[EMBOSS] fdnaml prompts for (optional) Phylip tree from command line

[michael watson (IAH-C)]

Hi 

 

Running Emboss 6.01 with PHYLIPNEW installed (3.67)

 

When I run fdnaml from the command line it always prompts for a philip
tree, which is supposedly optional.

 

I know from the docs I should be able to turn this off using -options
but I can't find out what I can say to -options to make it stop.

 

fdnaml -sequence=/tmp/18702.msf -outfile=stdout
-outtreefile=/tmp/dummy.tree 

Estimates nucleotide phylogeny by maximum likelihood

Phylip tree file (optional):

 

fdnaml -sequence=/tmp/18702.msf -outfile=stdout
-outtreefile=/tmp/dummy.tree -options=F

Estimates nucleotide phylogeny by maximum likelihood

Phylip tree file (optional):

 

fdnaml -sequence=/tmp/18702.msf -outfile=stdout
-outtreefile=/tmp/dummy.tree -options=0

Estimates nucleotide phylogeny by maximum likelihood

Phylip tree file (optional):

 

Please forgive me if I'm doing something silly.... 

 

Mick

 

Head of Bioinformatics
Institute for Animal Health
Compton
Berks
RG20 7NN
01635 578411 

 

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