github.com/OpenMS/OpenMS commits | Ecosyste.ms: OpenCollective

changed factory name

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3267 6adb6e08-d915-0410-9...

de5c3d53c90be4719f0c1353f86293d454d793c7 authored over 16 years ago by Marcel Grunert <[email protected]>

FeatureXMLFile: made the feature 'id' a non-optional and non-empty string (old files should remain valid); TOPPViewBase: fix for windows?; Spectrum2DCanvas: feature id is displayed now instead of feature number

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3266 6adb6e08-d915-0410-9...

20f318deddbd5005b02c1259b31a59e386fc75c8 authored over 16 years ago by Marc Sturm <[email protected]>

Removed unused code

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3265 6adb6e08-d915-0410-9...

9b0f12992ca70b497811898ac9befca8410debf8 authored over 16 years ago by Marc Sturm <[email protected]>

minor changes

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3264 6adb6e08-d915-0410-9...

ef0cc3b74035def22d7d8cc734502fa7464a4f6a authored over 16 years ago by Marc Sturm <[email protected]>

TOPPView: Rewritten the code that opens data from files/DB

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3263 6adb6e08-d915-0410-9...

0fb1fbe78c2f250fec61065f6bc19df323f46501 authored over 16 years ago by Marc Sturm <[email protected]>

There seems to be a strange problem with template instantiation here. Removed template, lets see if this will pass the nightly build.

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3262 6adb6e08-d915-0410-9...

a62f8afe57c96448cbfd292da83d43695676b759 authored over 16 years ago by Clemens Gröpl <[email protected]>

SpectrumCanvas: removed addEmptyPeakLayer() and made finishAdding_() protected

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3260 6adb6e08-d915-0410-9...

e7270ee2449e8676f6f990aa3ea311c508f5b7a1 authored over 16 years ago by Marc Sturm <[email protected]>

SpectrumCanvas: made context menu extensible; TOPPView: added Layer menu to main menu, Changed mask for all files from '*.*' to '*'

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3257 6adb6e08-d915-0410-9...

6bbad88761ecde919f52c454ca42f43af0bac42e authored over 16 years ago by Marc Sturm <[email protected]>

Also added PTModel and PTPredict to documentation

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3256 6adb6e08-d915-0410-9...

a548dc58a6f970dd203f932b1d49faeccbbf718b authored over 16 years ago by NicoPfeifer <[email protected]>

fixed variable modifications bug in pepXML file adapter (used by MascotAdapter)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3255 6adb6e08-d915-0410-9...

5e97be3282f1e57ccfaf87e3450cac0de07d779e authored over 16 years ago by Andreas Bertsch <[email protected]>

Added new TOPP tools to ignore list

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3254 6adb6e08-d915-0410-9...

2648ab75e0e7e6da570016a88eabef88425222d2 authored over 16 years ago by NicoPfeifer <[email protected]>

virtual method setInitialParameters_

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3250 6adb6e08-d915-0410-9...

1be398c9711f215cdeb5d0198aed831099300329 authored over 16 years ago by Marcel Grunert <[email protected]>

changed behaviour of AASequence in case of unparsable sequence string and modification; only warning any more; improved IDDecoy implementation

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3246 6adb6e08-d915-0410-9...

2d451d9ac010c9d66b73d11a35c18da653ca3b02 authored over 16 years ago by Andreas Bertsch <[email protected]>

TOPPView: Fixed mysterious crash in QMessageBox by showing error messages in log_ window; SteinScore: formating changes

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3245 6adb6e08-d915-0410-9...

b287e4ca00c64bd4c4e5078b08fceba39b90d7d9 authored over 16 years ago by Marc Sturm <[email protected]>

Fixed 'make clean'

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3244 6adb6e08-d915-0410-9...

5db66eecde5b70787008de223ef6ead7429a1c2f authored over 16 years ago by Marc Sturm <[email protected]>

Spectrum1DCanvas: PeakIndex is used for selcted peak now; TOPPView: fixed crash when updated files are invalid; TOPPView: made all layers deletable

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3243 6adb6e08-d915-0410-9...

5601af01866b28e67da2fcab2c2cf4a9fc6d07fe authored over 16 years ago by Marc Sturm <[email protected]>

Fixed bug in MascotXMLHandler concerning modifications

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3242 6adb6e08-d915-0410-9...

73ac3fcce7865bd036aa9a247d272bd3a1184cae authored over 16 years ago by NicoPfeifer <[email protected]>

politically correct again

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3241 6adb6e08-d915-0410-9...

8488469fe6d7ec8878f115891ca5b992666c42b2 authored over 16 years ago by NicoPfeifer <[email protected]>

unwindowsify

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3240 6adb6e08-d915-0410-9...

3afe88ebd89a4a4bcf0b46b04d627f749fdcf135 authored over 16 years ago by Marc Sturm <[email protected]>

missing files

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3239 6adb6e08-d915-0410-9...

f93e4863997b5b6e94ce87091bb9d21b36109a22 authored over 16 years ago by Marc Sturm <[email protected]>

missing files

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3238 6adb6e08-d915-0410-9...

dd331f9b6141217fa944c07beeefd19036ec43d4 authored over 16 years ago by Marc Sturm <[email protected]>

Added UTILS to docu; Added TextExporter to TOPP tutorial; added search engine to OpenMS tutorial

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3237 6adb6e08-d915-0410-9...

9a2c3959f08238f9001555e34b2e1277005800d8 authored over 16 years ago by Marc Sturm <[email protected]>

// -*- Mode: C++; tab-width: 2; -*-

// vi: set ts=2:
//
// --------------------------------------------------------------------------...

16c33cf735d2e4c54ceefed48c02e5d44e7ead1e authored over 16 years ago by Vipul Patel <[email protected]>

// -*- Mode: C++; tab-width: 2; -*-

// vi: set ts=2:
//
// --------------------------------------------------------------------------...

108031f49bbcfdb125e8a39fbafbd682247a5a14 authored over 16 years ago by Vipul Patel <[email protected]>

added forgotten schema

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3234 6adb6e08-d915-0410-9...

6a6bc74acbfa7400e050d20884ba3c55fbf59cac authored over 16 years ago by Marc Sturm <[email protected]>

// -*- Mode: C++; tab-width: 2; -*-

// vi: set ts=2:
//
// --------------------------------------------------------------------------...

2f29a4377069683b005645585ff7cf464b80955f authored over 16 years ago by Vipul Patel <[email protected]>

changed handling of peptide hits of MascotXML/pepXML... aaarrgghh

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3232 6adb6e08-d915-0410-9...

0d192b04c9880511a18726b042841eb1fbb129f1 authored over 16 years ago by Andreas Bertsch <[email protected]>

fixed wrong exception

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3231 6adb6e08-d915-0410-9...

3bb33b8f1b6a9a70cc79193f9482fa1a395222c4 authored over 16 years ago by Andreas Bertsch <[email protected]>

fixed deep bug in isotope wavelet transform

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3230 6adb6e08-d915-0410-9...

4878238ecc4b6eb76ca403fe43be3de1a6ad3976 authored over 16 years ago by Rene Hussong <[email protected]>

added XMLValidator tool to UTILS and added old schema versions to validate against

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3229 6adb6e08-d915-0410-9...

ad54206b4da2bb33617b549ca66f33654bf40105 authored over 16 years ago by Marc Sturm <[email protected]>

Updated information

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3228 6adb6e08-d915-0410-9...

499afcfbc999a0ed7635ad3c0fa4c10aebdd6050 authored over 16 years ago by NicoPfeifer <[email protected]>

fixed parameters documentation

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3227 6adb6e08-d915-0410-9...

19372db326ec397cae4f73a5e03e9d7ab1bf164e authored over 16 years ago by Clemens Gröpl <[email protected]>

Further work on MAPMATCHING. Also, improved reporting of column numbers in FuzzyStringComparator. Now it will direct your editor exactly to the point where the error is :-)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3226 6adb6e08-d915-0410-9...

8a58e73386371df7b3e6f1fe1e35b79fa8aaff82 authored over 16 years ago by Clemens Gröpl <[email protected]>

model now transforms training data sets into non redundant sets (unless flag redundant is set)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3225 6adb6e08-d915-0410-9...

60c6934b59f0e1e5a4ddd765cc552750628f8eb3 authored over 16 years ago by NicoPfeifer <[email protected]>

Added PTModel and PTPredict and added extra tag for MascotAdapter

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3224 6adb6e08-d915-0410-9...

285b7744dd830db9a7db32656a878989360ad815 authored over 16 years ago by NicoPfeifer <[email protected]>

slight changes to TOPP test tmp file handling

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3223 6adb6e08-d915-0410-9...

e6fd284720d93143e5dae68507eafe1ee1b7c078 authored over 16 years ago by Marc Sturm <[email protected]>

fixed some style issues

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3222 6adb6e08-d915-0410-9...

986eb813dda54d114d2d8fbd14687c6fe8fa19cf authored over 16 years ago by Andreas Bertsch <[email protected]>

fixed some errors

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3221 6adb6e08-d915-0410-9...

f89d41408ac8b02059e1870929b6316c2ed26af0 authored over 16 years ago by Andreas Bertsch <[email protected]>

Updated XSLT information in TOPP tutorial

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3220 6adb6e08-d915-0410-9...

dbec08d765386907505c9b06e395900ccab797e3 authored over 16 years ago by NicoPfeifer <[email protected]>

Added XSLT to IdXML

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3217 6adb6e08-d915-0410-9...

25a24855193ca31fcc62a5827071abcf196bdb2a authored over 16 years ago by Marc Sturm <[email protected]>

fixed wrong user mods handling

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3216 6adb6e08-d915-0410-9...

0dcf56d9753c9692f5ea154b80dc6a4f86c410a4 authored over 16 years ago by Andreas Bertsch <[email protected]>

TOPPView: Results of TOPP tools are now always opened in the correct window

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3215 6adb6e08-d915-0410-9...

5d22f639cebf7f46c6ecb2ea42d7764f82a7a5fc authored over 16 years ago by Marc Sturm <[email protected]>

TOPPView: menu entries are now enabled/disabled according to the current state

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3214 6adb6e08-d915-0410-9...

15d7fea87e6ad8fb0fcae73845567bafb72b7640 authored over 16 years ago by Marc Sturm <[email protected]>

Made filtering by proteins a little bit less restrictive (prefixes of accessions instead of the whole accession)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3212 6adb6e08-d915-0410-9...

5bc088a255f3904a11372e7e2cb377deee6194ee authored over 16 years ago by NicoPfeifer <[email protected]>

Digestor updated

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3211 6adb6e08-d915-0410-9...

606c5b1dd599e82d995c5f3ec57007ff02e870a1 authored over 16 years ago by NicoPfeifer <[email protected]>

Added URL to help menu

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3210 6adb6e08-d915-0410-9...

39e6c459e3f37d5b53bae73c944ece9312453baf authored over 16 years ago by Marc Sturm <[email protected]>

worked on FeatureLinker -type unlabeled, implemented new interface in BasePairFinder

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3209 6adb6e08-d915-0410-9...

86b2e682c58187cec8b42b3661142813b5e55e8e authored over 16 years ago by Clemens Gröpl <[email protected]>

Renamed DBSpectrumSelectorDialog to DBOpenDialog; Replaced OpenDialog by TOPPViewOpenDialog

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3208 6adb6e08-d915-0410-9...

6563af3be71e9c6aacb576c7afc550442f51c9a3 authored over 16 years ago by Marc Sturm <[email protected]>

added some tests; code cleanup

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3207 6adb6e08-d915-0410-9...

93b5a34108f727ac952fd8d3962ab5342502ad70 authored over 16 years ago by Andreas Bertsch <[email protected]>

TOPPView: fixed oscilating between windows when opening multiple files; fixed bug that caused windows to open non-maximized; fixed repainint when deleting layers that do not change the overall displayed area

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3206 6adb6e08-d915-0410-9...

