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Langella Olivier authoredLangella Olivier authored
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changelog 17.15 KiB
xtpcpp (0.2.34-2) stretch; urgency=medium
* fix filename bug
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 19 Mar 2019 08:53:24 +0100
xtpcpp (0.2.34-1) stretch; urgency=medium
* fix ppm range in MassChroqML export (thanks to Thierry Balliau)
* new features asked by Plateforme Post-génomique de la Pitié Salpétrière - P3S
(Solenne Chardonnet, Cédric Pionneau)
* write protein list view as is in ODS file
* write peptide list view as is in ODS file
* new ui menu in peptide and protein list wiew
* ppm delta added in ODS spectra sheet export
* display Nter and Cter peptide flanking regions in ODS and list views
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 18 Mar 2019 11:06:11 +0100
xtpcpp (0.2.33-1) stretch; urgency=medium
* scroll area for small screens
* xic extraction method (sum or max)
* resilient ODS on failure
* global settings windows
* xic extractor reader choice
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 25 Feb 2019 13:29:57 +0100
xtpcpp (0.2.32-1) stretch; urgency=medium
* moving to refactored PAPPSOms++ library
* bug fixed in FASTA exports
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 06 Feb 2019 11:48:02 +0100
xtpcpp (0.2.31-2) stretch; urgency=medium
* user agent created, variable to disable htpp get version
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 01 Feb 2019 14:36:56 +0100
xtpcpp (0.2.31-1) stretch; urgency=medium
* new Fasta file exports by groups and subgroups
* better MassChroqML output : check MS run file paths, set output result files, set alignment/xic exctraction/peak detection parameters
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 28 Jan 2019 15:13:20 +0100
xtpcpp (0.2.30-1) stretch; urgency=medium
* new ODS spreadsheet dedicated to peptidomic : comparison of the
number of spectra for each peptide in each sample
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 14 Jan 2019 10:43:00 +0100
xtpcpp (0.2.29-4) stretch; urgency=medium
* new PAPPSOms++ library
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 08 Jan 2019 16:19:34 +0100
xtpcpp (0.2.29-3) stretch; urgency=medium
* new pappsomspp library
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 02 Jan 2019 21:52:00 +0100
xtpcpp (0.2.29-1) stretch; urgency=medium
* modification to be qcustomplot 2.0.1 compliant
* accept labeling method containing an empty label
-- Olivier Langella <olivier.langella@u-psud.fr> Sat, 15 Dec 2018 16:51:44 +0100
xtpcpp (0.2.28-3) stretch; urgency=medium
* mascot takes all query candidates
* fix thread wait loading spectrum
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 07 Dec 2018 10:44:46 +0100
xtpcpp (0.2.28-2) stretch; urgency=medium
* take only first spectrum psm in mascot parser
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 27 Nov 2018 09:21:43 +0100
xtpcpp (0.2.28-1) stretch; urgency=medium
* improved mascot dat parser
* ability to choose TSV as export file format
* icon added for Windows
* more checks on tandem binary path
* dependency added on package tandem-mass
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 26 Nov 2018 15:29:21 +0100
xtpcpp (0.2.27-1) stretch; urgency=medium
* look for sequence LI
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 13 Nov 2018 14:58:53 +0100
xtpcpp (0.2.26-1) stretch; urgency=medium
* display distinctively the FDR on peptides and on PSM
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 09 Nov 2018 10:50:11 +0100
xtpcpp (0.2.25-2) stretch; urgency=medium
* new version number 0.2.25
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 02 Nov 2018 15:31:01 +0100
xtpcpp (0.2.25-1) stretch; urgency=medium
* mascot parser fix for single fasta file
* protein mass including alanine
* X!Tandem version check
* FDR written as percentage in ODS files
* compute peptide FDR directly on peptides (no protein validation)
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 02 Nov 2018 14:26:19 +0100
xtpcpp (0.2.24-3) stretch; urgency=medium
* fix for temporary directory under condor
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 29 Oct 2018 11:14:33 +0100
