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Bug#800737: marked as done (ITP: ruby-crb-blast -- Run conditional reciprocal best blast)

Your message dated Wed, 03 Feb 2016 13:01:19 +0000
with message-id <E1aQx3f-0005CG-Cf@franck.debian.org>
and subject line Bug#800737: fixed in ruby-crb-blast 0.6.4-1
has caused the Debian Bug report #800737,
regarding ITP: ruby-crb-blast -- Run conditional reciprocal best blast
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.

(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact owner@bugs.debian.org
immediately.)


-- 
800737: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=800737
Debian Bug Tracking System
Contact owner@bugs.debian.org with problems
--- Begin Message ---
Package: wnpp
Owner: "Debian Ruby Team" <debian-ruby@lists.debian.org>
Severity: wishlist
X-Debbugs-CC: debian-ruby@lists.debian.org

* Package name    : ruby-crb-blast
  Version         : 0.6.4
  Upstream Author : Chris Boursnell & Richard Smith-Unna
* URL             : https://github.com/cboursnell/crb-blast
* License         : MIT
  Programming Lang: Ruby
  Description     : Run conditional reciprocal best blast

CRB-BLAST is a novel method for finding orthologs between one set of sequences and another. This is particularly useful in genome and transcriptome annotation.

CRB-BLAST initially performs a standard reciprocal best BLAST. It does this by performing BLAST alignments of query->target and target->query. Reciprocal best BLAST hits are those where the best match for any given query sequence in the query->target alignment is also the best hit of the match in the reverse (target->query) alignment.

Reciprocal best BLAST is a very conservative way to assign orthologs. The main innovation in CRB-BLAST is to learn an appropriate e-value cutoff to apply to each pairwise alignment by taking into account the overall relatedness of the two datasets being compared. This is done by fitting a function to the distribution of alignment e-values over sequence lengths. The function the e-value cutoff for a sequence of given length.

This package is a dependency for 'transrate'

This package will be maintained as part of the Debian Ruby packaging team.


--- End Message ---
--- Begin Message --- 
Source: ruby-crb-blast
Source-Version: 0.6.4-1

We believe that the bug you reported is fixed in the latest version of
ruby-crb-blast, which is due to be installed in the Debian FTP archive.

A summary of the changes between this version and the previous one is
attached.

Thank you for reporting the bug, which will now be closed.  If you
have further comments please address them to 800737@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Michael R. Crusoe <crusoe@ucdavis.edu> (supplier of updated ruby-crb-blast package)

(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing ftpmaster@ftp-master.debian.org)


-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256

Format: 1.8
Date: Sat, 19 Sep 2015 21:56:00 -0700
Source: ruby-crb-blast
Binary: ruby-crb-blast
Architecture: source all
Version: 0.6.4-1
Distribution: sid
Urgency: medium
Maintainer: Debian Ruby Extras Maintainers <pkg-ruby-extras-maintainers@lists.alioth.debian.org>
Changed-By: Michael R. Crusoe <crusoe@ucdavis.edu>
Description:
 ruby-crb-blast - Run conditional reciprocal best blast
Closes: 800737
Changes:
 ruby-crb-blast (0.6.4-1) unstable; urgency=medium
 .
   * Initial release (Closes: #800737)
Checksums-Sha1:
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 42c8d14ec252adafe0a22b9f8e56f71bc66b02bf 3204 ruby-crb-blast_0.6.4-1.debian.tar.xz
 6872f91cecdb9d18944345e1b5e1adc66ac9f35d 10308 ruby-crb-blast_0.6.4-1_all.deb
Checksums-Sha256:
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 2ee08373fd21a0163f754c4d437d384c6a90e2a76e5d0f57d4f4bfc35b3d0076 3204 ruby-crb-blast_0.6.4-1.debian.tar.xz
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Files:
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 31c21828bf728f999c3c9b7e109c811a 36354 ruby optional ruby-crb-blast_0.6.4.orig.tar.gz
 a40b84b4e5b82407963264bc196db695 3204 ruby optional ruby-crb-blast_0.6.4-1.debian.tar.xz
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