Bugfix: homoeologous_genome_dbs has to be defined
Homoeologues are not available for all the species
Some MLSSs have no homologues at all: do not create a hc_dnds job
bugfix: not all the MLSSs are defined
Bugfix: homoeologous_genome_dbs has to be defined
Homoeologues are not available for all the species
Some MLSSs have no homologues at all: do not create a hc_dnds job
This tree is only about the topology, let's not have any internal taxon names there
bugfix: not all the MLSSs are defined
species_tree_node_ids can be attached to GenomeDBs
Good-bye "gdb2stn" !
GeneTreeMember directly have a taxon_id
Debugging should happen before store()
New parameter to scale the likelihoods
Does not write anything in the database until write_output()
Gets the likelihoods from treebest and stores them as tags
Reading the filtered alignment is now in the base class
Direct branching also works
There is a Runnable for that purpose
New Runnable to copy a clusterset