0c9505f8b37ea56abd7f26b70cfd065cd355750e authored over 16 years ago by Marc Sturm <[email protected]>

TOPPView: fixed oscilating between windows when opening multiple files; fixed bug that caused windows to open non-maximized; fixed repainint when deleting layers that do not change the overall displayed area

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3205 6adb6e08-d915-0410-9...

e040df2acdeb1b3b171b1553bd7eb1d98a62f9fc authored over 16 years ago by Marc Sturm <[email protected]>

added some tests; fixed errors in AASequence

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3201 6adb6e08-d915-0410-9...

f69d134bb20e2c2103c47d60969339759a621c92 authored over 16 years ago by Andreas Bertsch <[email protected]>

added some tests

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3199 6adb6e08-d915-0410-9...

1073dff65b9497108d23eb4f1e35c79735cdb753 authored over 16 years ago by Andreas Bertsch <[email protected]>

changed seed extension

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3198 6adb6e08-d915-0410-9...

09973d98be248dbd1f662eab09299942fb9d2f20 authored over 16 years ago by Marcel Grunert <[email protected]>

Added also the headers...

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3197 6adb6e08-d915-0410-9...

9a7b3e3e34724d82f7031d4793e14b7588370337 authored over 16 years ago by NicoPfeifer <[email protected]>

Removed FASTAFile misunderstandings

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3196 6adb6e08-d915-0410-9...

1a67a105f4d93fcf0c827780ee5a27bd3f2f01ed authored over 16 years ago by NicoPfeifer <[email protected]>

Fixed focus issues (replaced grabKeyboard by setFocus; removed unneeded function calls in 3D view; simplifications to TOPPViewBase and using qobject_cast now

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3194 6adb6e08-d915-0410-9...

2d7c9e4dda0d15e5aa6f1b4286037453b26a3b14 authored over 16 years ago by Marc Sturm <[email protected]>

undo of QMdiArea use. This did not work at all

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3193 6adb6e08-d915-0410-9...

0203be52869f9f7b22f42b51faf6f88234d8cd7a authored over 16 years ago by Marc Sturm <[email protected]>

added fixed and terminal modifications support to pepXMLfile for MascotAdapter

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3192 6adb6e08-d915-0410-9...

b4fb21d18b92d9e73e5f339527ef60f72c7518af authored over 16 years ago by Andreas Bertsch <[email protected]>

TOPPViewBase: removed window maximization stuff, used QMdiArea instead of deprecated QWorkspace; SpectrumCanvas: fixed focusing problem; FileWatcher: updated interface

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3191 6adb6e08-d915-0410-9...

3fbb76711678cf4c663a4e71e47bdef504cac5e9 authored over 16 years ago by Marc Sturm <[email protected]>

fixed AASequence test in windoes

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3190 6adb6e08-d915-0410-9...

d1ba27bf066ba4b8775c9eda0822c186d10ffbac authored over 16 years ago by Andreas Bertsch <[email protected]>

fixed some bugs; added tests to XTandemInfile_test

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3189 6adb6e08-d915-0410-9...

d358e590b7c87ffcf4019b38613c80bf1b4198d1 authored over 16 years ago by Andreas Bertsch <[email protected]>

IDFilter enhancements

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3188 6adb6e08-d915-0410-9...

b0423a8ed26293a10ccb2108b9b7c7c9c0fe4fa5 authored over 16 years ago by NicoPfeifer <[email protected]>

fixed Tutorial_Residue; added fixed modification to output of OMSSAAdapter

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3187 6adb6e08-d915-0410-9...

d6d40afb36b5c2c3d5f19c4b6ba5ee6547261be6 authored over 16 years ago by Andreas Bertsch <[email protected]>

improved OMSSA and XTandem adapters

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3186 6adb6e08-d915-0410-9...

d5d8ffc7900e3a45879d4a8fcc1c793eed43d1ec authored over 16 years ago by Andreas Bertsch <[email protected]>

Identifier added

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3185 6adb6e08-d915-0410-9...

