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

[Fix-#65] Added capitalization of file extensions to coding conventions.

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10042 6adb6e08-d915-0410...

6343c6ed8c8b3b980c65033af03f74bc96e48048 authored about 12 years ago by Johannes Veit <[email protected]>

Superhirn PATCH by Florian Zeller: Markus fixes for CentroidData.C - does only affect centroiding/picking

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10041 6adb6e08-d915-0410-...

7e98538ad6967e68fad418928c74b891e56bceef authored about 12 years ago by Hannes Roest <[email protected]>

Superhirn PATCH by Florian Zeller: Added test for FeatureFinderAlgorithmSH - no values tested yet

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10040 6adb6e08-d915-0410-...

cda7dbe04da4a0762ebc23b2b82a93d4692404aa authored about 12 years ago by Hannes Roest <[email protected]>

Superhirn PATCH by Florian Zeller: Superhirn working with current trunk. Most Superhirn code encapsulated in subfolders of the respective source/include folders.

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10039 6adb6e08-d915-0410-...

006bc5b9dd9ef85f77eac9e412eb6c4dc3c4a8b3 authored about 12 years ago by Hannes Roest <[email protected]>

[Fix-#65] minor corrections

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10038 6adb6e08-d915-0410...

f0a34b06d8b7b609f1f0edd59f9e80d10b4bd5e5 authored about 12 years ago by Johannes Veit <[email protected]>

[FIX-#65] Reverted SCHEMAS and XSLT back to r9992.

* also reverted FooFile.C and test data
* fixed more tests

git-svn-id: https://open-ms.svn.so...

3130c847ba6a17c64146774edddd077cff5717ed authored about 12 years ago by Johannes Veit <[email protected]>

[INTERNAL] removed some warnings

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10036 6adb6e08-d915-0410-...

2114315e304eb55c90f63ef01b667bdb72a6078c authored about 12 years ago by Chris Bielow <[email protected]>

[FEATURE] addendum to r10025, fixing #402 (show raw data without MS1 in TOPPView)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10035 6adb6e08-d915-0410-...

d883a9b2082a6a2a058913ea5cae5ef926c45e9f authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] fixed bug introduced in r10033

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10034 6adb6e08-d915-0410-...

6deafc8133e7043b97a565a4e575b6e4096933fc authored about 12 years ago by Chris Bielow <[email protected]>

[FEATURE] solved #461 (FileFilter MS2 spectra removal by blacklisting)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10033 6adb6e08-d915-0410-...

9611eebe418506c6d612b528c1b06bafc5b45f83 authored about 12 years ago by Chris Bielow <[email protected]>

[Fix] Removed license from ini file (fixed RTModel test)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10032 6adb6e08-d915-0410...

8e8ea420649457e8731f2e306eb57e6601ad18a7 authored about 12 years ago by Johannes Veit <[email protected]>

[Fix-#65] Fixed tests (part1)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10031 6adb6e08-d915-0410...

26b1e14c74e7ce4297e041c5e72bfaf89ae6299e authored about 12 years ago by Johannes Veit <[email protected]>

[FIX, INTERNAL] * added infrastructure for optional SearchEngine tests

* added TOPP tests for OMSSAAdapter (all others are TODO)

git-svn-id: https://open-ms.svn.sourc...

bb7936501a7f748b9ffa257fa355db86fb729dd5 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX-#65] Forgot to fix capitalization in UTILS last time...

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10029 6adb6e08-d915-041...

280c53563160abac7979e49eff9cc7ab6b074ed4 authored about 12 years ago by Johannes Veit <[email protected]>

[NOP] License change of forgotten files, remove old COPYRIGHT files

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10028 6adb6e08-d915-0410-...

9bace577b95e03f07204427ea3df0d9eeeb5d93e authored about 12 years ago by Hannes Roest <[email protected]>

[Fix-#65] Fixed capitalization of all remaining supported file types

* Renamed all example files with wrong extension
* Renamed schemata (TrafoXML -> trafoXML, TraML...

39c2523ed489e47bd5ce6ebba3179be1a89ad747 authored about 12 years ago by Johannes Veit <[email protected]>

[FIX-#459] fix findNearestPeak_() returning the first available peak, not the most intense

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10026 6adb6e08-d915-0410-...

a0b432bb84787bacff46a28439fefe9798512c4c authored about 12 years ago by Hannes Roest <[email protected]>

[FEATURE] 2D range of MSExperiments with MS level == 1 is now also considering MS2 precursor information from MS2 spectra (for showing in TOPPView)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10025 6adb6e08-d915-0410-...

83d36673dda53227c9ac9d5bde0b51481f5d1e2a authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] Fixed some glitches in MassTraceDetection (changed filtering rules for mass traces)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10024 6adb6e08-d915-0410-...

b7e4618e1116b24c9cb47f1f30b8648a14b907a2 authored about 12 years ago by Erhan Kenar <[email protected]>

[FIXED-#437] removed buggy integration of TOPPAS in TOPPView

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10023 6adb6e08-d915-0410-...

0a11e0b4b3ef39923082de487fb72adedc21cf0c authored about 12 years ago by Timo Sachsenberg <[email protected]>

[NOP] reverted errornous commit

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10022 6adb6e08-d915-0410-...

f92a1f8b0f8148b375968921df6ac416536b7e7d authored about 12 years ago by Timo Sachsenberg <[email protected]>

[FIXED-#437] removed buggy implemenation of TOPPAS in TOPPView

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10021 6adb6e08-d915-0410-...

8b4b0ae5ec318e0baadadb2b1b44d1d77cbd6c06 authored about 12 years ago by Timo Sachsenberg <[email protected]>

[FIX] fixed ElutionPeakDetection (compile error due to Unsigned loop type in OpenMP) + thread-safe progress report

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10020 6adb6e08-d915-0410-...

046dfc20f769035858277c017fd09f5e3771d140 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] TOPPView theoretical spectra are now generated with precursor information and ms level 2 instead of 1"

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10019 6adb6e08-d915-0410...

7dfe9dab17913dd69fa6835e94e1294f01dbea6a authored about 12 years ago by Timo Sachsenberg <[email protected]>

removed incorrect OpenMP pragma (shared) to get it to compile

unter OSX 10.8

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10018 6ad...

fbe51ec09f0a36b72dedb776835308d304763f77 authored about 12 years ago by Oliver Kohlbacher <[email protected]>

[FIX] Fixed schemas and example files of consensusXML and idXML

For the sake of compatibility, the <idXML> and <consensusXML> elements
were re-renamed to <IdXML...

3c82fa9dae2b4576e8ed161798142cabb08f9e74 authored about 12 years ago by Johannes Veit <[email protected]>

Exterminated "IdXML". Everything is "idXML" now.

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10014 6adb6e08-d915-0410...

7d41c8066785c98d4da892f2919977b38981789f authored about 12 years ago by Johannes Veit <[email protected]>

[FIX] fixed bug (?) in FFCentroided from r10009

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10013 6adb6e08-d915-0410...

c958cf9b5c13e8419ef1098c3eb4a224da388ceb authored about 12 years ago by Johannes Veit <[email protected]>

gsl boost replace

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10012 6adb6e08-d915-0410-...

d01c971fa42a4d27b78a36b4ff8216aa262063ba authored about 12 years ago by Witold Wolski <[email protected]>

[FIX] fix for #369; replaced reading of FASTA with seqan::RecordReader which should have better performance and fix the error described in #369

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10011 6adb6e08-d915-0410-...

a6ddd4a503191a0425a6608f268abdec32e2eaa3 authored about 12 years ago by Stephan Aiche <[email protected]>

[INTERNAL] minor addition to r10008

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10009 6adb6e08-d915-0410-...

8d6de40cfa389d0d7cfbf42a83fc9cb99b377d64 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX, FEATURE] * augmented #453 (parallelization of FFcentroided on different level)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10008 6adb6e08-d915-0410-...

c2f34c0694f84231ae694733d2b04777fe41779a authored about 12 years ago by Chris Bielow <[email protected]>

[FEATURE] Added multi-threading to ElutionPeakDetection (testing ongoing)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10007 6adb6e08-d915-0410-...

fbc5df259e768d182b2bec796cfd2276ce7c1246 authored about 12 years ago by Erhan Kenar <[email protected]>

[FIX] reverting to previous revision (IonizationSimulation.C and RawMSSignalSimulation.C were affected)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10006 6adb6e08-d915-0410-...

35379ed5bd9d066f2399b3d6a8885136c9cbf8ae authored about 12 years ago by Erhan Kenar <[email protected]>

[FEATURE] Multi-threading support for ElutionPeakDetection (not tested)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10005 6adb6e08-d915-0410-...

4e2871d349e4e0984bded7839e4d69a82215998f authored about 12 years ago by Erhan Kenar <[email protected]>

[FIX, INTERNAL] * compile error for VS2005 in IDFilter.h fixed introduced in r9946

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10004 6adb6e08-d915-0410-...

d900b6f81fd1c9a15a6a8daafb0c644effe3c77d authored about 12 years ago by Chris Bielow <[email protected]>

[NOP] fixed platform specific line endings and added missing native line endings property

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10003 6adb6e08-d915-0410-...

