Bug#320777: marked as done (ITP: libtfbs-perl -- [Biology] Library for handling transcription factor binding sites)
Your message dated Tue, 01 Aug 2006 11:59:34 -0600
with message-id <E1G7yWk-0001Dr-EE@merkel.debian.org>
and subject line WNPP bug closing
has caused the attached Bug report to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--- Begin Message ---
Package: wnpp
Severity: wishlist
Owner: Steffen Moeller <moeller@pzr.uni-rostock.de>
* Package name : libtfbs-perl
Version : 0.5.0
Upstream Author : Boris Lenhard <Boris.Lenhard@cgb.ki.se>
* URL : http://forkhead.cgb.ki.se/TFBS/
* License : artistic
Description : [Biology] Library for handling transcription factor binding sites
TFBS Perl OO modules implement classes for the representation of objects
encountered in analysis of protein-binding sites in DNA sequences.The
objects defined by TFBS classes include:
* pattern definition objects, currently position specific score
matrices (raw frequency, information content and position weight
matrices)with methods for interconversion between matrix types, sequence
searching with a matrix profile, sequence 'logo' drawing and matrix
manipulation;
* a composite object representing a set of position specific score
matrices, with methods for the identification of motifs within DNA
sequences with the set of profiles from its member matrices;
* methods for searching pairwise alignments for patterns conserved
in both sequences (phylogenetic footprinting) defined for both matrix
profile and composite (matrix set) objects;
* an object representing DNA binding site sequence, and an object
representing sets of DNA binding sequences, with methods and helper
classes to facilitate scanning, filtering and statistical analyses;
* an object representing a pair of DNA binding site sequences, and
an object representing a set of such pairs, for storage, manipulation
and analysis of phylogenetic footprinting searches;
* database interfaces to relational, flat file and WWW database of
position-specifc score matrices, with methods for searching existing
databases, as well as creating new ones containing user-defined
matrices.
* interfaces to matrix pattern generating programs
The modules within the TFBS set are fully integrated and compatible with
Bioperl.
--- End Message ---
--- Begin Message ---
Hello,
This is an automatic mail sent to close the ITP you have reported or
are involved with.
Your ITP wnpp bug is being closed because of the following reasons:
- It is, as of today, older than 365 days.
- It hasn't had any activity recently.
As this is an automatic procedure, it could of course have something
wrong and probably it would be closing some bugs that are not
intended by owners and submitters (like you) to be closed, for
example if the ITP is still of your interest, or there has been
some kind of activity around it. In that case, please reopen the
bug, do it, DO IT NOW! (I don't want to be blamed because of
mass closing and not let people know that they can easily reopen
their bugs ;-).
To re-open it, you simply have to mail control@bugs.debian.org
with a body text like this:
reopen 320777
thanks bts
Further comments on the work done in the bug sent to
320777@bugs.debian.org would be truly welcomed.
Anyway, if you have any kind of problems when dealing with
the BTS, feel free to contact me and I'd be more than happy to help
you on this: <damog@debian.org>.
A similar process is being applied to other kind of wnpp bugs.
Thanks for your cooperation,
-- David Moreno Garza <damog@debian.org>.
--- End Message ---
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