87a23ea47bba837da1133d29e82784e53ce37897 authored over 16 years ago by NicoPfeifer <[email protected]>

updated quantitation tutorial

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3184 6adb6e08-d915-0410-9...

ef93c5caecb778daec6a41398426d6f3d1de6d47 authored over 16 years ago by Marc Sturm <[email protected]>

Updated tutorial: added structure, resized some images, updated map alignment

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3183 6adb6e08-d915-0410-9...

aaf45fd6432dcb06e9257d210a218296f0a828f5 authored over 16 years ago by Marc Sturm <[email protected]>

Updated OpenMS tutorial examples

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3182 6adb6e08-d915-0410-9...

a3e4c8d720b0f22788a3394779697928f5d3b214 authored over 16 years ago by Marc Sturm <[email protected]>

Removed metabolite FF; update OpenMS tutorial; Fixed test errors in map alignment and feature grouping classes

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3181 6adb6e08-d915-0410-9...

ccd24ac26d7f9eacb190556cad19d7b014fe9af7 authored over 16 years ago by Marc Sturm <[email protected]>

fixed too restictive test

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3180 6adb6e08-d915-0410-9...

01d264dcc454f92bbbf3d31cbd84ac4c7398b4bf authored over 16 years ago by Andreas Bertsch <[email protected]>

added auto-user-mods to OMSSAAdapter if PSI-mods are not available in OMSSA

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3178 6adb6e08-d915-0410-9...

718c8a4c0e686337f3e5dfe8cc26cfd9e9aa1bee authored over 16 years ago by Andreas Bertsch <[email protected]>

added false discovery rate estimation

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3177 6adb6e08-d915-0410-9...

d613588838cf578dc828e1fc924f0804b2906992 authored over 16 years ago by Andreas Bertsch <[email protected]>

Added first version of metabolite FF

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3176 6adb6e08-d915-0410-9...

8a852ef6c39002733b5efc659ff8c49084621935 authored over 16 years ago by Marc Sturm <[email protected]>

Added small application for digesting proteins in-silico

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3175 6adb6e08-d915-0410-9...

163b6f153850b9266c996de4a65bee3a1409f062 authored over 16 years ago by NicoPfeifer <[email protected]>

added some optimizations and debug output

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3174 6adb6e08-d915-0410-9...

4e09a962892e1e81d5b89f45b6e37f39be5c292d authored over 16 years ago by Marcel Grunert <[email protected]>

First patches for GCC 4.3.0; minor fix of UIC file generation after 'make default_clean'

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3173 6adb6e08-d915-0410-9...

c1f838091fc7d5f06d422f77538d53c81000cd74 authored over 16 years ago by Marc Sturm <[email protected]>

XTandemAdapter improvements

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3172 6adb6e08-d915-0410-9...

faf16e3e0fe95205e2c7d3c072c803fa9cc3a63a authored over 16 years ago by Andreas Bertsch <[email protected]>

fixed bug if no protein hits present

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3171 6adb6e08-d915-0410-9...

44fcbc3762f5a5c5cf3974e3b55c2f11035d6152 authored over 16 years ago by Andreas Bertsch <[email protected]>

fixed a load of gcc 4.3.0 errors

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3170 6adb6e08-d915-0410-9...

e48bb2534abbcfdab87e7fe8a546c35a3ad231e0 authored over 16 years ago by Andreas Bertsch <[email protected]>

fixed Martins anti C++ style

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3169 6adb6e08-d915-0410-9...

6b8f91b6c0c1fe92c396070c2ba456929d39899a authored over 16 years ago by Andreas Bertsch <[email protected]>

Updated TOPP tutorial

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3168 6adb6e08-d915-0410-9...

d8b7b104299c094da86174a58713cef6eca52f60 authored over 16 years ago by Marc Sturm <[email protected]>

fixed PepXMLFile_test.C

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3167 6adb6e08-d915-0410-9...

