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masschroq (2.2.2-5) stretch; urgency=medium

  * new odsstream library

 -- Olivier Langella <olivier.langella@u-psud.fr>  Tue, 20 Jun 2017 22:23:57 +0200

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masschroq (2.2.2-4) jessie; urgency=medium

  * new odsstream library

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 -- Olivier Langella <olivier.langella@u-psud.fr>  Tue, 23 May 2017 22:23:07 +0200

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masschroq (2.2.2-3~stretch) stretch; urgency=medium

  * stretch package

 -- Olivier Langella <olivier.langella@u-psud.fr>  Thu, 11 May 2017 16:04:52 +0200
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masschroq (2.2.2-3) jessie; urgency=medium

  * new pappsomspp library

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 26 Apr 2017 21:55:10 +0200

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masschroq (2.2.2-2) jessie; urgency=medium

  * new libpappsomspp library

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Mon, 24 Apr 2017 09:50:34 +0200

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masschroq (2.2.2-1) jessie; urgency=medium

  * mingw64 compilation OK, new peak collection

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Tue, 18 Apr 2017 13:02:26 +0200

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masschroq (2.2.2-1~stretch) stretch; urgency=medium

  * stretch package 

 -- Olivier Langella <olivier.langella@u-psud.fr>  Thu, 20 Apr 2017 09:58:04 +0200

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masschroq (2.2.1-4~stretch) stretch; urgency=medium

  * stretch package

 -- Olivier Langella <olivier.langella@u-psud.fr>  Sat, 18 Mar 2017 18:05:49 +0100

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masschroq (2.2.1-4) jessie; urgency=medium

  * new pappso library

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Sat, 21 Jan 2017 13:36:17 +0100

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masschroq (2.2.1-3) jessie; urgency=medium

  * new libpappsomspp library

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 21 Dec 2016 10:09:57 +0100

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masschroq (2.2.1-2) jessie; urgency=medium

  * tabulated output fix

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 09 Dec 2016 16:00:17 +0100

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masschroq (2.2.1-1) jessie; urgency=medium

  * out of range bug fixed when extracting XIC outside slice range
    (thanks to Marlene Davanture)

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Tue, 06 Dec 2016 15:32:12 +0100

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masschroq (2.2.0-20) jessie; urgency=medium

  * write protein in fractions

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Sat, 26 Nov 2016 21:13:18 +0100

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masschroq (2.2.0-19) jessie; urgency=medium

  * package fix

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Mon, 14 Nov 2016 22:43:32 +0100

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masschroq (2.2.0-18) jessie; urgency=medium

  * libpappsomspp-dev_0.2.30-2

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Mon, 14 Nov 2016 22:24:01 +0100

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masschroq (2.2.0-17) jessie; urgency=medium

  * no debug messages

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 04 Nov 2016 23:01:15 +0100

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masschroq (2.2.0-16) jessie; urgency=medium

  * new documentation

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Sat, 29 Oct 2016 17:45:38 +0200

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masschroq (2.2.0-15) jessie; urgency=medium

  * qwt6 switch

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 19 Oct 2016 22:37:53 +0200

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masschroq (2.2.0-14) jessie; urgency=medium

  * new pappsomspp library

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Tue, 13 Sep 2016 14:35:47 +0200

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masschroq (2.2.0-13) jessie; urgency=medium

  * new PAPPSO library, new ODS library

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Thu, 25 Aug 2016 10:24:49 +0200

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masschroq (2.2.0-12) jessie; urgency=medium

  * new pappso lib

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 19 Aug 2016 12:42:35 +0200

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masschroq (2.2.0-11) jessie; urgency=medium

  * compar output and MassChroqML output implemented

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 13 Jul 2016 14:24:18 +0200

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masschroq (2.2.0-10) jessie; urgency=medium

  * testing weighted mean to select the rt reference

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 22 Jun 2016 22:36:31 +0200

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masschroq (2.2.0-9) jessie; urgency=medium

