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From: Chris <ch...@jm...> - 2021-02-22 22:50:22
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From: Gerhard M. <ger...@us...> - 2015-10-12 08:43:00
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Date: Monday October 12, 2015 @ 8:42 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv20458 Modified Files: psi-ms.obo Log Message: Version 3.79.0: ========== Added AB Sciex terms |
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From: Gerhard M. <ger...@us...> - 2015-09-15 12:18:48
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Date: Tuesday September 15, 2015 @ 12:18 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv31951 Added Files: 2014_Schober_etal_Ontology usage in Omics Standards Initiatives_Pros and Cons of enriching XML data formats with controlled vocabulary terms.pdf Log Message: |
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From: Gerhard M. <ger...@us...> - 2015-09-15 12:07:13
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Date: Tuesday September 15, 2015 @ 12:07 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv31419 Modified Files: psi-ms.obo Log Message: removed _rc1 |
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From: Gerhard M. <ger...@us...> - 2015-09-15 12:06:18
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Date: Tuesday September 15, 2015 @ 12:06 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv31387 Modified Files: psi-ms.obo Log Message: Added is_a: MS:1000808 ! chromatogram attribute to negative scan and positive scan |
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From: Gerhard M. <ger...@us...> - 2015-08-06 07:01:25
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Date: Thursday August 6, 2015 @ 7:01 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv23466 Modified Files: lastID.txt psi-ms.obo Log Message: Version 3.77.0: ========= - Added string value type for MS:1002487 - New term for Tide search engine |
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From: Gerhard M. <ger...@us...> - 2015-05-28 12:18:05
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Date: Thursday May 28, 2015 @ 12:18 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv2685 Modified Files: lastID.txt psi-ms.obo Log Message: Version 3.76.0: ========== Removed ID clash for term ASAPRatio |
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From: Gerhard M. <ger...@us...> - 2015-03-31 07:07:35
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Date: Tuesday March 31, 2015 @ 7:07 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv29540 Modified Files: psi-ms.obo Added Files: 2009_Schober_etal_Survey-based naming conventions for use in OBO Foundry ontology development.pdf Log Message: New version 3.75.0. of psi-ms.obo |
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From: Gerhard M. <ger...@us...> - 2015-03-10 15:39:27
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Date: Tuesday March 10, 2015 @ 15:39 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv3445 Modified Files: lastID.txt psi-ms.obo Log Message: New version 3.74.0 |
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From: Gerhard M. <ger...@us...> - 2015-02-27 08:11:05
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Date: Friday February 27, 2015 @ 8:11 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv22027 Modified Files: lastID.txt psi-ms.obo Log Message: Version 3.73.0: ========= - new terms for localization score thresholds - added string value-types for PTM location scores - updated definitions for some PTM site location terms. |
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From: Gerhard M. <ger...@us...> - 2015-02-19 08:15:46
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Date: Thursday February 19, 2015 @ 8:15 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv30661 Modified Files: lastID.txt psi-ms.obo Log Message: Version 3.72.0: ========= obsoletions for ProteomeDiscoverer static and dynamic modification terms and new terms for: - PTM localization scoring - PeptideShaker confidence levels - the xi cross-linking software - for spectral counting indices - peptide-level PTM localization scoring |
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From: Gerhard M. <ger...@us...> - 2014-11-14 14:50:17
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Date: Friday November 14, 2014 @ 14:50 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv6171 Modified Files: lastID.txt psi-ms.obo Log Message: New version 3.71.0: ============ Two new CV terms for scores of the ProLuCID software. |
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From: Gerhard M. <ger...@us...> - 2014-11-03 13:32:41
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Date: Monday November 3, 2014 @ 13:32 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv12970 Modified Files: psi-ms.obo Log Message: Version 3.70.1: ========= Corrected is_a relationshipss for terms MS:1002362 and MS:1002367 |
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From: Gerhard M. <ger...@us...> - 2014-11-03 08:21:56
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Date: Monday November 3, 2014 @ 8:21 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv13816 Modified Files: lastID.txt psi-ms.obo Log Message: Version 3.70.0: ========= - Added term 'TripleTOF 6600' - Corrected four is-a relationships |
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From: Gerhard M. <ger...@us...> - 2014-10-10 08:32:10
