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"structvertex__info.html#a82140b8f43637e8ea2bd7885005a59af":[8,0,17,9], @@ -50,24 +69,5 @@ var NAVTREEINDEX8 = "vicinity_8hpp_source.html":[9,0,0,0,0,3,0,0,4], "visit_8hpp_source.html":[9,0,0,0,0,0,2,0,6], "wrapper_8hpp_source.html":[9,0,0,0,0,4,0,5], -"zip__range_8hpp_source.html":[9,0,0,0,0,6,0,5], -"":[7,0,2,11,0], -"":[7,0,2,5,2,0], -"":[7,0,2,2], -"":[7,0,2,4,1,1], -"":[7,0,0,13], -"":[7,0,2,4,1,2,0], -"":[7,0,2,5,1], -"":[7,0,2,0,4,0], -"":[7,0,1], -"":[7,0,0,13,2], -"":[7,0,0,13,0], -"":[7,0,2,5,2], -"":[7,0,2,4,1,0], -"":[7,0,2,4,1,3], -"":[7,0,2,0,2,0], -"":[7,0,2,5,0,0], -"":[7,0,3], -"":[7,0,0,15], -"":[7,0,2,0,3] +"zip__range_8hpp_source.html":[9,0,0,0,0,6,0,5] }; diff --git a/newick_generator.html b/newick_generator.html index 9b0e04f3..9db6291f 100644 --- a/newick_generator.html +++ b/newick_generator.html @@ -217,9 +217,9 @@

quetzal::format::newick::TreeAlign
Set a root node branch length to zero. Remove all nested comments.
Definition: from_network.hpp:180

Since there are no comments stored in the labels of the generated random tree, the output of the different flavors are here quite similar:

Output

-
1 ((,(,)),(,)):0.0;
-
2 ((,(,)),(,));
-
3 ((,(,)),(,));
+
1 (,((,(,)),)):0.0;
+
2 (,((,(,)),));
+
3 (,((,(,)),));

Custom properties

@@ -280,7 +280,7 @@

edge_info
Definition: newick_parser_2.cpp:12
vertex_info
Definition: coalescence_binary_tree_2.cpp:5

Output

-
1 ((T:4,D:1)E:5,((I:6,T:2)D:3,J:2)M:3)K:0.0;
+
1 (N:0,(((E:2,I:8)W:3,K:4)J:1,O:9)L:1)X:0.0;

From a Quetzal k-ary tree

@@ -320,9 +320,9 @@

quetzal::coalescence::get_random_k_ary_tree
std::pair< quetzal::coalescence::k_ary_tree< Vertex, Edge >, typename quetzal::coalescence::k_ary_tree< Vertex, Edge >::vertex_descriptor > get_random_k_ary_tree(int n_leaves, Generator &rng)
Generate a random k-ary tree.
Definition: k_ary_tree.hpp:761

Since there are no comments stored in the labels of the generated random tree, the output of the different flavors are here quite similar:

Output

-
1 ((,),(,(,))):0.0;
-
2 ((,),(,(,)));
-
3 ((,),(,(,)));
+
1 ((,(,)),(,)):0.0;
+
2 ((,(,)),(,));
+
3 ((,(,)),(,));

Custom properties

@@ -385,7 +385,7 @@

2 2
3 2
4 2
-
5 ((I:5,D:4)H:6,(E:9,(D:6,J:6)M:4)H:3)M;
+
5 (N:3,((F:2,M:3)Z:5,(S:9,V:4)V:0)I:9)I;

Interfacing legacy code

diff --git a/spatial_graph_local_process.html b/spatial_graph_local_process.html index 8c2e54f8..3a9929c9 100644 --- a/spatial_graph_local_process.html +++ b/spatial_graph_local_process.html @@ -305,9 +305,9 @@

50 }

Output

1 Time series:
-
2 at vertex 0 : 1 1 2 3 4 5 9 15 15 18
-
3 at vertex 1 : 1 1 2 2 4 6 11 21 31 49
-
4 at vertex 2 : 1 1 1 3 5 8 15 27 41 60
+
2 at vertex 0 : 1 1 1 2 4 8 16 25 49 77
+
3 at vertex 1 : 1 1 1 2 4 7 9 13 17 31
+
4 at vertex 2 : 1 1 2 3 5 5 7 10 14 17
5 at vertex 3 : 0 0 0 0 0 0 0 0 0 0
6 at vertex 4 : 0 0 0 0 0 0 0 0 0 0
7 at vertex 5 : 0 0 0 0 0 0 0 0 0 0
@@ -375,9 +375,9 @@

52 }

Output

1 Time series:
-
2 at vertex 0 : 1 5 28 146 475 897 1615 0 0 0
-
3 at vertex 1 : 1 3 19 69 150 786 1581 493 901 2010
-
4 at vertex 2 : 1 3 8 51 232 1080 911 1307 239 789
+
2 at vertex 0 : 1 5 14 71 351 1311 1089 1387 461 1280
+
3 at vertex 1 : 1 3 19 47 255 1082 1176 1133 1270 910
+
4 at vertex 2 : 1 2 12 35 183 546 1281 0 0 0
5 at vertex 3 : 0 0 0 0 0 0 0 0 0 0
6 at vertex 4 : 0 0 0 0 0 0 0 0 0 0
7 at vertex 5 : 0 0 0 0 0 0 0 0 0 0
@@ -503,9 +503,9 @@

Output

1 Time series:
2 at vertex 0 :
-
3  P1 : 200 161.917 107.188 0 0 0 0 0 0 0
-
4  P2 : 1 19.138 297.802 2352.16 0 0 0 0 0 0
-
5  P3 : 1 2.27978 1.22296 0 0 0 0 0 0 0
+
3  P1 : 200 0 0 0 0 0 0 0 0 0
+
4  P2 : 1 9.87196 9.13402 9.88095 11.4189 13.7495 16.9688 21.1155 26.0354 31.3309
+
5  P3 : 1 6.7917 4.16484 2.79199 1.76416 0.959619 0.390678 0.0841936 0 0
6 
7 at vertex 1 :
8  P1 : 0 0 0 0 0 0 0 0 0 0