  * keep only more intense peaks to compute rt references

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 22 Jun 2016 10:15:01 +0200

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masschroq (2.2.0-8) jessie; urgency=medium

  * disable distance point for postmatching mode

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 22 Jun 2016 08:19:17 +0200

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masschroq (2.2.0-7) jessie; urgency=medium

  * new rt computing

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Tue, 21 Jun 2016 21:14:03 +0200

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masschroq (2.2.0-6) jessie; urgency=medium

  * test rt target for postmatching based on the best MSMS intensity

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Tue, 21 Jun 2016 15:06:05 +0200

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masschroq (2.2.0-5) jessie; urgency=medium

  * ODS file format added

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Sun, 19 Jun 2016 23:17:28 +0200

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masschroq (2.2.0-4) jessie; urgency=medium

  * fix XSD schema location problem

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Sun, 19 Jun 2016 23:03:57 +0200

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masschroq (2.2.0-3) jessie; urgency=medium

  * more information in XML validation

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Sun, 19 Jun 2016 22:30:43 +0200

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masschroq (2.2.0-2) jessie; urgency=medium

  * no thin peak rt tolerance for postmatching

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Sun, 19 Jun 2016 07:19:11 +0200

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masschroq (2.2.0-1) jessie; urgency=medium

  * test pappsodev section

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Thu, 16 Jun 2016 14:47:04 +0200

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masschroq (2.1.4-3) jessie; urgency=medium

  * fix masschroq condor perl template script error

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 25 May 2016 13:59:50 +0200

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masschroq (2.1.4-2) jessie; urgency=medium

  * fix exit error status code, documenation authors fix

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 25 May 2016 11:18:54 +0200

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masschroq (2.1.4-1) jessie; urgency=medium

  * maintenance version to introduce the new XML schema

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Mon, 09 Nov 2015 14:10:49 +0100

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masschroq (2.1.3-5) jessie; urgency=medium

  * disable align multithread

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Mon, 31 Aug 2015 17:12:39 +0200

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masschroq (2.1.3-4) jessie; urgency=medium

  * map instead of mapped

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Mon, 31 Aug 2015 16:22:52 +0200

masschroq (2.1.3-3) jessie; urgency=medium

  * test package

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Mon, 31 Aug 2015 12:14:12 +0200

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masschroq (2.1.3-2) jessie; urgency=medium

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  * ordered reduce
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 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Tue, 25 Aug 2015 09:23:41 +0200

masschroq (2.1.3-1) jessie; urgency=medium

  * first jessie package : test multithread

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Mon, 24 Aug 2015 17:02:44 +0200

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masschroq (2.1.2-1) wheezy; urgency=medium
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  * condor notifications enabled
  * using Qt designer for the gui
  * bug fixed on the maxmin half edge (thanks to Samuel Granjeaud)

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Wed, 10 Jun 2015 16:05:37 +0200

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masschroq (2.1.0-10) wheezy; urgency=medium

  * allow no alignment at all

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 27 Mar 2015 10:36:09 +0100

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masschroq (2.1.0-9) wheezy; urgency=low

  * conversion to int on retention time reversed to mcq_double

 -- langella <Olivier.Langella@moulon.inra.fr>  Wed, 16 Jul 2014 11:33:53 +0200

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masschroq (2.1.0-8) wheezy; urgency=low

  * simple mzXml parser is more secure

 -- langella <Olivier.Langella@moulon.inra.fr>  Fri, 11 Jul 2014 13:56:19 +0200

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masschroq (2.1.0-7) wheezy; urgency=low

  * new fix on file handlers : fix syntax error

 -- langella <Olivier.Langella@moulon.inra.fr>  Thu, 10 Jul 2014 11:31:38 +0200

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masschroq (2.1.0-6) wheezy; urgency=low

  * new fix on file handlers

 -- langella <Olivier.Langella@moulon.inra.fr>  Thu, 10 Jul 2014 10:15:25 +0200

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masschroq (2.1.0-5) wheezy; urgency=low

