I was going to patch this in CVS but it seems Richard beat me to it!
Mark Schreiber
Principal Scientist (Bioinformatics)
Novartis Institute for Tropical Diseases (NITD)
10 Biopolis Road
#05-01 Chromos
Singapore 138670
www.nitd.novartis.com
phone +65 6722 2973
fax +65 6722 2910
zhenqing ye <[EMAIL PROTECTED]>
Sent by: [EMAIL PROTECTED]
05/11/2005 10:04 AM
To: biojava-l@biojava.org
cc: (bcc: Mark Schreiber/GP/Novartis)
Subject: [Biojava-l] topic about RestrictionEnzyme
Hi,
i have solved the problem, so let's share it.
the code line in RestrictionEnzymeManager.java should be changed to the
correct one
as following.
....
// Create site value splitter
RegexSplitter site =
new
RegexSplitter(Pattern.compile("(\\(-?\\d/-?\\d+\\)|[A-Za-z^]+)"), 1); #
old one
...
new
RegexSplitter(Pattern.compile("(\\(-?\\d+/-?\\d+\\)|[A-Za-z^]+)"), 1); #
new one
just add one "+" character. hoho, i think it's a mini incaution, not
bug.
furthermore, something in my previous draft should be changed too.
0 (#DownstreamEndType) 0 (#DownstreamEndType)
12 (#DownstreamCut[0]) -----> 24 (#DownstreamCut[0])
7 (#DownstreamCut[1]) 19 (#DownstreamCut[1])
Bsp24I
5' ^NNNNNNNNGACNNNNNNTGGNNNNNNNNNNNN^ 3'
3' ^NNNNNNNNNNNNNCTGNNNNNNACCNNNNNNN^ 5'
length(GACNNNNNNTGGNNNNNNNNNNNN)=24
length(CTGNNNNNNACCNNNNNNN)=19
thanks
zhenqing ye
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