[Biojava-dev] [Bug 2467] BioJava : IOTools.writeFasta() : Infinite Exception loop

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=2467





------- Comment #2 from gwaldon at geneinfinity.org  2008-03-11 12:27 EST -------
I certainly disagree with this. There is no requirement that a fasta file
contains a name in its description line. Most definitions only state that ">"
is required and some even say that name and description are optional (see
Wikipedia). In fact I am sure these files are frequent in html forms when
sequences in fasta format are requested and hard drives located at the bench
are probably full of them. Therefore no need to throw an exception for
something not exceptional. What about adding a mandatory name such as
"unknown", "untitled", "unnamed", "noname", "no_name", "notitle", "nameless",
"undefined", "undetermined", or "anonymous"? I have no preference but I have
used "untitled" in a project.


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