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Bug#941102: marked as done (ITP: kaptive -- obtain information about K and O types for Klebsiella genome assemblies)

Your message dated Mon, 14 Oct 2019 17:00:14 +0000
with message-id <E1iK3he-000D3E-3F@fasolo.debian.org>
and subject line Bug#941102: fixed in kaptive 0.6.0-1
has caused the Debian Bug report #941102,
regarding ITP: kaptive -- obtain information about K and O types for Klebsiella genome assemblies
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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-- 
941102: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=941102
Debian Bug Tracking System
Contact owner@bugs.debian.org with problems
--- Begin Message --- 
Package: wnpp
Severity: wishlist

Subject: ITP: kaptive -- obtain information about K and O types for Klebsiella genome assemblies
Package: wnpp
Owner: Andreas Tille <tille@debian.org>
Severity: wishlist

* Package name    : kaptive
  Version         : 0.6.0
  Upstream Author : Ryan Wick <rrwick@gmail.com>
* URL             : https://github.com/katholt/Kaptive
* License         : GPL-3+
  Programming Lang: Python
  Description     : obtain information about K and O types for Klebsiella genome assemblies
 Kaptive reports information about K and O types for Klebsiella genome
 assemblies.
 .
 Given a novel genome and a database of known loci (K or O), Kaptive will
 help a user to decide whether their sample has a known or novel locus.
 It carries out the following for each input assembly:
 .
  * BLAST for all known locus nucleotide sequences (using blastn) to
    identify the best match ('best' defined as having the highest
    coverage).
  * Extract the region(s) of the assembly which correspond to the BLAST
    hits (i.e. the locus sequence in the assembly) and save it to a
    FASTA file.
  * BLAST for all known locus genes (using tblastn) to identify which
    expected genes (genes in the best matching locus) are present/missing
    and whether any unexpected genes (genes from other loci) are present.
  * Output a summary to a table file.
 .
 In cases where your input assembly closely matches a known locus,
 Kaptive should make that obvious. When your assembly has a novel type,
 that too should be clear. However, Kaptive cannot reliably extract or
 annotate locus sequences for totally novel types - if it indicates a
 novel locus is present then extracting and annotating the sequence is up
 to you! Very poor assemblies can confound the results, so be sure to
 closely examine any case where the locus sequence in your assembly is
 broken into multiple pieces.

Remark: This package is maintained by Debian Med Packaging Team at
   https://salsa.debian.org/med-team/kaptive

--- End Message ---
--- Begin Message --- 
Source: kaptive
Source-Version: 0.6.0-1

We believe that the bug you reported is fixed in the latest version of
kaptive, 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 941102@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Andreas Tille <tille@debian.org> (supplier of updated kaptive 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: SHA512

Format: 1.8
Date: Tue, 24 Sep 2019 21:53:52 +0200
Source: kaptive
Binary: kaptive kaptive-data kaptive-example
Architecture: source all
Version: 0.6.0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
 kaptive    - obtain information about K and O types for Klebsiella genome asse
 kaptive-data - reference data for kaptive for Klebsiella genome assemblies
 kaptive-example - example data for kaptive for Klebsiella genome assemblies
Closes: 941102
Changes:
 kaptive (0.6.0-1) unstable; urgency=medium
 .
   * Initial release (Closes: #941102)
Checksums-Sha1:
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Files:
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 4430d1264407beaa5c21285afbb3b425 9982362 science optional kaptive_0.6.0.orig.tar.gz
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 a425bb6e07a6535ec64c32b17e9c217a 29616 science optional kaptive_0.6.0-1_all.deb
 bd0be6bad9f536acd017efd5fdda7b85 7223 science optional kaptive_0.6.0-1_amd64.buildinfo

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--- End Message ---
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