379d3575eff822597697613b130d2725c23cdd48 authored over 16 years ago by Andreas Bertsch <[email protected]>

enabled to Mascot modifications output parsing; some improvements to mod framework

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3166 6adb6e08-d915-0410-9...

ba9755b1968e6aaa6a1252941e312e35427619e7 authored over 16 years ago by Andreas Bertsch <[email protected]>

moved FileWatcher to SYSTEM

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3163 6adb6e08-d915-0410-9...

4dbaa560604913e5ca03798ae5527223b205be89 authored over 16 years ago by Marc Sturm <[email protected]>

ConsensusFeature: removed range variables (calculated on the fly now), consensus position is not updated automatically anymore

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3162 6adb6e08-d915-0410-9...

90f6dfb74b37f48e02a1b39033d39ef02c432b08 authored over 16 years ago by Marc Sturm <[email protected]>

Added tests for FeatureGroupingAlgorithm[Labeled]; minor other changes

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3161 6adb6e08-d915-0410-9...

c835465909fe584ffa020c35ad1eebd4c33f535d authored over 16 years ago by Marc Sturm <[email protected]>

ConsensusXMLFile now checks if the ConsensusMap is valid

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3160 6adb6e08-d915-0410-9...

20b9b57fc23b33be96301a82479a8158f085ca92 authored over 16 years ago by Marc Sturm <[email protected]>

Renamed IndexTuple to FeatureHandle; Merged Group into ConsensusFeature; Added delayed file updating to TOPPView; minor documenation changes

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3159 6adb6e08-d915-0410-9...

53b210f2c149fa1dfe20c45e2fe5976d9033d002 authored over 16 years ago by Marc Sturm <[email protected]>

renamed ResidueModification2 to ResidueModification; added some minor things to Mod framework; tests

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3158 6adb6e08-d915-0410-9...

ca281d1e494d2da0e5afe1bcc84d9835c94a0ee2 authored over 16 years ago by Andreas Bertsch <[email protected]>

Positions of modifications in Mascot

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3157 6adb6e08-d915-0410-9...

726c285a52a9e7d1049b479a7a4e7ca3899520b4 authored over 16 years ago by NicoPfeifer <[email protected]>

Modification in PepXML

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3156 6adb6e08-d915-0410-9...

0908462324657cfd8f069c74b09153447822d3ca authored over 16 years ago by NicoPfeifer <[email protected]>

changed output

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3155 6adb6e08-d915-0410-9...

dbed357fe88b6bcd7507ef49f9b190ded88cfef6 authored over 16 years ago by Marcel Grunert <[email protected]>

todo changes

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3154 6adb6e08-d915-0410-9...

7d9a48a636fde9a6ac07cc9787af06e321c0da05 authored over 16 years ago by Marc Sturm <[email protected]>

ToDo changes

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3153 6adb6e08-d915-0410-9...

81ec4c0b9fb046b7e74aebab49efd250796cab6a authored over 16 years ago by Marc Sturm <[email protected]>

svn commit -m documentation changes

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3152 6adb6e08-d915-0410-9...

8edf8e36c560863237de36df13fa27a2e1b5db02 authored over 16 years ago by Marc Sturm <[email protected]>

Alpha version of modification framework; it supports

modifications taken from the PSI-MOD ontologies. Most
features are working; OMSSA and XTandem ad...

2ce0009fcff9f8d84a1926daa7880dd59f61c352 authored over 16 years ago by Andreas Bertsch <[email protected]>

cleaned up a bit further

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3150 6adb6e08-d915-0410-9...

4b8cd7e5a85592d70fb3cb68fd3726732309b1c5 authored over 16 years ago by Marc Sturm <[email protected]>

removed part of the mz-scaling

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3149 6adb6e08-d915-0410-9...

081c8f330a3fbfda5f500c075a4201f13b9fb55b authored over 16 years ago by Marc Sturm <[email protected]>

cleaned up affine superimposer

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@3148 6adb6e08-d915-0410-9...

ca188559fafd0319fc388e6d92d7755a3b066244 authored over 16 years ago by Marc Sturm <[email protected]>