xtpcpp (0.2.24-2) stretch; urgency=medium
* ODS output fix
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 19 Oct 2018 16:57:33 +0200
xtpcpp (0.2.24-1) stretch; urgency=medium
* new compar ODS output dedicated to labeled experiments
* SEVERE bug fix concerning protein Evalue computation (reported by T. Balliau)
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 19 Oct 2018 16:13:10 +0200
xtpcpp (0.2.23-2) stretch; urgency=medium
* fix version number
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 16 Oct 2018 11:13:36 +0200
xtpcpp (0.2.23-1) stretch; urgency=medium
* checking tandem.exe installation
* new controls to select decoy sequences and avoid bug signaled by C. Henry and T. Balliau
* new temporary folder handler for HTCondor jobs
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 16 Oct 2018 10:57:47 +0200
xtpcpp (0.2.22-3) stretch; urgency=medium
* major mzIdentML improvements for MS-GF+
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 03 Oct 2018 22:32:56 +0200
xtpcpp (0.2.22-2) stretch; urgency=medium
* minor fix
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 03 Oct 2018 11:08:30 +0200
xtpcpp (0.2.22-1) stretch; urgency=medium
* better Mascot parser
* new placeholder for contaminant widget
* refresh evalue when choosing threshold
* display contaminant checkbox in protein view
* release MSrun after reading
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 02 Oct 2018 13:56:06 +0200
xtpcpp (0.2.21-4) stretch; urgency=medium
* make sure that we look for MSrun in the right place
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 03 Sep 2018 16:29:47 +0200
xtpcpp (0.2.21-3) stretch; urgency=medium
* smart file path guess
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 31 Aug 2018 11:49:39 +0200
xtpcpp (0.2.21-2) stretch; urgency=medium
* gui text fix (proteins => peptides)
* find readable msRun file
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 29 Aug 2018 09:26:21 +0200
xtpcpp (0.2.21-1) stretch; urgency=medium
* ODS column consistency checked, more auto documentation
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 17 Aug 2018 13:51:19 +0200
xtpcpp (0.2.20-1) stretch; urgency=medium
* TIC columns added in ODS report
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 13 Jul 2018 09:31:03 +0200
xtpcpp (0.2.19-1) stretch; urgency=medium
* fix in mzidentml reader and pepxml reader to be able to load files
from MSfragger
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 09 Jul 2018 13:36:40 +0200
xtpcpp (0.2.18-1) stretch; urgency=medium
* pepxml support
* XPIP change : each peptide is related has is own identification engine id
* better xic extractor cache by msrun
* possibility to display specific identification engine attributes (omssa, comet,msgf+...)
-- Olivier Langella <olivier.langella@u-psud.fr> Thu, 05 Jul 2018 13:50:31 +0200
xtpcpp (0.2.17-1) stretch; urgency=medium
* new window to edit detection parameters
* new PAPPSO library API to
read MS run files
-- Olivier Langella <olivier.langella@u-psud.fr> Sat, 02 Jun 2018 18:09:53 +0200
xtpcpp (0.2.16-3) stretch; urgency=medium
* fix masschroq out put msrun reference
-- Olivier Langella <olivier.langella@u-psud.fr> Sat, 26 May 2018 07:05:21 +0200
xtpcpp (0.2.16-2) stretch; urgency=medium
* falling back to simple pwiz xic extractor
-- Olivier Langella <olivier.langella@u-psud.fr> Sat, 26 May 2018 06:47:15 +0200
xtpcpp (0.2.16-1) stretch; urgency=medium
* new buffered XIC extractor
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 25 May 2018 09:08:47 +0200
xtpcpp (0.2.15-2) stretch; urgency=medium
* lib pappsomspp change
-- Olivier Langella <olivier.langella@u-psud.fr> Thu, 17 May 2018 22:18:27 +0200
xtpcpp (0.2.15-1) stretch; urgency=medium
* new xic extractor API, spectral count export fallback, compar bug
fixed
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 16 May 2018 11:36:53 +0200
xtpcpp (0.2.14-2) stretch; urgency=medium
* avoid libodsstream bug in compar sheets
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 14 May 2018 13:01:39 +0200
xtpcpp (0.2.14-1) stretch; urgency=medium
* NSAF compar export
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 04 May 2018 09:14:35 +0200
xtpcpp (0.2.13-1) stretch; urgency=medium
