mpi-scheduler optimizeGeneTrees /mnt/myhdd/ankit/Histamine_system/Analysis/tbe_reconciliation_OUT_OTOL_NEW/familyfile_catabolism_results/results/catabolism/geneTree.newick ../Histamine_system/Analysis/tbe_reconciliation_inputFiles/mapping_file_catabolism.txt ../Histamine_system/Analysis/after_tindex_LSI/catabolism.fasta /mnt/myhdd/ankit/Histamine_system/Analysis/tbe_reconciliation_OUT_OTOL_NEW/familyfile_catabolism_results/species_trees/inferred_species_tree.newick WAG+F+I+G4 /mnt/myhdd/ankit/Histamine_system/Analysis/tbe_reconciliation_OUT_OTOL_NEW/familyfile_catabolism_results/gene_optimization_1/dtl_rates.txt 0 0 1 UNIFORM 0 1 0 0 PARENTS 0 0 0.000001 NONE 0 2 -1 1 1 1 2 /mnt/myhdd/ankit/Histamine_system/Analysis/tbe_reconciliation_OUT_OTOL_NEW/familyfile_catabolism_results/results/catabolism/geneTree.newick /mnt/myhdd/ankit/Histamine_system/Analysis/tbe_reconciliation_OUT_OTOL_NEW/familyfile_catabolism_results/results/catabolism/stats.txt 0 /mnt/myhdd/ankit/Histamine_system/Analysis/tbe_reconciliation_OUT_OTOL_NEW/familyfile_catabolism_results/gene_optimization_1/checkpoints/catabolism 
[00:02:24] Starting optimizeGeneTreesSlave
LibpllModel WAG+F+I+G4
[00:02:24] Starting optimizing gene tree
Number of ranks 12
(0.375147, 0.357718, score = 0)
Taxa number: 53
joint: -33548.2  libpll: -33428  reconciliation: -120.212  
Initial ll = -33548.2
[00:02:32] SPR Search with radius 2: trying 153 prune nodes
[00:03:15] Found 0 potential better moves
[00:03:15] 	GeneRax will now test and apply all the 0 potential good moves one after each other
joint: -33548.2  libpll: -33428  reconciliation: -120.212  
Saving tree in /mnt/myhdd/ankit/Histamine_system/Analysis/tbe_reconciliation_OUT_OTOL_NEW/familyfile_catabolism_results/results/catabolism/geneTree.newick
Finished saving  /mnt/myhdd/ankit/Histamine_system/Analysis/tbe_reconciliation_OUT_OTOL_NEW/familyfile_catabolism_results/results/catabolism/geneTree.newick
[00:03:15] End of optimizing gene tree after 51s
[00:03:15] End of optimizeGeneTreesSlave
