item:AxML + FastdnaML (max 500 Species) ...
seqtype: N
itemmeta: M
itemmethod:(/bin/rm -f outfile infile treefile ;\
            arb_export_rates "$RATES" "Y 1" "Q" "R" "G 0 0" "T 2.0" | \
                arb_convert_aln -GenBank in1 -phylip2 infile;\
            arb_export_tree $TREE >>infile;\
            RUN_IN_WINDOW((time arb_fastdnaml $PROGRAM;\
                           $DISPLAY_FUNC));\
            rm in1 )&
itemhelp:dnaml.help

arg:RATES
argtype:weights
arglabel:Select a Weighting Mask
argchoice:POS_VAR_BY_PARS

arg:TREE
argtype:tree
arglabel:Base Tree
argchoice:

arg:PROGRAM
argtype:choice_menu
arglabel:Select program to use
argchoice:AxML:axml
argchoice:FastdnaML:fastdnaml

arg:DISPLAY_FUNC
argtype:choice_menu
arglabel:What to do with the tree?
argchoice:ARB ('tree_fml_//'):arb_read_tree tree_fml_$$ treefile "PRG=$PROGRAM BASETREE=$TREE FILTER=$FILTER PKG=olsen/felsenstein RATE=$RATES"
argchoice:Treetool:treetool treefile


in:in1
informat:genbank
inmask:
insave: