Re: Should singularity-container make it to next release?

[olivier sallou]

Le mer. 12 oct. 2022 à 18:08, Nilesh Patra  a écrit :

> Hi,
>
> src:singularity-container was lying around in a bad shape for several years
> and had missed 2 debian releases until me and Andreas picked it up again.
> It is currently in a reasonably good condition. I was excited to have it in
> stable release again, but I have a couple of doubts over it.
>
> 1. A little background:
> singularity-container sync the code from the upstream codebase for
> sylabs[1]
> and there also exists a community-maintained fork called apptainer.
> Sylabs singularity CE seems to sync up a lot of code with apptainer in
> many releases. The apptainer community announcement page about the split
> also
> hints towards saying similar stuff, but this is all the more confusing as
> it is
> hard to draw a line b/w them.
> A while back, I found a reddit comment[4] from the current maintainer of
> sylabs
> singularity which has a statement:
>
> | At this point there it appears that Apptainer 1.0 will be very close
> | to SingularityCE 3.9 which we released recently, given
> | the picks from SingularityCE into the code base.
>
> So I am absolutely confused if it makes sense to package apptainer at all
> or
> should I just let it be?
>

for the moment, I would be happy to have singularity itself. Adding its
fork is nice, but mean extra work so I think we should focus on "main" tool
for the moment and see after

>
> 2. The _more_ important question:
> There are CVEs being discovered in singularity-container -- no biggie.
> However, some
> of the CVE fixes are simply _hidden_ from the user view.
> As a concrete example, there was
> a "CVE-2021-33622" opened[5] against singularity-CE, and the only
> information
> upstream provides is that it has been fixed in the 3.7.x of the community
> edition
> but there is no information about _what_ the fix was.
> I tried asking upstream about this but did not get a pin-pointed reply[6]
> and it
> appears that upstream is somewhat discrete about these.
>
> A similar bug has been fixed in the latest release, CVE-2022-39237 here[7]
> but it
> does not say _what_ patch fixes it exactly.
> And the problem is that apptainer has addressed the exact same bug in
> its latest release and they too are un-clear about it[8].
>
> So my fear is that: Once singularity-container hits stable release, and
> there is
> a CVE being found. It'd be a hellhole for me/others to find what exactly
> fixed the CVE (unless it is being clearly stated), and apply that. The only
> option left would be to upgrade the package to fix the CVE and I don't
> know if
> release team would allow that.
>
> And I don't see this problem getting fixed with apptainer as well, since
> there
> are bugs that both the codebases would keep on inheriting from one another.
> And thus I am not sure if this situation is OK for stable release or not.
>

won't be OK for stable release which will expect only security fixes, no
full upgrades
many software do not provide such detailed information, and I agree that
required taskforce to follow CVE details in source code can be quite
complex to obtain (or even not feasible).
You also need knowledge of the tool/language.

Last resort is to keep CVEs open this is the case for different tools
:-(



>
> OTOH, singularity is an important package and many users would be happy to
> have
> it in stable -- I have even got a couple of bug reports/texts saying
> people are happy to see a new update of singularity.
>


+1 for important package for several communities :-)

Olivier



>
> Any opinions?
>
> [1]: https://github.com/sylabs/singularity
> [2]: https://github.com/apptainer/apptainer
> [3]: https://apptainer.org/news/community-announcement-20211130/
> [4]:
> https://www.reddit.com/r/HPC/comments/r61bto/comment/hmspn72/?utm_source=share_medium=web2x=3
> [5]:
> https://support.sylabs.io/support/solutions/articles/4287130-3-5-8-security-release-cve-2021-33622-
> [6]: https://github.com/sylabs/singularity/issues/586
> [7]: https://github.com/sylabs/sif/security/advisories/GHSA-m5m3-46gj-wch8
> [8]: https://github.com/apptainer/apptainer/releases/tag/v1.1.2
>
> --
> Best,
> Nilesh
>

Re: Free open-source ONLYOFFICE Desktop Editors: Compile from source code for Debian repository

[olivier sallou]

Le mar. 19 mai 2020 à 16:48, Kseniya Fedoruk 
a écrit :

> Hi team,
>
> I'm Kseniya from ONLYOFFICE. We are developing open-source office
> applications, including the absolutely free ONLYOFFICE Desktop Editors that
> provide alternatives to MS Office Word, Excel, and PowerPoint distributed
> under GNU AGPL v3.0.
>
> Currently, users can install the suite on various Linux distros from deb,
> rpm, Snap, Flatpak, and AppImage. We often receive requests for the
> native default support. Therefore, we’ve decided to contact you to ask
> about a possible integration of ONLYOFFICE Desktop Editors into Debian.
>
One point you need to know is, for a package to be in debian, package
should not depend on external resources, all resources need to be in Debian.
I got a very quick look at your build script, and it make use of *node
install* commands for example. But in Debian, it means that all needed npm
packages must be already packages (or to be packaged)

It also needs to compile/run with current versions of libraries available.
For example, default jdk in latest debian is jdk11 so user would run
onlyoffice with this version by default.

Olivier



> With the latest version we also released the build tools that allow compiling
> ONLYOFFICE Desktop Editors from source code. Here
> *https://helpcenter.onlyoffice.com/desktop/documents/linux/compile-desktop.aspx*
> 
> you will find an example of compiling the source code for Ubuntu 14.04.
> You can adapt this instruction and compile the source code for any Linux
> OS.
>
> *Why users choose ONLYOFFICE desktop app**?*
>
> *1 pack - 3 editors**.* Users can view, create and edit text documents,
> spreadsheets and presentations of any size and complexity.
>
> *H**igh compatibility with* *Office Open XML**. *OOXML is used as a core
> format which guarantees highest compatibility with DOCX, XLSX, and PPTX.
> Other popular formats such as ODF, CSV, PDF, RTF, TXT, etc. are also
> supported.
>
> *Quick c**onnection to the cloud*. Users are able to connect the editors
> to the cloud of their choice (ONLYOFFICE cloud, Nextcloud, ownCloud) and 
> collaborate
> on docs using real-time and paragraph-locking co-editing modes, track
> changes, comments, built-in chat.
>
> *Familiar** intuitive interface*.* ONLYOFFICE has familiar interface with
> tools grouped into tabs. Users can work with several files within one and
> the same window switching between them, as well as drag-and-drop documents
> to open them in separate windows.
>
> available in 11 languages: English, French, German, **Italian**,
> Spanish, **Russian, **Czech, **Slovak**, **Polish, **Portuguese -
> Brazilian, **Chinese - Simplified**.*
>
> *Rich functionality. *Full set of editing and formatting tools, macros, 
> implementing
> extra functionality with the pre-installed plugins, e.g. Highlight code,
> Translator, Thesaurus, a plugin that allows sending docs as mail
> attachments right from the editor, etc. Open API allows creating and
> adding own plugins.
>
> So, will you be interested in adding ONLYOFFICE Desktop Editors to
> the Debian system so that lots of users get one more office suite option 
> highly
> compatible with OOXML formats and giving access to cloud collaboration?
>
> Useful links for you:
>
> - Official project page: *https://www.onlyoffice.com/desktop.aspx*
> 
>
> - GitHub: *https://github.com/ONLYOFFICE/DesktopEditors*
> 
>
> Please feel free to contact me if you need any further info. I would be
> really glad to get your feedback! Thanks!
>
> Best regards,
>
> Kseniya Fedoruk
>
> Marketing Communications Manager
>
> ONLYOFFICE Team
>
> 
>
> *e-mail: **kseniya.fedo...@onlyoffice.com*
> 
>
> *W: **www.onlyoffice.com*
> 
>

Accepted libchado-perl 1.31-6 (source) into unstable

[Olivier Sallou]

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Date: Thu, 05 Dec 2019 08:35:16 +
Source: libchado-perl
Architecture: source
Version: 1.31-6
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Closes: 939832
Changes:
 libchado-perl (1.31-6) unstable; urgency=medium
 .
   [ Jelmer Vernooij  ]
   * Trim trailing whitespace.
   * Use secure copyright file specification URI.
   [ Olivier Sallou  ]
   * Fix postinstall script for case of USER env var not set (Closes: #939832)
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Accepted biomaj3-download 3.1.0-1 (source) into unstable

[Olivier Sallou]

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Changed-By: Olivier Sallou 
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 biomaj3-download (3.1.0-1) unstable; urgency=medium
 .
   [ Olivier Sallou ]
   * New upstream release
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Accepted biomaj3 3.1.14-1 (source) into unstable

[Olivier Sallou]

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Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
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 biomaj3 (3.1.14-1) unstable; urgency=medium
 .
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Accepted biomaj3-process 3.0.15-1 (source) into unstable

[Olivier Sallou]

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Date: Tue, 12 Nov 2019 10:32:06 +
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Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Changes:
 biomaj3-process (3.0.15-1) unstable; urgency=medium
 .
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Accepted biomaj3-user 3.0.10-1 (source) into unstable

[Olivier Sallou]

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Date: Tue, 12 Nov 2019 10:30:39 +
Source: biomaj3-user
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Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Changes:
 biomaj3-user (3.0.10-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted biomaj3-cli 3.1.11-1 (source) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Tue, 12 Nov 2019 10:37:31 +
Source: biomaj3-cli
Architecture: source
Version: 3.1.11-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Changes:
 biomaj3-cli (3.1.11-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted biomaj3-core 3.0.19-1 (source) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 16 Oct 2019 13:14:38 +
Source: biomaj3-core
Architecture: source
Version: 3.0.19-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Changes:
 biomaj3-core (3.0.19-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted biomaj3-daemon 3.0.20-1 (source) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Tue, 12 Nov 2019 10:34:19 +
Source: biomaj3-daemon
Architecture: source
Version: 3.0.20-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Changes:
 biomaj3-daemon (3.0.20-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted python-ftputil 3.4-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Tue, 30 Jul 2019 09:41:16 +
Source: python-ftputil
Binary: python3-ftputil python-ftputil
Architecture: source all
Version: 3.4-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Python Modules Team 

Changed-By: Olivier Sallou 
Description:
 python-ftputil - high-level FTP client library for Python
 python3-ftputil - high-level FTP client library for Python
Closes: 933390
Changes:
 python-ftputil (3.4-1) unstable; urgency=medium
 .
   [ Olivier Sallou ]
   * Debian package, Closes: #933390
   Keep python2 version package as this package will be a dependency of
   another debian package (biomaj) available both with python2 and 3.
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Accepted python-easydev 0.9.38-2 (source) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 04 Nov 2019 10:22:25 +
Source: python-easydev
Architecture: source
Version: 0.9.38-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Closes: 943912
Changes:
 python-easydev (0.9.38-2) unstable; urgency=medium
 .
   * Source only upload (Closes: #943912).
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Accepted python-easydev 0.9.38-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 28 Oct 2019 15:56:52 +
Source: python-easydev
Binary: python3-easydev
Architecture: source all
Version: 0.9.38-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-easydev - common utilities to ease the development of Python packages 
(Pyth
Closes: 937720
Changes:
 python-easydev (0.9.38-1) unstable; urgency=medium
 .
   * New upstream release (Closes: #937720).
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Accepted ncbi-blast+ 2.9.0-1 (source all amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 11 Sep 2019 07:44:38 +
Source: ncbi-blast+
Binary: blast2 ncbi-blast+ ncbi-blast+-dbgsym ncbi-blast+-legacy
Architecture: source all amd64
Version: 2.9.0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 blast2 - transitional dummy package to ncbi-blast+-legacy
 ncbi-blast+ - next generation suite of BLAST sequence search tools
 ncbi-blast+-legacy - NCBI Blast legacy call script
Changes:
 ncbi-blast+ (2.9.0-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted ngs-sdk 2.10.0-1 (source amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 11 Sep 2019 07:27:49 +
Source: ngs-sdk
Binary: libngs-java libngs-sdk-dev libngs-sdk2 libngs-sdk2-dbgsym python-ngs 
python3-ngs
Architecture: source amd64
Version: 2.10.0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 libngs-java - Next Generation Sequencing language Bindings (Java bindings)
 libngs-sdk-dev - Next Generation Sequencing language Bindings (development)
 libngs-sdk2 - Next Generation Sequencing language Bindings
 python-ngs - Next Generation Sequencing language Bindings (Python bindings)
 python3-ngs - Next Generation Sequencing language Bindings (Python3 bindings)
Changes:
 ngs-sdk (2.10.0-1) unstable; urgency=medium
 .
   [ Olivier Sallou ]
   * New upstream release
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Accepted gkl 0.8.6+dfsg-1 (source amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sun, 10 Mar 2019 14:26:46 +
Source: gkl
Binary: libgkl-java libgkl-jni libgkl-jni-dbgsym
Architecture: source amd64
Version: 0.8.6+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Java Maintainers 

Changed-By: Olivier Sallou 
Description:
 libgkl-java - Java library to manipulate SAM and BAM files
 libgkl-jni - native libraries of Java library to manipulate SAM and BAM files
Changes:
 gkl (0.8.6+dfsg-1) unstable; urgency=medium
 .
   * New upstream release
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libgkl-jni-dbgsym_0.8.6+dfsg-1_amd64.deb
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libgkl-jni_0.8.6+dfsg-1_amd64.deb

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Bug#933390: ITP: python-ftputil -- high level library for python ftp

[olivier sallou]

Package: wnpp
Severity: wishlist
Owner: Olivier Sallou 
X-Debbugs-Cc: debian-devel@lists.debian.org,
python-modules-t...@lists.alioth.debian.org

* Package name: python-ftputil
  Version : 3.4
  Upstream Author : Stefan Schwarzer 
* URL : https://ftputil.sschwarzer.net/trac
* License : BSD
  Programming Lang: Python
  Description : high level library for python ftp

ftputil is a high-level FTP client library for the Python programming
language. ftputil implements a virtual file system for accessing FTP
servers, that is, it can generate file-like objects for remote files.
The library supports many functions similar to those in the os,
os.path and shutil modules. ftputil has convenience functions for
conditional uploads and downloads, and handles FTP clients and servers
in different timezones.

Needed by next release of biomaj package.
-- 

gpg key id: 4096R/326D8438  (keyring.debian.org)

Key fingerprint = 5FB4 6F83 D3B9 5204 6335  D26D 78DC 68DB 326D 8438



-- 

gpg key id: 4096R/326D8438  (keyring.debian.org)

Key fingerprint = 5FB4 6F83 D3B9 5204 6335  D26D 78DC 68DB 326D 8438

Re: buster backports question/status

[olivier sallou]

Le mer. 10 juil. 2019 à 11:35, Andrey Rahmatullin  a
écrit :

> On Wed, Jul 10, 2019 at 11:29:01AM +0200, olivier sallou wrote:
> > I tried a package that is not in backports, it was just for test (for an
> > automation tool I use)
> > It should fail with a *package not found* , but should not fail about
> > buster-backports being non available.
> I don't think the failing command was apt install, but rather apt update?
>

Nope, only at install time, update succeeded.
I though that backport was immediately available with new releases, even if
empty. I understand that is not the case.
I will update my scripts to manage the backports *not available* case.

Anyway, thanks for your anssers.

>
> --
> WBR, wRAR
>


-- 

gpg key id: 4096R/326D8438  (keyring.debian.org)

Key fingerprint = 5FB4 6F83 D3B9 5204 6335  D26D 78DC 68DB 326D 8438

Re: buster backports question/status

[olivier sallou]

Le mer. 10 juil. 2019 à 11:08, Andrey Rahmatullin  a
écrit :

> On Wed, Jul 10, 2019 at 10:54:21AM +0200, olivier sallou wrote:
> > So, am I doing something wrong?
> You tried to install a package (what package? they don't exist) from a
> repo that doesn't exist.
>

I tried a package that is not in backports, it was just for test (for an
automation tool I use)
It should fail with a *package not found* , but should not fail about
buster-backports being non available.

Is the problem linked to buster-backports not existing yet ? Is backports
repo not created automatically on new releases?


> --
> WBR, wRAR
>


-- 

gpg key id: 4096R/326D8438  (keyring.debian.org)

Key fingerprint = 5FB4 6F83 D3B9 5204 6335  D26D 78DC 68DB 326D 8438

buster backports question/status

[olivier sallou]

Hi,
it may be a silly question, but doing some tests on a Debian buster, I got
errors trying to install a package from buster-backports.

I added to sources.list.d info to set buster-backports but i get this error:

E: The value 'buster-backports' is invalid for APT::Default-Release as such
a release is not available in the sources

Looking at https://backports.debian.org, I only see stretch info/links.

As buster is really new, I expect there is no package yet in
buster-backports, but I should not get errors trying to access it. And I am
surprise to not find any reference to it.

So, am I doing something wrong?

Thanks

Olivier

Re: Please help me to create Debian package

[olivier sallou]

Le ven. 5 juil. 2019 à 22:24, himanshu Singh  a
écrit :

> Thanks,
> There is a small problem I'm facing is how to handle the installer bash
> script?
> how can I run it during installation? Its function is to install python
> dependencies,
>

You can't. In packages you specify other debian packages to install, they
must exist in debian.
For other files, during package creation you create/copy files in a a dir
representing the final install (/usr... /var...) and at package install
they are placed in those locations.

There are rules where to place files etc.. in debian package policy.

As it seems it is python based, you should first package your soft as a
python package + desktop files etc...
There are some helpers to package for debian  python packages


creating configuration files and desktop shortcut. Please have a look at it
>
> https://github.com/osdag-admin/UbuntuInstaller/blob/master/2-install-osdag.sh
>
>
>
>
> On Thu, Jul 4, 2019 at 9:53 PM Mindaugas Celiesius 
> wrote:
>
>>
>> Hello. Please check this https://wiki.debian.org/Packaging  and this
>> https://www.debian.org/doc/devel-manuals#packaging-tutorial
>> It is not difficult at all. I think you can do it yourself.
>> --
>>
>>
>
>

Re: Please help me to create Debian package

[olivier sallou]

Le jeu. 4 juil. 2019 à 18:31, Mindaugas Celiesius  a
écrit :

>
>
> > Hi, I am working on a project named Osdag. It is open-source software
> for the design of steel structures. I'm trying to create a Debian package
> for it and planning to add to Debian package repository. It would be a
> great help if someone could create a package for us or help us to create
> that. The stable code is available at
> https://static.fossee.in/osdag/installation-files/Osdag_ubuntu_installer_v2018.06.a.3839.tar.gz
> Our Github repo is https://github.com/osdag-admin Debian package will
> help us to reach out the number of users and help in further improvements
> from their feedback and suggestions. Please help me with this.
>

First step is to check that your dependencies are packaged in debian and
your software works with versions packaged in debian

Olivier

> > Thank you.
> Meow!
>
>
> Hello. Please check this https://wiki.debian.org/Packaging  and this
> https://www.debian.org/doc/devel-manuals#packaging-tutorial
> It is not difficult at all. I think you can do it yourself.
> --
>
>
> ⢀⣴⠾⠻⢶⣦⠀
> ⣾⠁⢠⠒⠀⣿⡁ A dumb species has no way to open a tuna can.
> ⢿⡄⠘⠷⠚⠋⠀ A smart species invents a can opener.
> ⠈⠳⣄ A master species delegates.
>
>
>

Accepted python-irodsclient 0.8.1-1 (source all) into unstable, unstable

[Olivier Sallou]

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Hash: SHA256

Format: 1.8
Date: Sat, 09 Mar 2019 10:13:09 +
Source: python-irodsclient
Binary: python3-irodsclient
Architecture: source all
Version: 0.8.1-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Python Modules Team 

Changed-By: Olivier Sallou 
Description:
 python3-irodsclient - Client API for iRods
Closes: 924086
Changes:
 python-irodsclient (0.8.1-1) unstable; urgency=medium
 .
   * New package (Closes: #924086).
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Accepted cnvkit 0.9.5-3 (source amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 27 Mar 2019 08:00:39 +
Source: cnvkit
Binary: cnvkit
Architecture: source amd64
Version: 0.9.5-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 cnvkit - Copy number variant detection from targeted DNA sequencing
Closes: 925568
Changes:
 cnvkit (0.9.5-3) unstable; urgency=medium
 .
   * Fix buster rebuilds (Closes: #925568)
 d/patches/controldir.patch
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Accepted biomaj3-daemon 3.0.19-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 09 Mar 2019 10:23:28 +
Source: biomaj3-daemon
Binary: python3-biomaj3-daemon
Architecture: source all
Version: 3.0.19-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-daemon - BioMAJ daemon library
Changes:
 biomaj3-daemon (3.0.19-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted biomaj3 3.1.8-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 09 Mar 2019 10:18:52 +
Source: biomaj3
Binary: python3-biomaj3
Architecture: source all
Version: 3.1.8-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3 - BioMAJ workflow management library
Changes:
 biomaj3 (3.1.8-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted biomaj3-process 3.0.13-1 (source all) into unstable

[Olivier Sallou]

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Date: Sat, 09 Mar 2019 10:13:09 +
Source: biomaj3-process
Binary: python3-biomaj3-process
Architecture: source all
Version: 3.0.13-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-process - BioMAJ process management library
Changes:
 biomaj3-process (3.0.13-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted biomaj3-download 3.0.21-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 09 Mar 2019 09:48:16 +
Source: biomaj3-download
Binary: python3-biomaj3-download
Architecture: source all
Version: 3.0.21-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-download - BioMAJ download management library
Changes:
 biomaj3-download (3.0.21-1) unstable; urgency=medium
 .
   * New upstream release
   * d/rules: use DEB_BUILD_MAINT_OPTIONS
   * d/patches: remove irods protocol support as python lib is not
 available in Debian.
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Accepted biomaj3-user 3.0.8-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 09 Mar 2019 08:14:41 +
Source: biomaj3-user
Binary: python3-biomaj3-user
Architecture: source all
Version: 3.0.8-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-user - BioMAJ user management library
Changes:
 biomaj3-user (3.0.8-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted biomaj3-core 3.0.16-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 09 Mar 2019 07:56:51 +
Source: biomaj3-core
Binary: python3-biomaj3-core
Architecture: source all
Version: 3.0.16-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-core - BioMAJ core library - Python 3.X
Changes:
 biomaj3-core (3.0.16-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted biomaj3-core 3.0.15-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Tue, 19 Feb 2019 15:28:26 +
Source: biomaj3-core
Binary: python3-biomaj3-core
Architecture: source all
Version: 3.0.15-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-core - BioMAJ core library - Python 3.X
Changes:
 biomaj3-core (3.0.15-1) unstable; urgency=medium
 .
   * New upstream release (bug fixes)
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Accepted picard-tools 2.18.25+dfsg-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Fri, 25 Jan 2019 10:46:36 +
Source: picard-tools
Binary: libpicard-java libpicard-java-doc picard-tools
Architecture: source all
Version: 2.18.25+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 libpicard-java - Java library to manipulate SAM and BAM files
 libpicard-java-doc - Documentation for the java picard library
 picard-tools - Command line tools to manipulate SAM and BAM files
Changes:
 picard-tools (2.18.25+dfsg-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted picard-tools 2.18.23+dfsg-2 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 17 Jan 2019 15:54:27 +
Source: picard-tools
Binary: picard-tools libpicard-java libpicard-java-doc
Architecture: source all
Version: 2.18.23+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 libpicard-java - Java library to manipulate SAM and BAM files
 libpicard-java-doc - Documentation for the java picard library
 picard-tools - Command line tools to manipulate SAM and BAM files
Closes: 919559
Changes:
 picard-tools (2.18.23+dfsg-2) unstable; urgency=medium
 .
   * Fix Class-Path in manifest file for dependencies  (Closes: #919559).
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Accepted gkl 0.8.5+dfsg-2 (source amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 17 Jan 2019 11:12:57 +
Source: gkl
Binary: libgkl-java libgkl-jni
Architecture: source amd64
Version: 0.8.5+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Java Maintainers 

Changed-By: Olivier Sallou 
Description:
 libgkl-java - Java library to manipulate SAM and BAM files
 libgkl-jni - native libraries of Java library to manipulate SAM and BAM files
Closes: 912251
Changes:
 gkl (0.8.5+dfsg-2) unstable; urgency=medium
 .
   * Set arch for package (Closes: #912251).
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Accepted barclay 2.1.0-3 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 17 Jan 2019 09:37:52 +
Source: barclay
Binary: libbarclay-java
Architecture: source all
Version: 2.1.0-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Java Maintainers 

Changed-By: Olivier Sallou 
Description:
 libbarclay-java - Java library to parse command line
Closes: 906973
Changes:
 barclay (2.1.0-3) unstable; urgency=medium
 .
   * Fix FTBS tests (Closes: #906973).
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Accepted htsjdk 2.16.1+dfsg-3 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Fri, 16 Nov 2018 11:06:41 +
Source: htsjdk
Binary: libhtsjdk-java libhtsjdk-java-doc
Architecture: source all
Version: 2.16.1+dfsg-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 libhtsjdk-java - Java API for high-throughput sequencing data (HTS) formats
 libhtsjdk-java-doc - Documentation for the java HTSJDK library
Closes: 913839
Changes:
 htsjdk (2.16.1+dfsg-3) unstable; urgency=medium
 .
   * Fix FTBS on debian test servers due to ip/name resolution
 Remove related test. Closes: #913839
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Accepted htsjdk 2.16.1+dfsg-2 (source all) into unstable

[Olivier Sallou]

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Hash: SHA256

Format: 1.8
Date: Mon, 12 Nov 2018 15:38:32 +
Source: htsjdk
Binary: libhtsjdk-java libhtsjdk-java-doc
Architecture: source all
Version: 2.16.1+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 libhtsjdk-java - Java API for high-throughput sequencing data (HTS) formats
 libhtsjdk-java-doc - Documentation for the java HTSJDK library
Closes: 913566
Changes:
 htsjdk (2.16.1+dfsg-2) unstable; urgency=medium
 .
   * Fix FTBS with OpenJDK 11 (Closes: #913566)
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Accepted igv 2.4.14+dfsg-2 (source all) into unstable

[Olivier Sallou]

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Format: 1.8
Date: Tue, 23 Oct 2018 14:55:18 +0200
Source: igv
Binary: igv
Architecture: source all
Version: 2.4.14+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 igv- Integrative Genomics Viewer
Closes: 895765
Changes:
 igv (2.4.14+dfsg-2) unstable; urgency=medium
 .
   [ Olivier Sallou ]
   fix for FTBS openjdk 11, Closes: #895765
 - thanks to Markus Koschany 
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Accepted rdp-readseq 2.0.2-6 (source all) into unstable

[Olivier Sallou]

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Format: 1.8
Date: Thu, 08 Nov 2018 11:00:18 +
Source: rdp-readseq
Binary: rdp-readseq
Architecture: source all
Version: 2.0.2-6
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 rdp-readseq - Ribosomal Database Project (RDP) sequence reading and writing
Changes:
 rdp-readseq (2.0.2-6) unstable; urgency=medium
 .
   * Fix Uploaders lint errors
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Accepted rdp-classifier 2.10.2-4 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 05 Nov 2018 10:20:57 +
Source: rdp-classifier
Binary: rdp-classifier rdp-classifier-doc
Architecture: source all
Version: 2.10.2-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 rdp-classifier - extensible sequence classifier for fungal lsu, bacterial and 
arch
 rdp-classifier-doc - documentation and examples for rdp-classifier
Changes:
 rdp-classifier (2.10.2-4) unstable; urgency=medium
 .
   * Fix openjdk 11 FTBS (java.se.ee deprecated in jdk 11) Closes #912385
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Accepted rdp-readseq 2.0.2-5 (source all) into unstable

[Olivier Sallou]

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Hash: SHA256

Format: 1.8
Date: Mon, 05 Nov 2018 09:05:50 +
Source: rdp-readseq
Binary: rdp-readseq
Architecture: source all
Version: 2.0.2-5
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 rdp-readseq - Ribosomal Database Project (RDP) sequence reading and writing
Changes:
 rdp-readseq (2.0.2-5) unstable; urgency=medium
 .
   * Fix openjdk 11 compilation, Closes #912386
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Accepted rdp-alignment 1.2.0-5 (source all) into unstable

[Olivier Sallou]

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Date: Mon, 05 Nov 2018 08:46:01 +
Source: rdp-alignment
Binary: rdp-alignment
Architecture: source all
Version: 1.2.0-5
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 rdp-alignment - Ribosomal Database Project (RDP) alignment tools package
Changes:
 rdp-alignment (1.2.0-5) unstable; urgency=medium
 .
   * Add jaxb jars in classpath, Closes #912388
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Accepted python-py-zipkin 0.15.0-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 25 Oct 2018 09:41:16 +
Source: python-py-zipkin
Binary: python3-py-zipkin
Architecture: source all
Version: 0.15.0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Python Modules Team 

Changed-By: Olivier Sallou 
Description:
 python3-py-zipkin - Library for using Zipkin in Python
Changes:
 python-py-zipkin (0.15.0-1) unstable; urgency=medium
 .
   [ Ondřej Nový ]
   * d/control: Set Vcs-* to salsa.debian.org
   * d/copyright: Use https protocol in Format field
 .
   [ Olivier Sallou ]
   * New upstream release
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Accepted biomaj3-daemon 3.0.17-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 25 Oct 2018 09:23:42 +
Source: biomaj3-daemon
Binary: python3-biomaj3-daemon
Architecture: source all
Version: 3.0.17-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-daemon - BioMAJ daemon library
Changes:
 biomaj3-daemon (3.0.17-1) unstable; urgency=medium
 .
   [ Jelmer Vernooij ]
   * Use secure copyright file specification URI.
   * Trim trailing whitespace.
 .
   [ Olivier Sallou ]
   * New upstream release
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Accepted biomaj3-cli 3.1.10-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 25 Oct 2018 09:26:51 +
Source: biomaj3-cli
Binary: python3-biomaj3-cli
Architecture: source all
Version: 3.1.10-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-cli - BioMAJ client
Changes:
 biomaj3-cli (3.1.10-1) unstable; urgency=medium
 .
   [ Jelmer Vernooij ]
   * Use secure copyright file specification URI.
 .
   [ Olivier Sallou ]
   * New upstream release
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Accepted biomaj3-process 3.0.11-1 (source all) into unstable

[Olivier Sallou]

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Format: 1.8
Date: Thu, 25 Oct 2018 09:08:51 +
Source: biomaj3-process
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Architecture: source all
Version: 3.0.11-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-process - BioMAJ process management library
Changes:
 biomaj3-process (3.0.11-1) unstable; urgency=medium
 .
   [ Jelmer Vernooij ]
   * Use secure copyright file specification URI.
   * Trim trailing whitespace.
 .
   [ Olivier Sallou ]
   * New upstream release
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Accepted biomaj3-core 3.0.14-1 (source all) into unstable

[Olivier Sallou]

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Hash: SHA256

Format: 1.8
Date: Thu, 25 Oct 2018 09:13:09 +
Source: biomaj3-core
Binary: python3-biomaj3-core
Architecture: source all
Version: 3.0.14-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-core - BioMAJ core library - Python 3.X
Changes:
 biomaj3-core (3.0.14-1) unstable; urgency=medium
 .
   [ Jelmer Vernooij ]
   * Use secure copyright file specification URI.
   * Trim trailing whitespace.
 .
   [ Olivier Sallou ]
   * New upstream release
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Accepted biomaj3 3.1.6-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 25 Oct 2018 09:18:06 +
Source: biomaj3
Binary: python3-biomaj3
Architecture: source all
Version: 3.1.6-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3 - BioMAJ workflow management library
Changes:
 biomaj3 (3.1.6-1) unstable; urgency=medium
 .
   [ Jelmer Vernooij ]
   * Use secure copyright file specification URI.
 .
   [ Olivier Sallou ]
   * New upstream release
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Accepted biomaj3-download 3.0.18-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 25 Oct 2018 08:52:07 +
Source: biomaj3-download
Binary: python3-biomaj3-download
Architecture: source all
Version: 3.0.18-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 python3-biomaj3-download - BioMAJ download management library
Changes:
 biomaj3-download (3.0.18-1) unstable; urgency=medium
 .
   [ Jelmer Vernooij ]
   * Use secure copyright file specification URI.
   * Trim trailing whitespace.
 .
   [ Olivier Sallou ]
   * New upstream release
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Accepted cassiopee 1.0.9-1 (source amd64 all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 23 Aug 2018 06:40:56 +
Source: cassiopee
Binary: cassiopee libcassie-doc libcassie1v5 libcassie-dev
Architecture: source amd64 all
Version: 1.0.9-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 cassiopee  - index and search tool in genomic sequences
 libcassie-dev - library and headers for development
 libcassie-doc - documentation for cassiopee library
 libcassie1v5 - library implementating search algorithms
Changes:
 cassiopee (1.0.9-1) unstable; urgency=medium
 .
   * New upstream release
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cassiopee_1.0.9.orig.tar.gz
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cassiopee_1.0.9-1.debian.tar.xz
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cassiopee-dbgsym_1.0.9-1_amd64.deb
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cassiopee_1.0.9-1_amd64.buildinfo
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cassiopee_1.0.9-1_amd64.deb
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libcassie-dev_1.0.9-1_amd64.deb
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libcassie-doc_1.0.9-1_all.deb
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libcassie1v5-dbgsym_1.0.9-1_amd64.deb
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libcassie1v5_1.0.9-1_amd64.deb

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Accepted cassiopee 1.0.8-2 (source amd64 all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Tue, 14 Aug 2018 13:43:12 +
Source: cassiopee
Binary: cassiopee libcassie-doc libcassie1v5 libcassie-dev
Architecture: source amd64 all
Version: 1.0.8-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 cassiopee  - index and search tool in genomic sequences
 libcassie-dev - library and headers for development
 libcassie-doc - documentation for cassiopee library
 libcassie1v5 - library implementating search algorithms
Changes:
 cassiopee (1.0.8-2) unstable; urgency=medium
 .
   * Fix libcassie-dev, wrong location for includes
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cassiopee_1.0.8-2_amd64.deb
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libcassie-dev_1.0.8-2_amd64.deb
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libcassie1v5-dbgsym_1.0.8-2_amd64.deb
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Accepted gatk-native-bindings 1.0.0-2 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 06 Aug 2018 07:42:21 +
Source: gatk-native-bindings
Binary: libgatk-native-bindings-java
Architecture: source all
Version: 1.0.0-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Java Maintainers 

Changed-By: Olivier Sallou 
Description:
 libgatk-native-bindings-java - library for gatk and picard-tools
Changes:
 gatk-native-bindings (1.0.0-2) unstable; urgency=medium
 .
   * Upload to unstable
   * Enable unit tests after jcommander fix
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Accepted barclay 2.1.0-2 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 06 Aug 2018 07:57:44 +
Source: barclay
Binary: libbarclay-java
Architecture: source all
Version: 2.1.0-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Java Maintainers 

Changed-By: Olivier Sallou 
Description:
 libbarclay-java - Java library to parse command line
Changes:
 barclay (2.1.0-2) unstable; urgency=medium
 .
   * Upload to unstable
   * Enable unit tests
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Accepted htsjdk 2.14.3+dfsg-3 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 06 Aug 2018 07:03:33 +
Source: htsjdk
Binary: libhtsjdk-java libhtsjdk-java-doc
Architecture: source all
Version: 2.14.3+dfsg-3
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 libhtsjdk-java - Java API for high-throughput sequencing data (HTS) formats
 libhtsjdk-java-doc - Documentation for the java HTSJDK library
Changes:
 htsjdk (2.14.3+dfsg-3) unstable; urgency=medium
 .
   * Reintroduce unit tests after jcommander fix
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Accepted gkl 0.8.5+dfsg-1 (source all amd64) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 03 May 2018 15:06:19 +
Source: gkl
Binary: libgkl-java libgkl-jni
Architecture: source all amd64
Version: 0.8.5+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Java Maintainers 

Changed-By: Olivier Sallou 
Description:
 libgkl-java - Java library to manipulate SAM and BAM files
 libgkl-jni - native libraries of Java library to manipulate SAM and BAM files
Closes: 897614
Changes:
 gkl (0.8.5+dfsg-1) unstable; urgency=medium
 .
   * New package (Closes: #897614)
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Accepted logol 1.7.8-2 (source amd64 all) into unstable

[Olivier Sallou]

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Hash: SHA256

Format: 1.8
Date: Fri, 01 Jun 2018 09:23:38 +
Source: logol
Binary: logol logol-bin
Architecture: source amd64 all
Version: 1.7.8-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 

Changed-By: Olivier Sallou 
Description:
 logol  - Pattern matching tool using Logol language
 logol-bin  - Pattern matching tool using Logol language
Closes: 804579
Changes:
 logol (1.7.8-2) unstable; urgency=medium
 .
   * Remove ncurses dependency (Closes: #804579)
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Accepted barclay 2.1.0-1 (source all) into experimental, experimental

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 03 May 2018 09:21:15 +
Source: barclay
Binary: libbarclay-java
Architecture: source all
Version: 2.1.0-1
Distribution: experimental
Urgency: medium
Maintainer: Debian Java Maintainers 
<pkg-java-maintain...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 libbarclay-java - Java library to parse command line
Closes: 873847
Changes:
 barclay (2.1.0-1) experimental; urgency=medium
 .
   * New package for barclay (Closes: #873847)
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Accepted gatk-native-bindings 1.0.0-1 (source all) into experimental, experimental

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 03 May 2018 13:37:17 +
Source: gatk-native-bindings
Binary: libgatk-native-bindings-java
Architecture: source all
Version: 1.0.0-1
Distribution: experimental
Urgency: medium
Maintainer: Debian Java Maintainers 
<pkg-java-maintain...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 libgatk-native-bindings-java - library for gatk and picard-tools
Closes: 897610
Changes:
 gatk-native-bindings (1.0.0-1) experimental; urgency=medium
 .
   [ Olivier Sallou ]
   * New package (Closes: #897610)
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Re: Please do not drop Python 2 modules

[olivier sallou]

Le mer. 25 avr. 2018 01:54, Nicholas D Steeves  a
écrit :

> On Tue, Apr 24, 2018 at 12:29:54AM +0200, Thomas Goirand wrote:
> > On 04/21/2018 11:19 PM, Scott Kitterman wrote:
> > > Since we are supporting Python2 in the next release, there is no
> value> in dumping python-* packages now. Unlike many areas of the archive,
> > > Python packages are actively used by third-party code that isn't and
> > > won't be in Debian.
> >
> > There's always value to start de-crufting legacy stuff early. That being
> > said, I hear your message: this is breaking 3rd party code, and we need
> > to keep this in mind.
> >
> > > I'm generally in favor of getting rid of old stuff, but python2 isn't
> > > there yet.
> >
> > Right. But I do believe we need to be very careful to not send a wrong
> > message to our users. Debian deprecating Python 2 is good. A strong,
> > bold deprecation message is needed, even if we want to continue
> > supporting Python 2 for a bit more.
>
> At what stage should Python IDEs uploaded to NEW disable or not
> install Python 2 support?  Now?
>
> Should Python 2-specific IDEs and/or Python 2-specific educational
> materials be removed from the archive?  If so, then when?
>
> Andreas, I've CCed you because we've been in touch in the past, and
> because I have friends who do graduate work in bioinformatics on
> Debian systems.  With the upcoming end of Python 2 in Debian, what can
> we do to avoid losing them to CentOS?  Also, if appropriate and if it
> wouldn't be too much work, does Debian have a role in encouraging
> new masters and PhD candidates to choose Python 3?
>

I do not see your point here. Regarding education, using python 2 or 3
should be transparent. The matter is only to have the expected
programs/libraries available in python3. The only issue would be for
students not to have their favorite program available.
Anyway, py2 will not be supported anymore at some time...
Olivier



> Sincerely,
> Nicholas
>

Re: Please do not drop Python 2 modules

[olivier sallou]

Le sam. 21 avr. 2018 20:04, Chris Lamb  a écrit :

> Adrian Bunk wrote:
>
> > The tip of the iceberg are some recent cases where Python 2 modules
> > were dropped that still had reverse dependencies in unstable
>
> I suspect developers may be reading too much into Lintian output,
> reading them as "Please remove your Python 2.x module".
>
> The motivating behind these tags were to prevent new Python 2.x
> packages being added to the archive (due to habit if anything
> else!) unless they were needed or requested, of course.
>

Indeed, python 2 modules are not forbidden, but NEW packages are *expected*
to provide python 3 plus optionally python 2 support, not python 2 only.
But good reasons would allow package to be accepted anyway.
I think that warning is really to hint users to go to python 3 which should
be default now

Olivier

>
> Suggestions for rewording gratefully received.
>
>
> Regards,
>
> --
>   ,''`.
>  : :'  : Chris Lamb
>  `. `'`  la...@debian.org / chris-lamb.co.uk
>`-
>
>

Accepted cassiopee 1.0.8-1 (source amd64 all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 12 Apr 2018 11:32:39 +
Source: cassiopee
Binary: cassiopee libcassie-doc libcassie1v5 libcassie-dev
Architecture: source amd64 all
Version: 1.0.8-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 cassiopee  - index and search tool in genomic sequences
 libcassie-dev - library and headers for development
 libcassie-doc - documentation for cassiopee library
 libcassie1v5 - library implementating search algorithms
Changes:
 cassiopee (1.0.8-1) unstable; urgency=medium
 .
   * New upstream release (bug fixes)
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cassiopee_1.0.8.orig.tar.gz
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cassiopee_1.0.8-1.debian.tar.xz
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cassiopee-dbgsym_1.0.8-1_amd64.deb
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cassiopee_1.0.8-1_amd64.buildinfo
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cassiopee_1.0.8-1_amd64.deb
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libcassie-dev_1.0.8-1_amd64.deb
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libcassie-doc_1.0.8-1_all.deb
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libcassie1v5-dbgsym_1.0.8-1_amd64.deb
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libcassie1v5_1.0.8-1_amd64.deb

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Accepted logol 1.7.8-1 (source amd64 all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 04 Apr 2018 13:33:57 +
Source: logol
Binary: logol logol-bin
Architecture: source amd64 all
Version: 1.7.8-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 logol  - Pattern matching tool using Logol language
 logol-bin  - Pattern matching tool using Logol language
Changes:
 logol (1.7.8-1) unstable; urgency=medium
 .
   * New upstream release (bug fixes)
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logol_1.7.8.orig.tar.bz2
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logol_1.7.8-1.debian.tar.xz
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logol-bin_1.7.8-1_amd64.deb
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Accepted ncbi-blast+ 2.7.1-1 (source all amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 10 Feb 2018 17:35:31 +
Source: ncbi-blast+
Binary: ncbi-blast+ ncbi-blast+-legacy blast2
Architecture: source all amd64
Version: 2.7.1-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 blast2 - transitional dummy package to ncbi-blast+-legacy
 ncbi-blast+ - next generation suite of BLAST sequence search tools
 ncbi-blast+-legacy - NCBI Blast legacy call script
Changes:
 ncbi-blast+ (2.7.1-1) unstable; urgency=medium
 .
   * New upstream release
 d/patches: update patch for new release
 d/control:
   go to standards 4.1.3
   add mbedtls dependency
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ncbi-blast+_2.7.1-1.debian.tar.xz
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ncbi-blast+_2.7.1-1_amd64.buildinfo
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ncbi-blast+_2.7.1-1_amd64.deb

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Accepted biomaj3-core 3.0.11-2 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sun, 11 Feb 2018 11:49:53 +
Source: biomaj3-core
Binary: python3-biomaj3-core
Architecture: source all
Version: 3.0.11-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-core - BioMAJ core library - Python 3.X
Closes: 890123
Changes:
 biomaj3-core (3.0.11-2) unstable; urgency=medium
 .
   * Add missing build-dep  (Closes: #890123).
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Accepted biojava4-live 4.2.11+dfsg-1 (source all) into unstable

[Olivier Sallou]

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Format: 1.8
Date: Sat, 10 Feb 2018 17:49:11 +
Source: biojava4-live
Binary: libbiojava4.0-java libbiojava4-java libbiojava4-java-doc
Architecture: source all
Version: 4.2.11+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 libbiojava4-java - Java API to biological data and applications (default 
version)
 libbiojava4-java-doc - [Biology] Documentation for BioJava
 libbiojava4.0-java - Java API to biological data and applications (version 4)
Changes:
 biojava4-live (4.2.11+dfsg-1) unstable; urgency=medium
 .
   * New upstream release
 d/control: move standards to 4.1.3
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biojava4-live_4.2.11+dfsg-1_amd64.buildinfo
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libbiojava4-java_4.2.11+dfsg-1_all.deb
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Accepted biomaj3-cli 3.1.9-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 10 Feb 2018 17:19:55 +
Source: biomaj3-cli
Binary: python3-biomaj3-cli
Architecture: source all
Version: 3.1.9-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-cli - BioMAJ client
Changes:
 biomaj3-cli (3.1.9-1) unstable; urgency=medium
 .
   * New upstream release
 d/control: switch to 4.1.3
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biomaj3-cli_3.1.9-1_amd64.buildinfo
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Accepted biomaj3-daemon 3.0.14-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 10 Feb 2018 17:04:18 +
Source: biomaj3-daemon
Binary: python3-biomaj3-daemon
Architecture: source all
Version: 3.0.14-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-daemon - BioMAJ daemon library
Changes:
 biomaj3-daemon (3.0.14-1) unstable; urgency=medium
 .
   * New upstream release
 d/control: move to standards 4.1.3
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Accepted biomaj3-download 3.0.14-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 10 Feb 2018 17:13:54 +
Source: biomaj3-download
Binary: python3-biomaj3-download
Architecture: source all
Version: 3.0.14-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-download - BioMAJ download management library
Changes:
 biomaj3-download (3.0.14-1) unstable; urgency=medium
 .
   * New upstream release
 d/control: switch to standards 4.1.3
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Accepted biomaj3-core 3.0.11-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 10 Feb 2018 17:10:37 +
Source: biomaj3-core
Binary: python3-biomaj3-core
Architecture: source all
Version: 3.0.11-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-core - BioMAJ core library - Python 3.X
Changes:
 biomaj3-core (3.0.11-1) unstable; urgency=medium
 .
   * New upstream release
 d/control: switch to standards 4.1.3
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Accepted biomaj3-process 3.0.10-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 10 Feb 2018 17:17:55 +
Source: biomaj3-process
Binary: python3-biomaj3-process
Architecture: source all
Version: 3.0.10-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-process - BioMAJ process management library
Changes:
 biomaj3-process (3.0.10-1) unstable; urgency=medium
 .
   * New upstream release
 d/control: switch to 4.1.3
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biomaj3-process_3.0.10-1.dsc
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biomaj3-process_3.0.10.orig.tar.xz
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biomaj3-process_3.0.10-1.debian.tar.xz
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biomaj3-process_3.0.10-1_amd64.buildinfo
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Accepted cassiopee 1.0.7-1 (source amd64 all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 11 Dec 2017 08:53:05 +
Source: cassiopee
Binary: cassiopee libcassie-doc libcassie1v5 libcassie-dev
Architecture: source amd64 all
Version: 1.0.7-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 cassiopee  - index and search tool in genomic sequences
 libcassie-dev - library and headers for development
 libcassie-doc - documentation for cassiopee library
 libcassie1v5 - library implementating search algorithms
Changes:
 cassiopee (1.0.7-1) unstable; urgency=medium
 .
   * New upstream release (bug fixes)
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cassiopee_1.0.7.orig.tar.gz
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cassiopee_1.0.7-1.debian.tar.xz
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cassiopee-dbgsym_1.0.7-1_amd64.deb
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cassiopee_1.0.7-1_amd64.buildinfo
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cassiopee_1.0.7-1_amd64.deb
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libcassie-dev_1.0.7-1_amd64.deb
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libcassie-doc_1.0.7-1_all.deb
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libcassie1v5-dbgsym_1.0.7-1_amd64.deb
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libcassie1v5_1.0.7-1_amd64.deb

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Accepted logol 1.7.7-1 (source amd64 all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Fri, 08 Dec 2017 08:54:52 +
Source: logol
Binary: logol logol-bin
Architecture: source amd64 all
Version: 1.7.7-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 logol  - Pattern matching tool using Logol language
 logol-bin  - Pattern matching tool using Logol language
Changes:
 logol (1.7.7-1) unstable; urgency=medium
 .
   * New upstream release (bug fixes)
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logol_1.7.7-1.debian.tar.xz
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logol-bin_1.7.7-1_amd64.deb
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Accepted logol 1.7.6-1 (source amd64 all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 07 Dec 2017 16:51:33 +
Source: logol
Binary: logol logol-bin
Architecture: source amd64 all
Version: 1.7.6-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 logol  - Pattern matching tool using Logol language
 logol-bin  - Pattern matching tool using Logol language
Changes:
 logol (1.7.6-1) unstable; urgency=medium
 .
   * New upstream release
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logol-bin_1.7.6-1_amd64.deb
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Accepted visp-images 3.1.0-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 06 Dec 2017 08:28:09 +
Source: visp-images
Binary: visp-images-data
Architecture: source all
Version: 3.1.0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Science Maintainers 
<debian-science-maintain...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 visp-images-data - visual servoing library - dataset reference files
Changes:
 visp-images (3.1.0-1) unstable; urgency=medium
 .
   * Update debian policy to the latest 4.1.1
   * Set priority as optional to prevent lintian warning
 Override says science - optional, .deb says science - extra
   * Update watch to detect visp-images 3.1.0 in
 https://visp-doc.inria.fr/download/dataset
   * New upstream version 3.1.0
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visp-images-data_3.1.0-1_all.deb
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Accepted biomaj3-daemon 3.0.12-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 17 Aug 2017 09:59:28 +
Source: biomaj3-daemon
Binary: python3-biomaj3-daemon
Architecture: source all
Version: 3.0.12-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-daemon - BioMAJ daemon library
Closes: 872449
Changes:
 biomaj3-daemon (3.0.12-1) unstable; urgency=low
 .
   * First packaging of biomaj-daemon (Closes: #872449).
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Accepted biomaj3-user 3.0.6-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
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Format: 1.8
Date: Thu, 17 Aug 2017 09:59:28 +
Source: biomaj3-user
Binary: python3-biomaj3-user
Architecture: source all
Version: 3.0.6-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-user - BioMAJ user management library
Closes: 872445
Changes:
 biomaj3-user (3.0.6-1) unstable; urgency=low
 .
   * First packaging of biomaj-user (Closes: #872445).
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Accepted biomaj3-download 3.0.13-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 17 Aug 2017 09:59:28 +
Source: biomaj3-download
Binary: python3-biomaj3-download
Architecture: source all
Version: 3.0.13-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-download - BioMAJ download management library
Closes: 872446
Changes:
 biomaj3-download (3.0.13-1) unstable; urgency=low
 .
   * First packaging of biomaj-download (Closes: #872446).
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Accepted biomaj3-process 3.0.8-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 17 Aug 2017 09:59:28 +
Source: biomaj3-process
Binary: python3-biomaj3-process
Architecture: source all
Version: 3.0.8-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-process - BioMAJ process management library
Closes: 872447
Changes:
 biomaj3-process (3.0.8-1) unstable; urgency=low
 .
   * First packaging of biomaj-process (Closes: #872447)
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Accepted biomaj3-core 3.0.9-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 07 Aug 2017 09:37:05 +
Source: biomaj3-core
Binary: python3-biomaj3-core
Architecture: source all
Version: 3.0.9-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-core - BioMAJ core library - Python 3.X
Closes: 872409
Changes:
 biomaj3-core (3.0.9-1) unstable; urgency=low
 .
   * First packaging of biomaj-core (Closes: #872409).
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biomaj3-core_3.0.9.orig.tar.xz
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biomaj3-core_3.0.9-1.debian.tar.xz
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biomaj3-core_3.0.9-1_amd64.buildinfo
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Accepted biomaj3 3.1.3-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 17 Aug 2017 09:59:28 +
Source: biomaj3
Binary: python3-biomaj3
Architecture: source all
Version: 3.1.3-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3 - BioMAJ workflow management library
Closes: 872451
Changes:
 biomaj3 (3.1.3-1) unstable; urgency=low
 .
   * First packaging of biomaj (Closes: #872451).
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biomaj3_3.1.3.orig.tar.xz
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biomaj3_3.1.3-1.debian.tar.xz
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biomaj3_3.1.3-1_amd64.buildinfo
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Accepted biomaj3-cli 3.1.7-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Thu, 17 Aug 2017 09:59:28 +
Source: biomaj3-cli
Binary: python3-biomaj3-cli
Architecture: source all
Version: 3.1.7-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-cli - BioMAJ client
Closes: 872450
Changes:
 biomaj3-cli (3.1.7-1) unstable; urgency=low
 .
   * First packaging of biomaj-cli (Closes: #872450).
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Accepted biomaj3-zipkin 0.2.2-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 07 Aug 2017 09:37:05 +
Source: biomaj3-zipkin
Binary: python3-biomaj3-zipkin
Architecture: source all
Version: 0.2.2-1
Distribution: unstable
Urgency: low
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-biomaj3-zipkin - BioMAJ zipkin log tracing library
Closes: 872444
Changes:
 biomaj3-zipkin (0.2.2-1) unstable; urgency=low
 .
   * First packaging of biomaj-zipkin (Closes: #872444).
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Accepted htsjdk 2.8.1+dfsg-2 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 01 Nov 2017 09:25:25 +
Source: htsjdk
Binary: libhtsjdk-java libhtsjdk-java-doc
Architecture: source all
Version: 2.8.1+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 libhtsjdk-java - Java API for high-throughput sequencing data (HTS) formats
 libhtsjdk-java-doc - Documentation for the java HTSJDK library
Changes:
 htsjdk (2.8.1+dfsg-2) unstable; urgency=medium
 .
   * d/patches/50-fix-build.patch, d/rules: fix testng declaration and disable
 unit testing due to gradle bug that will be fixed by gradle 3.4
 => lower severity of #877590
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Accepted rdp-classifier 2.10.2-2 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Fri, 15 Sep 2017 13:25:30 +
Source: rdp-classifier
Binary: rdp-classifier rdp-classifier-doc
Architecture: source all
Version: 2.10.2-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 rdp-classifier - extensible sequence classifier for fungal lsu, bacterial and 
arch
 rdp-classifier-doc - documentation and examples for rdp-classifier
Closes: 875789
Changes:
 rdp-classifier (2.10.2-2) unstable; urgency=medium
 .
   * Team upload
 .
   [ Olivier Sallou ]
   * d/control,d/junit.xml: fixes for Java 9 compilation (Closes: #875789).
   * debian/bin/rdp_classifier: add optional env variable JAVA_OPTS
 to java command line
 .
   [ Andreas Tille ]
   * Move packaging from SVN to Git
   * debhelper 10
   * cme fix dpkg-control
   * Standards-Version: 4.1.0 (no changes needed)
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Accepted biojava4-live 4.2.7+dfsg-2 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 11 Sep 2017 07:45:17 +
Source: biojava4-live
Binary: libbiojava4.0-java libbiojava4-java libbiojava4-java-doc
Architecture: source all
Version: 4.2.7+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 libbiojava4-java - Java API to biological data and applications (default 
version)
 libbiojava4-java-doc - [Biology] Documentation for BioJava
 libbiojava4.0-java - Java API to biological data and applications (version 4)
Closes: 875334
Changes:
 biojava4-live (4.2.7+dfsg-2) unstable; urgency=medium
 .
   * Fix openjdk 1.8/1.9 compilation/testing (Closes: #875334).
   * d/control: switch policy to 4.0.0
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Accepted python-py-zipkin 0.9.0-2 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Fri, 18 Aug 2017 06:54:38 +
Source: python-py-zipkin
Binary: python3-py-zipkin
Architecture: source all
Version: 0.9.0-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Python Modules Team 
<python-modules-t...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-py-zipkin - Library for using Zipkin in Python
Closes: 873654
Changes:
 python-py-zipkin (0.9.0-2) unstable; urgency=medium
 .
   * d/control: fix maintainers to set python module team
fix Vcs links
   * d/copyright: Add Twitter licensing info (Closes: #873654).
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Accepted python-thriftpy 0.3.9-1 (source amd64) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 16 Aug 2017 13:01:18 +
Source: python-thriftpy
Binary: python3-thriftpy
Architecture: source amd64
Version: 0.3.9-1
Distribution: unstable
Urgency: low
Maintainer: Debian Python Modules Team 
<python-modules-t...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-thriftpy - Pure Python implementation of Apache Thrift
Closes: 872343
Changes:
 python-thriftpy (0.3.9-1) unstable; urgency=low
 .
   * First packaging of thriftpy module (Closes: #872343).
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Accepted python-py-zipkin 0.9.0-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 16 Aug 2017 12:51:25 +
Source: python-py-zipkin
Binary: python3-py-zipkin
Architecture: source all
Version: 0.9.0-1
Distribution: unstable
Urgency: low
Maintainer: Olivier Sallou <osal...@debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-py-zipkin - Library for using Zipkin in Python
Closes: 872344
Changes:
 python-py-zipkin (0.9.0-1) unstable; urgency=low
 .
   * First packaging of py-zipkin (Closes: #872344).
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python-py-zipkin_0.9.0.orig.tar.gz
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python-py-zipkin_0.9.0-1_amd64.buildinfo
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Accepted python-consul 0.7.1-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 07 Aug 2017 09:37:05 +
Source: python-consul
Binary: python3-consul
Architecture: source all
Version: 0.7.1-1
Distribution: unstable
Urgency: low
Maintainer: Debian Python Modules Team 
<python-modules-t...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 python3-consul - Python client for Consul.io - Python 3.X
Closes: 826550
Changes:
 python-consul (0.7.1-1) unstable; urgency=low
 .
   * First packaging of python-consul (Closes: #826550).
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python-consul_0.7.1-1.debian.tar.xz
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python-consul_0.7.1-1_amd64.buildinfo
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Accepted biomaj-watcher 1.2.2-5 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 28 Jun 2017 11:21:57 +
Source: biomaj-watcher
Binary: biomaj-watcher
Architecture: source all
Version: 1.2.2-5
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 biomaj-watcher - biological data-bank updater - web interface
Closes: 866066
Changes:
 biomaj-watcher (1.2.2-5) unstable; urgency=medium
 .
   * Team upload.
   * Add slf4j libraries required by libquartz-java to the webapp
 (Closes: #866066)  Thanks to tmanc...@debian.org
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Accepted bedops 2.4.26+dfsg-1 (source amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 21 Jun 2017 12:03:13 +
Source: bedops
Binary: bedops
Architecture: source amd64
Version: 2.4.26+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 bedops - high-performance genomic feature operations
Changes:
 bedops (2.4.26+dfsg-1) unstable; urgency=medium
 .
   * New upstream release
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bedops_2.4.26+dfsg-1.debian.tar.xz
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Accepted python-cutadapt 1.13-1 (source all amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 15 May 2017 11:11:24 +
Source: python-cutadapt
Binary: python-cutadapt python3-cutadapt cutadapt
Architecture: source all amd64
Version: 1.13-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 cutadapt   - Clean biological sequences from high-throughput sequencing reads
 python-cutadapt - Clean biological sequences from high-throughput sequencing 
reads
 python3-cutadapt - Clean biological sequences from high-throughput sequencing 
reads
Changes:
 python-cutadapt (1.13-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted biojava4-live 4.2.7+dfsg-1 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Mon, 15 May 2017 12:17:18 +
Source: biojava4-live
Binary: libbiojava4.0-java libbiojava4-java libbiojava4-java-doc
Architecture: source all
Version: 4.2.7+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 libbiojava4-java - Java API to biological data and applications (default 
version)
 libbiojava4-java-doc - [Biology] Documentation for BioJava
 libbiojava4.0-java - Java API to biological data and applications (version 4)
Changes:
 biojava4-live (4.2.7+dfsg-1) unstable; urgency=medium
 .
   * New upstream release
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Accepted libzstd 1.2.0-1 (source amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Wed, 24 May 2017 11:28:27 +
Source: libzstd
Binary: libzstd-dev libzstd1 zstd
Architecture: source amd64
Version: 1.2.0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging <debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 libzstd-dev - fast lossless compression algorithm -- development files
 libzstd1   - fast lossless compression algorithm
 zstd   - fast lossless compression algorithm -- CLI tool
Closes: 863159
Changes:
 libzstd (1.2.0-1) unstable; urgency=medium
 .
   * New upstream release (Closes: #863159).
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Accepted python-biomaj3 3.0.20-1 (source all) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sat, 14 Jan 2017 09:30:04 +
Source: python-biomaj3
Binary: python-biomaj3 python3-biomaj3 biomaj3-commons
Architecture: source all
Version: 3.0.20-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 biomaj3-commons - biological data-bank updater
 python-biomaj3 - biological data-bank updater (Python 2)
 python3-biomaj3 - biological data-bank updater (Python 3)
Closes: 851366
Changes:
 python-biomaj3 (3.0.20-1) unstable; urgency=medium
 .
   * New package (Closes: # 851366).
 This is a rewrite of biomaj software/package. Biomaj v1 is not maintained
 anymore and biomaj3  should be used instead.
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Accepted bedops 2.4.20+dfsg-2 (source amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Fri, 03 Feb 2017 11:26:22 +
Source: bedops
Binary: bedops
Architecture: source amd64
Version: 2.4.20+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 bedops - high-performance genomic feature operations
Closes: 853892 854003
Changes:
 bedops (2.4.20+dfsg-2) unstable; urgency=medium
 .
   * avoid underlinking when linking with --as-needed (Closes: #854003)
 Thanks to gin...@debian.org
   * rename starch binary to bedops-starch (Closes: #853892)
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Accepted bedops 2.4.20+dfsg-1 (source amd64) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Fri, 13 Jan 2017 10:27:13 +
Source: bedops
Binary: bedops
Architecture: source amd64
Version: 2.4.20+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Olivier Sallou <osal...@debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 bedops - high-performance genomic feature operations
Closes: 851256
Changes:
 bedops (2.4.20+dfsg-1) unstable; urgency=medium
 .
   * Initial release (Closes: #851256)
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bedops_2.4.20+dfsg.orig.tar.gz
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bedops_2.4.20+dfsg-1.debian.tar.xz
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bedops-dbgsym_2.4.20+dfsg-1_amd64.deb
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bedops_2.4.20+dfsg-1_amd64.buildinfo
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Accepted baitfisher 1.0+dfsg-1 (source amd64) into unstable, unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Fri, 13 Jan 2017 10:27:13 +
Source: baitfisher
Binary: baitfisher
Architecture: source amd64
Version: 1.0+dfsg-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 baitfisher - software package for designing hybrid enrichment probes
Closes: 851342
Changes:
 baitfisher (1.0+dfsg-1) unstable; urgency=medium
 .
   * Initial release (Closes: #851342)
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baitfisher_1.0+dfsg-1.debian.tar.xz
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baitfisher_1.0+dfsg-1.dsc
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baitfisher_1.0+dfsg.orig.tar.xz
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baitfisher_1.0+dfsg-1.debian.tar.xz
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baitfisher-dbgsym_1.0+dfsg-1_amd64.deb
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baitfisher_1.0+dfsg-1_amd64.buildinfo
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baitfisher_1.0+dfsg-1_amd64.deb

