 <name>p__Euryarchaeota</name>
10 <branch_length>1.0</branch_length>
11 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.0748302504</property>
12 <clade>
13 <name>c__Methanobacteria</name>
14 <branch_length>1.0</branch_length>
15 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.0748302504</property>
16 <clade>
17 <name>o__Methanobacteriales</name>
18 <branch_length>1.0</branch_length>
19 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.0748302504</property>
20 <clade>
21 <name>f__Methanobacteriaceae</name>
22 <branch_length>1.0</branch_length>
23 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.0748302504</property>
24 <clade>
25 <name>g__Methanobrevibacter</name>
26 <branch_length>1.0</branch_length>
27 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.0748302504</property>
28 <clade>
29 <name>s__Methanobrevibacter_smithii</name>
30 <branch_length>1.0</branch_length>
31 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.0748302504</property>
32 <clade>
33 <name>t__Methanobrevibacter_smithii_unclassified</name>
34 <branch_length>1.0</branch_length>
35 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.0748302504</property>
36 </clade>
37 </clade>
38 </clade>
39 </clade>
40 </clade>
41 </clade>
42 </clade>
43 </clade>
44 <clade>
45 <name>k__Bacteria</name>
46 <branch_length>1.0</branch_length>
47 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">200.0</property>
48 <clade>
49 <name>p__Deinococcus_Thermus</name>
50 <branch_length>1.0</branch_length>
51 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.298886707</property>
52 <clade>
53 <name>c__Deinococci</name>
54 <branch_length>1.0</branch_length>
55 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.298886707</property>
56 <clade>
57 <name>o__Deinococcales</name>
58 <branch_length>1.0</branch_length>
59 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.298886707</property>
60 <clade>
61 <name>f__Deinococcaceae</name>
62 <branch_length>1.0</branch_length>
63 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.298886707</property>
64 <clade>
65 <name>g__Deinococcus</name>
66 <branch_length>1.0</branch_length>
67 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.298886707</property>
68 <clade>
69 <name>s__Deinococcus_unclassified</name>
70 <branch_length>1.0</branch_length>
71 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">21.1817307606</property>
72 </clade>
73 <clade>
74 <name>s__Deinococcus_radiodurans</name>
75 <branch_length>1.0</branch_length>
76 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">21.1340492974</property>
77 <clade>
78 <name>t__GCF_000008565</name>
79 <branch_length>1.0</branch_length>
80 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">21.1340492974</property>
81 </clade>
82 </clade>
83 </clade>
84 </clade>
85 </clade>
86 </clade>
87 </clade>
88 <clade>
89 <name>p__Firmicutes</name>
90 <branch_length>1.0</branch_length>
91 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">183.285013514</property>
92 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#2d19ff</property>
93 <clade>
94 <name>c__Clostridia</name>
95 <branch_length>1.0</branch_length>
96 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">26.8159954288</property>
97 <clade>
98 <name>o__Clostridiales</name>
99 <branch_length>1.0</branch_length>
100 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">26.8159954288</property>
101 <clade>
102 <name>f__Clostridiaceae</name>
103 <branch_length>1.0</branch_length>
104 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">26.8159954288</property>
105 <clade>
106 <name>g__Clostridium</name>
107 <branch_length>1.0</branch_length>
108 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">26.8159954288</property>
109 <clade>
110 <name>s__Clostridium_beijerinckii</name>
111 <branch_length>1.0</branch_length>
112 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">26.8159954288</property>
113 <clade>
114 <name>t__Clostridium_beijerinckii_unclassified</name>
115 <branch_length>1.0</branch_length>
116 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">26.8159954288</property>
117 </clade>
118 </clade>
119 </clade>
120 </clade>
121 </clade>
122 </clade>
123 <clade>
124 <name>c__Bacilli</name>
125 <branch_length>1.0</branch_length>
126 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">182.398015269</property>
127 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#2d19ff</property>
128 <clade>
129 <name>o__Bacillales</name>
130 <branch_length>1.0</branch_length>
131 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">164.332515943</property>
132 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#2d19ff</property>
133 <clade>
134 <name>f__Staphylococcaceae</name>
135 <branch_length>1.0</branch_length>
136 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">164.332515943</property>
137 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#2d19ff</property>
138 <clade>
139 <name>g__Staphylococcus</name>
140 <branch_length>1.0</branch_length>
141 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">164.332515943</property>
142 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#2d19ff</property>
143 <clade>
144 <name>s__Staphylococcus_aureus</name>
145 <branch_length>1.0</branch_length>
146 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">122.793996615</property>
147 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#2d19ff</property>
148 <clade>
149 <name>t__Staphylococcus_aureus_unclassified</name>
150 <branch_length>1.0</branch_length>
151 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">122.793996615</property>
152 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#2d19ff</property>
153 </clade>
154 </clade>
155 <clade>
156 <name>s__Staphylococcus_epidermidis</name>
157 <branch_length>1.0</branch_length>
