Bug#803542: marked as done (ITP: trnascan-se -- detection of transfer RNA genes in genomic sequence)

To: Afif Elghraoui <afif@debian.org>
Subject: Bug#803542: marked as done (ITP: trnascan-se -- detection of transfer RNA genes in genomic sequence)
From: owner@bugs.debian.org (Debian Bug Tracking System)
Date: Thu, 16 Mar 2017 19:03:08 +0000
Message-id: <[🔎] handler.803542.D803542.14896908138837.ackdone@bugs.debian.org>
References: <E1coadA-000BBe-6J@fasolo.debian.org> <20151031075214.31652.55555.reportbug@afif-1215B>

Your message dated Thu, 16 Mar 2017 19:00:12 +0000
with message-id <E1coadA-000BBe-6J@fasolo.debian.org>
and subject line Bug#803542: fixed in trnascan-se 1.3.1-1
has caused the Debian Bug report #803542,
regarding ITP: trnascan-se -- detection of transfer RNA genes in genomic sequence
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.)


-- 
803542: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=803542
Debian Bug Tracking System
Contact owner@bugs.debian.org with problems

--- Begin Message ---

To: Debian Bug Tracking System <submit@bugs.debian.org>
Subject: ITP: trnascan-se -- detection of transfer RNA genes in genomic sequence
From: Afif Elghraoui <afif@ghraoui.name>
Date: Sat, 31 Oct 2015 00:52:14 -0700
Message-id: <20151031075214.31652.55555.reportbug@afif-1215B>

Package: wnpp
Severity: wishlist
Owner: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>

* Package name    : trnascan-se
  Version         : 1.3.1
  Upstream Author : Todd Lowe <lowe@soe.ucsc.edu> and colleagues
* URL             : http://lowelab.ucsc.edu/tRNAscan-SE
* License         : GPL
  Programming Lang: C, Perl
  Description     : detection of transfer RNA genes in genomic sequence

tRNAscan-SE identifies 99-100% of transfer RNA genes in DNA sequence while
giving less than one false positive per 15 gigabases. Two previously described
tRNA detection programs are used as fast, first-pass prefilters to identify
candidate tRNAs, which are then analyzed by a highly selective tRNA covariance
model. This work represents a practical application of RNA covariance models,
which are general, probabilistic secondary structure profiles based on
stochastic context-free grammars. tRNAscan-SE searches at ~ 30 000 bp/s.
Additional extensions to tRNAscan-SE detect unusual tRNA homologues such as
selenocysteine tRNAs, tRNA-derived repetitive elements and tRNA pseudogenes.

This package is useful for genome annotations and will be managed by the
Debian Med team.

--- End Message ---

--- Begin Message ---

To: 803542-close@bugs.debian.org
Subject: Bug#803542: fixed in trnascan-se 1.3.1-1
From: Afif Elghraoui <afif@debian.org>
Date: Thu, 16 Mar 2017 19:00:12 +0000
Message-id: <E1coadA-000BBe-6J@fasolo.debian.org>

Source: trnascan-se
Source-Version: 1.3.1-1

We believe that the bug you reported is fixed in the latest version of
trnascan-se, 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 803542@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.

Debian distribution maintenance software
pp.
Afif Elghraoui <afif@debian.org> (supplier of updated trnascan-se 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)


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Hash: SHA256

Format: 1.8
Date: Tue, 13 Dec 2016 23:35:18 -0800
Source: trnascan-se
Binary: trnascan-se trnascan-se-common
Architecture: source all amd64
Version: 1.3.1-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Afif Elghraoui <afif@debian.org>
Description:
 trnascan-se - detection of transfer RNA genes in genomic sequence
 trnascan-se-common - detection of transfer RNA genes in genomic sequence (common files
Closes: 803542
Changes:
 trnascan-se (1.3.1-1) unstable; urgency=medium
 .
   * Initial release (Closes: #803542)
Checksums-Sha1:
 7ab9f255a550cb41849744c958d80c0163a531c7 2060 trnascan-se_1.3.1-1.dsc
 51a138ed123ea725cd23b5680863d4c93c2841cb 740960 trnascan-se_1.3.1.orig.tar.gz
 1812f79dddb9822cce21e32f99f916b41f20b436 6272 trnascan-se_1.3.1-1.debian.tar.xz
 4063f56284e3561335f19f14f2b1b1478e5a707a 96282 trnascan-se-common_1.3.1-1_all.deb
 450ce4cfcc15d3ac9997780dcb7afeb7e6ede7e9 398706 trnascan-se-dbgsym_1.3.1-1_amd64.deb
 032b02e713aa5f18232206fafda9435abda2e04d 5104 trnascan-se_1.3.1-1_amd64.buildinfo
 ffb5d668bbf10ccdc193bedd9a6bff438a546c9a 146902 trnascan-se_1.3.1-1_amd64.deb
Checksums-Sha256:
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 862924d869453d1c111ba02f47d4cd86c7d6896ff5ec9e975f1858682282f316 740960 trnascan-se_1.3.1.orig.tar.gz
 949f22149ad63040a28b5915315145c122d1a6c6506d09bf71c31ec813eb1eb5 6272 trnascan-se_1.3.1-1.debian.tar.xz
 25bbd6e970a0aca1b8aed6b9a447f782c798a0f4bf80a8ad81a9d7bce99715f1 96282 trnascan-se-common_1.3.1-1_all.deb
 f244f3fdca6f1ad7ec8e14a96e2ed9b137bdd29416d9d1fb392c46f99fcdc958 398706 trnascan-se-dbgsym_1.3.1-1_amd64.deb
 2c23c77bfe16291b932951e89f3bd593320b262f509894e144dc87e91ba27056 5104 trnascan-se_1.3.1-1_amd64.buildinfo
 b0d1e2cf512fa3f753eb0777754d80fcd687792f38b1ade18ab49e8b618e954c 146902 trnascan-se_1.3.1-1_amd64.deb
Files:
 abb3c3737ee43f6336d09ab2d54ea322 2060 non-free/science optional trnascan-se_1.3.1-1.dsc
 714689121a1cf11c5d9c59561769c4d7 740960 non-free/science optional trnascan-se_1.3.1.orig.tar.gz
 036277a6e6aaab50b052a33757dd8039 6272 non-free/science optional trnascan-se_1.3.1-1.debian.tar.xz
 66c9a68f6e6363f445d5c2b5caa528bd 96282 non-free/science optional trnascan-se-common_1.3.1-1_all.deb
 9880955a16a384e0a7e26ed0f25f29f2 398706 non-free/debug extra trnascan-se-dbgsym_1.3.1-1_amd64.deb
 7c4c1d31afe0e69a0d960733712c55df 5104 non-free/science optional trnascan-se_1.3.1-1_amd64.buildinfo
 54bb5ea880281fb2d4a3f183c9933d8d 146902 non-free/science optional trnascan-se_1.3.1-1_amd64.deb

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