  * close file handler bug fixed

 -- langella <Olivier.Langella@moulon.inra.fr>  Wed, 09 Jul 2014 19:10:10 +0200

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masschroq (2.1.0-4.1) wheezy; urgency=low

  * Non-maintainer upload.
  * condor job requirements modified

 -- langella <Olivier.Langella@moulon.inra.fr>  Fri, 04 Apr 2014 11:48:29 +0200

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masschroq (2.1.0-4) wheezy; urgency=low

  * thread concurency problem fixed

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Thu, 16 Jan 2014 14:36:59 +0100

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masschroq (2.1.0-3) wheezy; urgency=low

  * user manual installation fixed

 --  Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 29 Nov 2013 08:18:51 +0200

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masschroq (2.1.0-2) wheezy; urgency=low

  * MassChroQ GUI as a cpu number parameter
  * new documentation building process

 --  Olivier Langella <Olivier.Langella@moulon.inra.fr>  Thu, 28 Nov 2013 08:18:51 +0200

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masschroq (2.1.0-1) wheezy; urgency=low

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  * first multithreaded MassChroQ version (Yacare caiman)
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 --  Olivier Langella <Olivier.Langella@moulon.inra.fr>  Tue, 12 Nov 2013 08:18:51 +0200

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masschroq (2.0.2-1) wheezy; urgency=low

  * xml schema modified to add isotope xml id in quanti_item element
  * xml writer modified to add isotope xml id

 --  Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 27 Sep 2013 08:18:51 +0200

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masschroq (2.0.1-7) wheezy; urgency=low

  * masschroq-condor.pl perl script fixed again

 --  Olivier Langella <Olivier.Langella@moulon.inra.fr>  Thu, 19 Sep 2013 08:18:51 +0200

masschroq (2.0.1-6) wheezy; urgency=low

  * masschroq-condor.pl perl script fixed again

 --  Olivier Langella <Olivier.Langella@moulon.inra.fr>  Thu, 19 Sep 2013 08:18:51 +0200

masschroq (2.0.1-5) wheezy; urgency=low

  * masschroq-condor.pl perl script fixed

 --  Olivier Langella <Olivier.Langella@moulon.inra.fr>  Thu, 19 Sep 2013 08:18:51 +0200

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masschroq (2.0.1-4) wheezy; urgency=low

  * new sub package to install the masschroq-condor.pl perl script

 --  Olivier Langella <Olivier.Langella@moulon.inra.fr>  Thu, 19 Sep 2013 08:18:51 +0200

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masschroq (2.0.1-3) wheezy; urgency=low

  * debian wheezy package

 --  Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 19 Apr 2013 08:18:51 +0200

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masschroq (2.0.1-2~lucid) lucid; urgency=low

  * package for Ubuntu LTS 10.04
    
 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 15 Apr 2013 9:46:24 +0200

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masschroq (2.0.1-2~precise) precise; urgency=low
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  * Correct alignment when no peptide found for ms2 method
    ** trace on masschroq lib
    ** plot on masschroq-studio
    
 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 15 Apr 2013 9:45:24 +0200

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masschroq (2.0.1-1~precise) precise; urgency=low

  * peptide isotope added in MassChroQ Studio
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  * bug fixed in MassChroQ Studio XML generation of spike filter
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 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Thu, 28 Mar 2013 10:45:24 +0200

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masschroq (2.0.0-6~precise) precise; urgency=low

  * precise package

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 1 oct 2012 16:45:24 +0200

masschroq (2.0.0-6) lucid; urgency=low

  * little mistake in package fixed

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 1 oct 2012 16:45:24 +0200

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masschroq (2.0.0-5) lucid; urgency=low

  * readme file updated

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 1 oct 2012 16:45:24 +0200

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masschroq (2.0.0-4) lucid; urgency=low

  * new sub package : masschroq-doc containing pdf and readme

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 1 oct 2012 15:45:24 +0200

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masschroq (2.0.0-3) lucid; urgency=low

  * conflict with previous masschroq package solved

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 24 Sep 2012 15:45:24 +0200

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masschroq (2.0.0-2) lucid; urgency=low

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  * svg icon location fixed
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 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 24 Sep 2012 10:45:24 +0200

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masschroq (2.0.0-1) lucid; urgency=low

  * debian and ubuntu package splitted : gui, common, studio...

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 24 Sep 2012 10:37:24 +0200

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masschroq (2.0.0-1) unstable; urgency=low

  * New stable release with new features:
    ** The MassChroQ Gui is now operational thanks to Benoît Valot who did it all.
       It performs quantification and alignmnent plots, from msruns directly or from
       masschroqml files. One can extract mz or identified peptides XICs and perform
       filtering and detection on them.

 -- Edlira Nano <edlira.nano@moulon.inra.fr>  Mon, 03 Sep 2012 16:37:24 +0200

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masschroq (1.2.1-1~lucid) lucid; urgency=low

  * Lucid Lynx Package

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Fri, 24 Feb 2012 09:20:51 +0200

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masschroq (1.2.1-1~maverick) maverick; urgency=low

  * Maverick Meerkat Package

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Fri, 24 Feb 2012 09:20:51 +0200

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masschroq (1.2.1-1~natty) natty; urgency=low

  * Natty Narval Package

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Fri, 24 Feb 2012 09:20:51 +0200

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masschroq (1.2.1-1~oneiric) oneiric; urgency=low

  * Oneiric Ocelot Package

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Fri, 24 Feb 2012 09:20:51 +0200

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masschroq (1.2.1-1) unstable; urgency=low

  * Fixed bug #8168 and bug #8169 affecting all releases
  * Closes bug #8168 and bug #8169
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  * Adedd mods column to compar result file
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 -- Edlira Nano <edlira.nano@moulon.inra.fr>  Mon, 14 Feb 2012 15:47:05 +0200

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masschroq (1.2.0-1) unstable; urgency=low

  * New stable release with new features:
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    ** Post-matching feature: new quantification mode that performs a first peak
       matching in real mode during quantification, and after the current group has
       been quantified it performs a new peak matching with peptide retention times
       recomputed by using the retention times of the previously matched peaks for
       this peptide. Usefull for HR spectrometers only.
    ** Comparison result file type: this new type of quantification results is a
       TSV file for simple global visual and manual comparison and overview purpose.
       This type of file is automatically produced with the tsv format of the
       quantification results (it contains the _compar extension).
    ** New masschroqML schema, version 1.2, containing the post-matching mode and
       replacement of xml result format with masschroqML format. Retrocompatibility
       is assured.
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 -- Edlira Nano <edlira.nano@moulon.inra.fr>  Mon, 03 Feb 2012 14:39:27 +0200

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masschroq (1.1.1-1) unstable; urgency=low

  * Fixed bug #7984 (XML output result has empty base64 encoded intensity values)
  * Closes bug #7984

 -- Edlira Nano <edlira.nano@moulon.inra.fr>  Fri, 30 Sep 2011 16:21:17 +0200

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masschroq (1.1.0-3) natty; urgency=low

  * package fix
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 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Tue, 27 Sep 2011 09:20:51 +0200

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masschroq (1.1.0-2) natty; urgency=low
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  * src/config.h.cmake needed in the tarball
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 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Tue, 22 Sep 2011 10:20:51 +0200

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masschroq (1.1.0-1) natty; urgency=low
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  * see masschroq (1.1.0-1) unstable
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 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Tue, 22 Sep 2011 10:18:51 +0200