158 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">120.392106048</property>
159 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#2d19ff</property>
160 <clade>
161 <name>t__Staphylococcus_epidermidis_unclassified</name>
162 <branch_length>1.0</branch_length>
163 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">120.392106048</property>
164 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#2d19ff</property>
165 </clade>
166 </clade>
167 </clade>
168 </clade>
169 </clade>
170 <clade>
171 <name>o__Lactobacillales</name>
172 <branch_length>1.0</branch_length>
173 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">96.1062970373</property>
174 <clade>
175 <name>f__Streptococcaceae</name>
176 <branch_length>1.0</branch_length>
177 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">96.1062970373</property>
178 <clade>
179 <name>g__Streptococcus</name>
180 <branch_length>1.0</branch_length>
181 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">96.1062970373</property>
182 <clade>
183 <name>s__Streptococcus_mutans</name>
184 <branch_length>1.0</branch_length>
185 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">93.7375603</property>
186 <clade>
187 <name>t__Streptococcus_mutans_unclassified</name>
188 <branch_length>1.0</branch_length>
189 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">93.7375603</property>
190 </clade>
191 </clade>
192 <clade>
193 <name>s__Streptococcus_agalactiae</name>
194 <branch_length>1.0</branch_length>
195 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">25.9449465996</property>
196 <clade>
197 <name>t__Streptococcus_agalactiae_unclassified</name>
198 <branch_length>1.0</branch_length>
199 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">25.9449465996</property>
200 </clade>
201 </clade>
202 </clade>
203 </clade>
204 </clade>
205 </clade>
206 </clade>
207 <clade>
208 <name>p__Actinobacteria</name>
209 <branch_length>1.0</branch_length>
210 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.66961905</property>
211 <clade>
212 <name>c__Actinobacteria</name>
213 <branch_length>1.0</branch_length>
214 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.66961905</property>
215 <clade>
216 <name>o__Actinomycetales</name>
217 <branch_length>1.0</branch_length>
218 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.66961905</property>
219 <clade>
220 <name>f__Propionibacteriaceae</name>
221 <branch_length>1.0</branch_length>
222 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.66961905</property>
223 <clade>
224 <name>g__Propionibacterium</name>
225 <branch_length>1.0</branch_length>
226 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.66961905</property>
227 <clade>
228 <name>s__Propionibacterium_acnes</name>
229 <branch_length>1.0</branch_length>
230 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.66961905</property>
231 <clade>
232 <name>t__Propionibacterium_acnes_unclassified</name>
233 <branch_length>1.0</branch_length>
234 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">22.66961905</property>
235 </clade>
236 </clade>
237 </clade>
238 </clade>
239 </clade>
240 </clade>
241 </clade>
242 <clade>
243 <name>p__Proteobacteria</name>
244 <branch_length>1.0</branch_length>
245 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">102.159086265</property>
246 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_color" ref="A:1">#29cc36</property>
247 <clade>
248 <name>c__Gammaproteobacteria</name>
249 <branch_length>1.0</branch_length>
250 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">85.4517057547</property>
251 <clade>
252 <name>o__Enterobacteriales</name>
253 <branch_length>1.0</branch_length>
254 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">78.466031643</property>
255 <clade>
256 <name>f__Enterobacteriaceae</name>
257 <branch_length>1.0</branch_length>
258 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">78.466031643</property>
259 <clade>
260 <name>g__Escherichia</name>
261 <branch_length>1.0</branch_length>
262 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">78.466031643</property>
263 <clade>
264 <name>s__Escherichia_coli</name>
265 <branch_length>1.0</branch_length>
266 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.9341374431</property>
267 <clade>
268 <name>t__Escherichia_coli_unclassified</name>
269 <branch_length>1.0</branch_length>
270 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">58.9341374431</property>
271 </clade>
272 </clade>
273 <clade>
274 <name>s__Escherichia_unclassified</name>
275 <branch_length>1.0</branch_length>
276 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">49.960616022</property>
277 </clade>
278 </clade>
279 </clade>
280 </clade>
281 <clade>
282 <name>o__Pseudomonadales</name>
283 <branch_length>1.0</branch_length>
284 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">34.0879564025</property>
285 <clade>
286 <name>f__Moraxellaceae</name>
287 <branch_length>1.0</branch_length>
288 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.9013800671</property>
289 <clade>
290 <name>g__Acinetobacter</name>
291 <branch_length>1.0</branch_length>
292 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.9013800671</property>
293 <clade>
294 <name>s__Acinetobacter_baumannii</name>
295 <branch_length>1.0</branch_length>
296 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.9013800671</property>
297 <clade>
298 <name>t__Acinetobacter_baumannii_unclassified</name>
299 <branch_length>1.0</branch_length>
300 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.9013800671</property>
301 </clade>
302 </clade>
303 </clade>
304 </clade>
305 <clade>
306 <name>f__Pseudomonadaceae</name>
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308 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">33.3271759768</property>
309 <clade>
310 <name>g__Pseudomonas</name>