* XIC peak borders
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 16 Apr 2018 13:34:17 +0200
xtpcpp (0.2.12-2) stretch; urgency=medium
* ppm delta bug fix
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 28 Mar 2018 10:55:01 +0200
xtpcpp (0.2.12-1) stretch; urgency=medium
* GUI improvements
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 26 Mar 2018 16:14:42 +0200
xtpcpp (0.2.11-1) stretch; urgency=medium
* MASCOT dat parser
* contaminant widget
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 13 Mar 2018 16:01:10 +0100
xtpcpp (0.2.10-4) stretch; urgency=medium
* bug fix when no peak has been detected for a peptide
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 14 Feb 2018 10:20:28 +0100
xtpcpp (0.2.10-3) stretch; urgency=medium
* new PAPPSOms++ library
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 12 Feb 2018 16:45:57 +0100
xtpcpp (0.2.10-2) stretch; urgency=medium
* fix library package name
-- Olivier Langella <olivier.langella@u-psud.fr> Sun, 11 Feb 2018 18:08:26 +0100
xtpcpp (0.2.10-1) stretch; urgency=medium
* better UI and XIC viewer
-- Olivier Langella <olivier.langella@u-psud.fr> Sun, 11 Feb 2018 08:02:37 +0100
xtpcpp (0.2.9-2) stretch; urgency=medium
* extract XIC in other MS runs
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 29 Jan 2018 09:53:12 +0100
xtpcpp (0.2.8-1) stretch; urgency=medium
* better PTM island mode
-- Olivier Langella <olivier.langella@u-psud.fr> Thu, 25 Jan 2018 10:06:17 +0100
xtpcpp (0.2.7-1) stretch; urgency=medium
* bug fixed on long protein label with reversed sequences
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 23 Jan 2018 15:57:47 +0100
xtpcpp (0.2.6-1) stretch; urgency=medium
* new XIC viewer
-- Olivier Langella <olivier.langella@u-psud.fr> Thu, 18 Jan 2018 16:28:07 +0100
xtpcpp (0.2.5-2) stretch; urgency=medium
* disable warning message in xpip export
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 10 Jan 2018 16:19:17 +0100
xtpcpp (0.2.5-1) stretch; urgency=medium
* search on msrun and scan, better individual mode, better widgets
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 10 Jan 2018 14:50:52 +0100
xtpcpp (0.2.4-1) stretch; urgency=medium
* new peptide widget
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 03 Jan 2018 11:44:36 +0100
xtpcpp (0.2.3-2) stretch; urgency=medium
* new mass delta, new FDR, new histogram
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 20 Dec 2017 11:20:52 +0100
xtpcpp (0.2.3-1) stretch; urgency=medium
* better FDR and mass delta computing
-- Olivier Langella <olivier.langella@u-psud.fr> Sun, 17 Dec 2017 18:19:11 +0100
xtpcpp (0.2.2-2) stretch; urgency=medium
* new pappsomspp library
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 15 Dec 2017 11:38:38 +0100
xtpcpp (0.2.2-1) stretch; urgency=medium
* better xpip format input and output
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 04 Dec 2017 10:54:31 +0100
xtpcpp (0.2.1-1) stretch; urgency=medium
* huge refactoring
* new xpip output file
* clear mz file list in tandem run dialog
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 22 Nov 2017 15:56:02 +0100
xtpcpp (0.1.23-1) stretch; urgency=medium
* better ODS and XPIP file
* compute mass and number of tryptic
peptides on non regular protein sequences
-- Olivier Langella <olivier.langella@u-psud.fr> Wed, 15 Nov 2017 12:57:36 +0100
xtpcpp (0.1.22-2) stretch; urgency=medium
* HTCondor parameter edition
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 06 Nov 2017 08:44:17 +0100
xtpcpp (0.1.22-1) stretch; urgency=medium
* new buttons in central widget
* xpip file creation * tandem parameters added
* avoid non amino acid chars in tryptic peptide count
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 27 Oct 2017 16:40:50 +0200
xtpcpp (0.1.21-1) stretch; urgency=medium
* tandem file check
* better tandem form
* multiple directory upload
* monitoring grouping (and faster grouping)
-- Olivier Langella <olivier.langella@u-psud.fr> Sat, 21 Oct 2017 11:58:51 +0200
xtpcpp (0.1.20-2) stretch; urgency=medium
* tandem parameter form hardened
-- Olivier Langella <olivier.langella@u-psud.fr> Sun, 15 Oct 2017 20:32:27 +0200
xtpcpp (0.1.20-1) stretch; urgency=medium
* tandem parameters editor