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masschroq (1.1.0-1) unstable; urgency=low
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  * Added slicing of msruns:
    ** the msrun files are cutted up into slices of at most N MB written to
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       temporary disk files (N is set to 250 Mo but can be configured).
       As a result this version uses only 250 Mo of RAM (one slice on memory at a time)
       and onlly one msrun is temporary kept on disk at a time. Hence, there is a
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       gain of more than 50% of execution time and the disk usage is reduced to the
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       size of the biggest msrun being analysed.
    ** Changed the msrun XML parsers: one simple parsing (no spectra) at the beginning
       then, when needed, the spectra are parsed. Spectra parsing is needed for the
       Obi-Warp alignment and for the quantification.
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 -- Edlira Nano <edlira.nano@moulon.inra.fr>  Mon, 05 Sep 2011 11:39:43 +0200

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masschroq (1.0.1-1) natty; urgency=low

  * natty package

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Tue, 21 Jun 2011 10:18:51 +0200

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masschroq (1.0.1-1) maverick; urgency=low

  * Fixed empty XIC traces bug.
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  * Added optional "mods" column to peptide CSV files and quantification results.
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  * Minor changes in optional attributes in masschroqML schema.
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  * Removed translation of Leucine into Isoleucine amino-acid in peptide sequences
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  * Made a Windows 32 setup installer using Inno Setup
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  * Fixed bug of split xml idrefs without skeeping empty parts: "msrun with id does not
    exist" error message
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 -- Edlira Nano <edlira.nano@moulon.inra.fr>  Mon, 02 May 2011 16:58:49 +0200
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masschroq (1.0.0-1) maverick; urgency=low
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  [ Olivier Langella ]
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  [ Edlira Nano <edlira.nano@moulon.inra.fr>]
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  * first stable masschroq release including all improvements made by Edlira Nano:
    - implementation of bestRt method for peptide rt
    - implementation of MS/MS alignment method
    - added mzML format parser
    - added MS level > 2 parsing
    - implemented the parsing of peptide csv files
    - quantification results changes:
      - added list of results (MonitorList)
      - added masschroqML xml result type
    - changed floats to doubles everywhere
    - written manual

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 -- Edlira Nano <edlira.nano@moulon.inra.fr>  Tue, 12 Apr 2011 12:29:23 +0200
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quantimscpp (0.0.6-1) jaunty; urgency=low

  * xsd schema fixed
  * no search on simple peptides where isotope labels are used
  * sax parser fixed for type argument (alignment and detection methods)
  * bug fixed parsing detection_zivy and detection_moulon tags
  * conversion of retention times to "hh:mm:ss.zzz"
  * split gnumeric result in 2 sheets

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Fri, 05 Mar 2010 12:18:51 +0200

quantimscpp (0.0.5-2) jaunty; urgency=low

  * moc cxx files problem fixed in the package

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 24 Apr 2009 12:18:51 +0200

quantimscpp (0.0.5-1) jaunty; urgency=low

  * peak detection fixed by Benoit Valot
  * xml outputs float with higher precision (10)

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 24 Apr 2009 10:18:51 +0200

quantimscpp (0.0.4-1) intrepid; urgency=low

  * handles suspend to disk for huge msrun data

 -- Olivier Langella <olivier.langella@moulon.inra.fr>  Mon, 03 Apr 2009 10:18:51 +0200

quantimscpp (0.0.3-1) intrepid; urgency=low

  * xicextractor works
  * background substraction works
  * GUI now allow to choose a mass precisely

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Mon, 16 Mar 2009 16:18:51 +0200

quantimscpp (0.0.2-1) intrepid; urgency=low

  * new object to align ms runs

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 30 Jan 2009 16:18:51 +0200

quantimscpp (0.0.1-3) intrepid; urgency=low

  * licence added in the package for src/libobiwarp (Copyright (c) 2006, The University of Texas at Austin("U.T. Austin"))

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 23 Jan 2009 16:18:51 +0200

quantimscpp (0.0.1-2) intrepid; urgency=low

  * fixed binary installation in package.

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 23 Jan 2009 15:18:51 +0200

quantimscpp (0.0.1-1) intrepid; urgency=low

  * Initial release.

 -- Olivier Langella <Olivier.Langella@moulon.inra.fr>  Fri, 23 Jan 2009 11:18:51 +0200