311 <branch_length>1.0</branch_length>
312 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">33.3271759768</property>
313 <clade>
314 <name>s__Pseudomonas_unclassified</name>
315 <branch_length>1.0</branch_length>
316 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">28.0078913105</property>
317 </clade>
318 <clade>
319 <name>s__Pseudomonas_aeruginosa</name>
320 <branch_length>1.0</branch_length>
321 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">25.8720239085</property>
322 <clade>
323 <name>t__Pseudomonas_aeruginosa_unclassified</name>
324 <branch_length>1.0</branch_length>
325 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">25.8720239085</property>
326 </clade>
327 </clade>
328 </clade>
329 </clade>
330 </clade>
331 </clade>
332 <clade>
333 <name>c__Alphaproteobacteria</name>
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335 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">53.6955516997</property>
336 <clade>
337 <name>o__Rhodobacterales</name>
338 <branch_length>1.0</branch_length>
339 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">53.6955516997</property>
340 <clade>
341 <name>f__Rhodobacteraceae</name>
342 <branch_length>1.0</branch_length>
343 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">53.6955516997</property>
344 <clade>
345 <name>g__Rhodobacter</name>
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347 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">53.6955516997</property>
348 <clade>
349 <name>s__Rhodobacter_sphaeroides</name>
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351 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">53.6955516997</property>
352 <clade>
353 <name>t__Rhodobacter_sphaeroides_unclassified</name>
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355 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">53.6955516997</property>
356 </clade>
357 </clade>
358 </clade>
359 </clade>
360 </clade>
361 </clade>
362 <clade>
363 <name>c__Betaproteobacteria</name>
364 <branch_length>1.0</branch_length>
365 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.3264778878</property>
366 <clade>
367 <name>o__Neisseriales</name>
368 <branch_length>1.0</branch_length>
369 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.3264778878</property>
370 <clade>
371 <name>f__Neisseriaceae</name>
372 <branch_length>1.0</branch_length>
373 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.3264778878</property>
374 <clade>
375 <name>g__Neisseria</name>
376 <branch_length>1.0</branch_length>
377 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.3264778878</property>
378 <clade>
379 <name>s__Neisseria_meningitidis</name>
380 <branch_length>1.0</branch_length>
381 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.3264778878</property>
382 <clade>
383 <name>t__Neisseria_meningitidis_unclassified</name>
384 <branch_length>1.0</branch_length>
385 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.3264778878</property>
386 </clade>
387 </clade>
388 </clade>
389 </clade>
390 </clade>
391 </clade>
392 <clade>
393 <name>c__Epsilonproteobacteria</name>
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395 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.5761787104</property>
396 <clade>
397 <name>o__Campylobacterales</name>
398 <branch_length>1.0</branch_length>
399 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.5761787104</property>
400 <clade>
401 <name>f__Helicobacteraceae</name>
402 <branch_length>1.0</branch_length>
403 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.5761787104</property>
404 <clade>
405 <name>g__Helicobacter</name>
406 <branch_length>1.0</branch_length>
407 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.5761787104</property>
408 <clade>
409 <name>s__Helicobacter_pylori</name>
410 <branch_length>1.0</branch_length>
411 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.5761787104</property>
412 <clade>
413 <name>t__Helicobacter_pylori_unclassified</name>
414 <branch_length>1.0</branch_length>
415 <property applies_to="clade" datatype="xsd:string" id_ref="clade_marker_size" ref="A:1">20.5761787104</property>
416 </clade>
417 </clade>
418 </clade>
419 </clade>
420 </clade>
421 </clade>
422 </clade>
423 </clade>
424 </clade>
425 <property applies_to="phylogeny" datatype="xsd:string" id_ref="class_legend_marker_size" ref="A:1">1.5</property>
426 <property applies_to="phylogeny" datatype="xsd:string" id_ref="class_legend_font_size" ref="A:1">10</property>
427 <property applies_to="phylogeny" datatype="xsd:string" id_ref="branch_bracket_depth" ref="A:1">0.8</property>
428 <property applies_to="phylogeny" datatype="xsd:string" id_ref="clade_separation" ref="A:1">0.5</property>
429 <property applies_to="phylogeny" datatype="xsd:string" id_ref="branch_bracket_width" ref="A:1">0.2</property>
430 <property applies_to="phylogeny" datatype="xsd:string" id_ref="annotation_legend_font_size" ref="A:1">10</property>
431 <property applies_to="phylogeny" datatype="xsd:string" id_ref="leg_keys" ref="A:1">FIRMICUTES_._._PROTEOBACTERIA</property>
432 <property applies_to="phylogeny" datatype="xsd:string" id_ref="leg_annotation_background_color" ref="A:1">._._._.</property>
433 <property applies_to="phylogeny" datatype="xsd:string" id_ref="leg_annotation_background_edge_color" ref="A:1">._._._.</property>
434 <property applies_to="phylogeny" datatype="xsd:string" id_ref="leg_clade_marker_color" ref="A:1">#2d19ff_._._#29cc36</property>
435 <property applies_to="phylogeny" datatype="xsd:string" id_ref="leg_clade_marker_edge_width" ref="A:1">._._._.</property>
436 <property applies_to="phylogeny" datatype="xsd:string" id_ref="leg_clade_marker_size" ref="A:1">40_._._40</property>
437 <property applies_to="phylogeny" datatype="xsd:string" id_ref="ignore_branch_len" ref="A:1">1</property>
438 </phylogeny>
439 </phyloxml>