================== ASTRAL ===================== 

This is ASTRAL version 5.15.4
Using native AVX batch computing.
Gene trees are treated as unrooted
Starting 8 threads ...
There are 8 threads used to run.
424 trees read from infile.tre
All output trees will be *arbitrarily* rooted at Marmoset

======== Running the main analysis
Number of taxa: 14 (14 species)
Taxa: [Marmoset, Orangutan, Human, Chimpanzee, Gorilla, Macaque, Galago, Mouse_Lemur, Tree_Shrew, Rat, Tarsier, Rabbit, Horse, Sloth]
Taxon occupancy: {Human=424, Rat=424, Tarsier=424, Galago=424, Rabbit=424, Macaque=424, Sloth=424, Marmoset=424, Tree_Shrew=424, Chimpanzee=424, Mouse_Lemur=424, Horse=424, Orangutan=424, Gorilla=424}
Using polytree-based weight calculation.
Number of gene trees: 424
0 trees have missing taxa
Calculating distance matrix (for completion of X) ....with 4 distance matrices for parallellism
Species tree distances calculated ...

Building set of clusters (X) from gene trees 
------------------------------
Number of Clusters after addition from gene trees: 339
Number of Clusters after addition by distance: 339
Adding to X using resolutions of greedy consensus ...

Computing greedy consensus  
took 0 seconds
Limit for sigma of degrees:400

polytomy size limit : > 3
 [3]
discarded polytomies: 
Threshold 0.0:
Threshold 0.01:
Threshold 0.02:
Threshold 0.05:
Threshold 0.1:
Threshold 0.2:
Threshold 0.3333333333333333:
polytomy of size 3; rounds with additions with at least 5 support: 0; clusters: 339
Number of Clusters after addition by greedy: 339
partitions formed in 0.241 secs
Dynamic Programming starting after 0.241 secs
Polytree max score: 424424
Polytree building time: 0.02 seconds.
Using native AVX batch computing method.
Number of quartet trees in the gene trees: 424424
Computing hash values took 0 seconds
Size of largest cluster: 14
Size of largest cluster: 14
Finishing up:732 0 64
Total Number of elements: 731
Normalized score (portion of input quartet trees satisfied before correcting for multiple individuals): 0.9182656965675834
Final optimization score: 389734
Optimal tree inferred in 1.302 secs.
Weight calculation using polytrees cumulatively took 0.006456044 secs
(Marmoset,((Tarsier,(((Tree_Shrew,(Rat,Rabbit)),(Horse,Sloth)),(Galago,Mouse_Lemur))),(Macaque,(Orangutan,(Gorilla,(Human,Chimpanzee))))));
Final quartet score is: 389734
Final normalized quartet score is: 0.9182656965675834
(Marmoset,((Tarsier,(((Tree_Shrew,(Rat,Rabbit)1:0.8024369743576611)0.92:0.08540838439417373,(Horse,Sloth)1:2.6056351956741435)1:1.9852014529353605,(Galago,Mouse_Lemur)1:2.4018020540034675)1:0.655284855661726)1:4.260329699696363,(Macaque,(Orangutan,(Gorilla,(Human,Chimpanzee)1:0.6408490436022495)1:2.3251916476229617)1:2.5898315305010144)1:2.7005416959060815));
ASTRAL finished in 1.672 secs
Shutting down threading