Don.Gilbert@IUBio.Bio.Indiana.Edu (Don Gilbert) (05/26/90)
My preference is to sound like "Philip" but most people I talk with say
"File ip" (as in the contraction of Phylogeny Inference Package). Any
consensus out there?
On a related note, I have revised ReadSeq to format sequences correctly
for Phylip's DNAML program (it won't _read_ a Phylip format file though).
ReadSeq now handles 13 formats including IntelliGenetics, GenBank, EMBL,
NBRF, GCG, Pearson and Phylip. I have only updated the C source; the
Pascal source will probably languish into obsolescence. See folder
[Archive.Molbio.Readseq] on the Iubio ftp archive for the sources. The
file ReadSeq.Arc contains all sources and examples (use binary ftp). To
get to Iubio, try
> ftp iubio.bio.indiana.edu
user: anonymous
password: myname
Don.Gilbert@iubio.bio.indiana.edu
biology dept., indiana univ., bloomington, in 47405, usa joe@GENETICS.WASHINGTON.EDU (Joe Felsenstein) (05/26/90)
I used to say "Philip" but others convinced me that the proper pronounciation should be "File-ip". Does that make it official? As for the ReadSeq program -- note that in version 3.3 of PHYLIP, which will be released at about the end of May (a week from now), I have changed the input format for the molecular sequence programs. Now if sequences run over multiple lines you should not have all of the first sequence, followed by all of the second, etc. but should have the first part of each sequence, then after the first parts of all sequences have been given, a line containing only a carriage-return, then the second part of each sequence, and so on. Names of sequences are put only on the first group of lines. Thus I am switching to an "aligned" or "interleaved" format. That means that ReadSeq will have to ask the user which version of PHYLIP is intended, at least for a while. Joe Felsenstein, Dept. of Genetics, Univ. of Washington, Seattle, WA 98195 Internet/ARPANet: joe@genetics.washington.edu (IP No. 128.208.128.1) BITNET/EARN: FELSENST@UWALOCKE UUCP: ... uw-beaver!uw-entropy!uw-evolution!joe