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Date: Friday October 10, 2014 @ 8:32 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv11897 Modified Files: lastID.txt psi-ms.obo Log Message: Version 3.69.0: ========= - Corrections of the is_a relations for some MS-GF scores - 2 new UIMF format terms. |
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From: Gerhard M. <ger...@us...> - 2014-09-15 06:24:25
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Date: Monday September 15, 2014 @ 6:24 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv25008 Modified Files: lastID.txt psi-ms.obo Log Message: Version 3.68.0: ========= - 2 new binary data arrays - De-obsoletion of "sample name" |
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From: Gerhard M. <ger...@us...> - 2014-08-26 11:36:28
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Date: Tuesday August 26, 2014 @ 11:36 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv3799 Modified Files: psi-ms.obo Log Message: Escapes in regexp for MS:1002480 |
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From: Gerhard M. <ger...@us...> - 2014-08-26 11:18:00
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Date: Tuesday August 26, 2014 @ 11:17 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv2540 Modified Files: psi-ms.obo Log Message: Use of ASCII character classes in regexp for MS:1001922 and MS:1002480 (instead of \S) |
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From: Gerhard M. <ger...@us...> - 2014-08-13 11:32:18
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Date: Wednesday August 13, 2014 @ 11:32 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv10753 Modified Files: lastID.txt oboedit_notes.txt psi-ms.obo psi-ms_ontology.txt Log Message: Version 3.67.0: ========= - terms for new Thermo Scientific instruments / software - phosphoRS terms aren't anymore restricted to ProteomeDiscoverer - the whole purgatory branch is now obsoleted |
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From: Gerhard M. <ger...@us...> - 2014-07-15 07:11:45
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Date: Tuesday July 15, 2014 @ 7:11 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv20598 Modified Files: psi-ms.obo Log Message: Fixed two format issues reported by BioPortal |
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From: Gerhard M. <ger...@us...> - 2014-07-11 14:52:05
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Date: Friday July 11, 2014 @ 14:52 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv3217 Modified Files: lastID.txt psi-ms.obo Log Message: 3.66.0: new terms for peptide grouping and mass spectrometry imaging. |
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From: Gerhard M. <ger...@us...> - 2014-07-04 13:49:30
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Date: Friday July 4, 2014 @ 13:49 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv21763 Modified Files: psi-ms.obo Log Message: Removed a blank |
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From: Gerhard M. <ger...@us...> - 2014-07-02 06:59:01
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Date: Wednesday July 2, 2014 @ 6:59 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv28840 Modified Files: lastID.txt psi-ms.obo Log Message: Version 3.65.0 containing a new "statistical threshold" term as parent of the different thresholding mechanisms, two new terms for MassIVE and a bunch of new terms for use in the coming mzIdentML version 1.2 (for peptide-level scoring, modification localization re-scoring and cross-linking) and for absolute quantitation. |
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From: Gerhard M. <ger...@us...> - 2014-06-18 06:45:17
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Date: Wednesday June 18, 2014 @ 6:45 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv10945 Modified Files: psi-ms.obo Log Message: Corrected parsing problems: ================= - trailing tab in line 12526 - escaping { and } characters as \{ and \} |
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From: Gerhard M. <ger...@us...> - 2014-05-21 06:38:58
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Date: Wednesday May 21, 2014 @ 6:38 Author: gerhard64mayer http://cvs.sourceforge.net/cgi-bin/viewcvs.cgi/psidev/psi/psi-ms/mzML/controlledVocabulary Update of /cvsroot/psidev/psi/psi-ms/mzML/controlledVocabulary In directory sfp-cvs-1.v30.ch3.sourceforge.com:/tmp/cvs-serv12209 Modified Files: lastID.txt psi-ms.obo Added Files: 2013_Schober_Mayer_etal_ODLS2013_Ontological analysis of controlled vocabularies used in PSIMSI supported XML standards.pdf MS_Abbreviations.txt Log Message: New version 3.64.0 of psi-ms.obo: ===================== - New terms for mzTab, for specifying the neutral losses, for collision-induced dissociation, for ion mobility MS, for PeptideShaker and for ProteoAnnotator. - The neutral losses are now defined as terms independently from the ions in order to decouple the two concepts ion and neutral loss from each other. - The old neutral loss terms have now the suffix " DEPRECATED" in their name, but are not obsoleted. The new parent term "ion series considered in search" (MS:1002473) now contains all the ions and neutral loss terms. - some terms from the purgatory branch are now obsolete. - corrected some spelling errors in definitions. |
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