This command is obsolete. It is largely superseded by the buildfw command which may also build comprehensive maps. It heuristically builds a relatively good comprehensive map using an incremental insertion procedure.
The CarthaGene build command is invoked as either one of :
CarthaGene version 1.2-LKH, Copyright (c) 1997-2010 (INRA). CarthaGene comes with ABSOLUTELY NO WARRANTY. CarthaGene is free software. You are welcome to redistribute it, under certain conditions. See the License file for information. Type 'help' for help. # we first load a data set CG> dsload Data/rh.cg {1 haploid RH 53 118 /home/tschiex/Dev/carthagene/doc/user/exemple/Data/rh.cg} # we perform group detection (output omitted) CG> group 0.3 3 ... # we select group 10 CG> mrkselset [groupget 10] # we use the command build (20 parallel maps) CG> build 20 Build(20) : ||||||||| Map 14 : log10-likelihood = -141.81 -------: Set : Marker List ... 1 : G7 G12 G13 G16 G6 G5 G17 G18 G14 # and check the quality of the final map CG> flips 9 0 0 Single Flip(window size : 9, threshold : 0.00). Map -1 : log10-likelihood = -141.81 -------: Set : Marker List ... 1 : G7 G12 G13 G16 G6 G5 G17 G18 G14 2 2 2 3 2 1 3 3 2 log10 1 6 7 0 0 9 1 2 8 -141.81 [8 7 6 5 - 3 2 1 0] 0.00 # it should be Ok.
Thomas Schiex 2018-03-23