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Accepted ncbi-blast+ 2.6.0-1 (source all amd64) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Sun, 15 Jan 2017 17:12:27 +
Source: ncbi-blast+
Binary: ncbi-blast+ ncbi-blast+-legacy blast2
Architecture: source all amd64
Version: 2.6.0-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 blast2 - transitional dummy package to ncbi-blast+-legacy
 ncbi-blast+ - next generation suite of BLAST sequence search tools
 ncbi-blast+-legacy - NCBI Blast legacy call script
Changes:
 ncbi-blast+ (2.6.0-1) unstable; urgency=medium
 .
   * New upstream release
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ncbi-blast+_2.6.0.orig.tar.gz
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ncbi-blast+_2.6.0-1.debian.tar.xz
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ncbi-blast+_2.6.0-1_amd64.buildinfo
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ncbi-blast+_2.6.0-1_amd64.deb

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Accepted biojava4-live 4.2.4+dfsg-2 (source all) into unstable

[Olivier Sallou]

-BEGIN PGP SIGNED MESSAGE-
Hash: SHA256

Format: 1.8
Date: Tue, 20 Dec 2016 10:48:01 +0100
Source: biojava4-live
Binary: libbiojava4.0-java libbiojava4-java libbiojava4-java-doc
Architecture: source all
Version: 4.2.4+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team 
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Olivier Sallou <osal...@debian.org>
Description:
 libbiojava4-java - Java API to biological data and applications (default 
version)
 libbiojava4-java-doc - [Biology] Documentation for BioJava
 libbiojava4.0-java - Java API to biological data and applications (version 4)
Closes: 848768
Changes:
 biojava4-live (4.2.4+dfsg-2) unstable; urgency=medium
 .
   * d/control: add jgrapht as required dependency instead of suggests
(Closes: #848768)
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libbiojava4-java_4.2.4+dfsg-2_all.deb
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libbiojava4.0-java_4.2.4+dfsg-2_all.deb

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