-- Olivier Langella <olivier.langella@u-psud.fr> Sun, 15 Oct 2017 07:50:50 +0200
xtpcpp (0.1.19-1) stretch; urgency=medium
* new preset window (for tandem parameters)
* divizion by zero fixed and exception added
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 09 Oct 2017 09:03:30 +0200
xtpcpp (0.1.18-1) stretch; urgency=medium
* MS run and identification statistics
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 26 Sep 2017 10:07:10 +0200
xtpcpp (0.1.17-2) stretch; urgency=medium
* fix desktop file
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 22 Sep 2017 15:42:11 +0200
xtpcpp (0.1.17-1) stretch; urgency=medium
* better tandem run dialog box
* success message after tandem run (thanks T. Balliau)
* condor/tmp_dir_autoremove parameter to keep log files
* choose number of threads for tandem run
* XPIP mime type associated to xtpcpp
-- Olivier Langella <olivier.langella@u-psud.fr> Fri, 22 Sep 2017 14:36:15 +0200
xtpcpp (0.1.16-1) stretch; urgency=medium
* qt5 switch
* about dialog window
* Tandem run window (local and HTCondor)
-- Olivier Langella <olivier.langella@u-psud.fr> Mon, 18 Sep 2017 12:07:33 +0200
xtpcpp (0.1.15-1) stretch; urgency=medium
* ptm peptide list
-- Olivier Langella <olivier.langella@u-psud.fr> Thu, 17 Aug 2017 15:40:53 +0200
xtpcpp (0.1.14-2) stretch; urgency=medium
* utf8 pwiz library bug workaround
-- Olivier Langella <olivier.langella@u-psud.fr> Sat, 01 Jul 2017 10:37:11 +0200
xtpcpp (0.1.14-1) stretch; urgency=medium
* mzidentml and pepxml support
-- Olivier Langella <olivier.langella@u-psud.fr> Sat, 24 Jun 2017 22:43:53 +0200
xtpcpp (0.1.13-1) jessie; urgency=medium
* progress bar, now spectral count output
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Mon, 12 Jun 2017 08:59:00 +0200
xtpcpp (0.1.12-1) jessie; urgency=medium
* first PTM island support
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Wed, 31 May 2017 10:51:11 +0200
xtpcpp (0.1.11-2) jessie; urgency=medium
* new odsstream library
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Tue, 23 May 2017 23:09:30 +0200
xtpcpp (0.1.11-1) jessie; urgency=medium
* proticdbml output
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Sat, 20 May 2017 17:36:09 +0200
xtpcpp (0.1.10-1) jessie; urgency=medium
* trick to read MGF files
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Fri, 12 May 2017 10:26:42 +0200
xtpcpp (0.1.9-1) jessie; urgency=medium
* MGF peak sorting, waiting dialog, new ODS sheets (samples, groups)
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Tue, 09 May 2017 11:30:23 +0200
xtpcpp (0.1.8-1) jessie; urgency=medium
* better peptide viewer
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Fri, 05 May 2017 16:28:16 +0200
xtpcpp (0.1.7-1) jessie; urgency=medium
* button to link with peptide viewer
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Thu, 04 May 2017 14:47:48 +0200
xtpcpp (0.1.6-1) jessie; urgency=medium
* new ODS sheet in outputs
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Wed, 03 May 2017 10:28:25 +0200
xtpcpp (0.1.5-2) jessie; urgency=medium
* new export options
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Fri, 28 Apr 2017 10:30:20 +0200
xtpcpp (0.1.5-1) jessie; urgency=medium
* new export options
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Fri, 28 Apr 2017 10:18:20 +0200
xtpcpp (0.1.4-1) jessie; urgency=medium
* FASTA export
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Thu, 27 Apr 2017 09:19:11 +0200
xtpcpp (0.1.3-1) jessie; urgency=medium
* thanks Ariane and Thierry
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Tue, 25 Apr 2017 16:22:04 +0200
xtpcpp (0.1.2-1) jessie; urgency=medium
* new modification editor, new FDR mass deviation behaviour, lots of
improvements
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Mon, 24 Apr 2017 10:17:53 +0200
xtpcpp (0.1.1-1) jessie; urgency=medium
* bug fix and new features
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Thu, 20 Apr 2017 11:32:40 +0200
xtpcpp (0.1.0-1) jessie; urgency=medium
* first jessie package
-- Olivier Langella <Olivier.Langella@moulon.inra.fr> Wed, 19 Apr 2017 10:15:33 +0200
xtpcpp (0.1.0-1~stretch) stretch; urgency=medium
* first package
-- Olivier Langella <olivier.langella@u-psud.fr> Tue, 18 Apr 2017 20:55:14 +0200