[EMBOSS] fneighbor and dist programs

Thu Feb 26 13:26:50 UTC 2009

Dear all,

I am having problems using fneighbor with either fprotdist or fdnadist. The way the dist
programs work is that when it prints the distance matrix, after every nine distance
values a new line is printed. 

However, this seems to upset fneighbor which complains thus:

Error: Distances file found 0 rows, expected 26
Error: Unable to read distances file 'ensmuscle2.fprotdist'
Died: fneighbor terminated: Bad value for '-datafile' with -auto defined
fneighbor exited with status 1...

If I use a small number of sequences, then there's no problem. Or, if I manually edit
the fprotdist file so as to remove the newlines, then it works fine. This is OK for me,
but for the student lab it's a bit of a showstopper

I looked in my archives and documentation  but couldn't find anything on this. Am I
missing something obvious?

I am using Phylipnew 3.67, EMBOSS 6.0.1

Many thanks

Scott

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