3c3ccc1876bab7ddd2659397a8f6803597d5affa authored about 12 years ago by Stephan Aiche <[email protected]>

[INTERNAL] * made CTD targets optional, use ENABLE_CDTSUPPORT to enable

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10002 6adb6e08-d915-0410-...

317fe4b093afcb091c462346ca64947a6b8f18df authored about 12 years ago by Chris Bielow <[email protected]>

Removed elephant.txt

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10001 6adb6e08-d915-0410-...

bf412bd51c45016c8433fffca0d61b7f7fc652b7 authored about 12 years ago by Johannes Veit <[email protected]>

Added elephant.txt

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@10000 6adb6e08-d915-0410-...

80344293ff1e756d13b38a61bc171c06c33df35e authored about 12 years ago by Johannes Veit <[email protected]>

[DOC] updated supported Windows compilers

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9999 6adb6e08-d915-0410-9...

26d9df11a0e7596bfa556d87bd659cf2b3cec367 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] fixed failing test due to required in_featureXML flag; made flag optional (introduced in [9987])

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9998 6adb6e08-d915-0410-9...

513faddfa73a5a4d97c7cbb315957f1f172ba5c7 authored about 12 years ago by Stephan Aiche <[email protected]>

[FEATURE-#396] log the name and execution time of TOPP tool -- by Alexey Stukalov

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9997 6adb6e08-d915-0410-9...

deda48a970edfa2149fb988e6c0ac2298595d9ce authored about 12 years ago by Hannes Roest <[email protected]>

[GUI,FEATURE-#394] zoom such that current screen point is fixed -- by Alexey Stukalov

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9996 6adb6e08-d915-0410-9...

5f59f12bd6ede20487156ea44c813cc75ee54c79 authored about 12 years ago by Hannes Roest <[email protected]>

Reverse-merged 9994:9992 for CHANGELOG

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9995 6adb6e08-d915-0410-9...

58505270c163f3b2014e561c0ba0334a8fc3be46 authored about 12 years ago by Johannes Veit <[email protected]>

Exterminated "ConsensusXML", everything is "consensusXML" now.

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9994 6adb6e08-d915-0410...

b228e58c3f1dad15f8ea4ce09b1c4024d2260967 authored about 12 years ago by Johannes Veit <[email protected]>

Exterminated "FeatureXML", everything is "featureXML" now.

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9993 6adb6e08-d915-0410...

bef4af8379dfe64e41113cf61c2b127b7ebbedff authored about 12 years ago by Johannes Veit <[email protected]>

[FEATURE] ImageCreator: feature centrum displayed

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9992 6adb6e08-d915-0410-9...

8a4335e25c285cac152d615bc1a6db758b819e5f authored about 12 years ago by Timo Sachsenberg <[email protected]>

[FEATURE] ImageCreator: set background color now possible

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9991 6adb6e08-d915-0410-9...

a0be5ee9c1be30e65a79b368e1e43a77fee20d7b authored about 12 years ago by Timo Sachsenberg <[email protected]>

gsl boost replace

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9990 6adb6e08-d915-0410-9...

1674fd47ec39d8a3626cc56a476ef0fb33d18a5c authored about 12 years ago by Witold Wolski <[email protected]>

[FIX] addendum to [9985]; fixed QString to << problem

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9989 6adb6e08-d915-0410-9...

fa06f4dec2a44bbc0ff3ab2dddad6ed3100db06e authored about 12 years ago by Stephan Aiche <[email protected]>

[INTERNAL] added a safety check, updated license to BSD

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9988 6adb6e08-d915-0410-9...

5950166f3ecf7081ff89c939f3e0609278c4df4d authored about 12 years ago by Hendrik Weisser <[email protected]>

[FEATURE] ImageCreator: drawing of feature boundaries if featureXML provided

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9987 6adb6e08-d915-0410-9...

c4882270750b41ab60f5f9c6b9bcec17f065c4fb authored about 12 years ago by Timo Sachsenberg <[email protected]>

[GUI,FEATURE] Added "Clear" Knopf to context menu of TOPPAS log window

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9986 6adb6e08-d915-0410...

8e6b30ff51223ad99019ecf2492e9e88f96b4a4b authored about 12 years ago by Johannes Veit <[email protected]>

[FIX#195] * if default config file cannot be written, a warning is emitted and the defaults are used

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9985 6adb6e08-d915-0410-9...

d197555a7b93b22ce41f03b1ab51edaab0e78871 authored about 12 years ago by Chris Bielow <[email protected]>

gsl boost replace

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9984 6adb6e08-d915-0410-9...

5de441f25f749ac730407ea54a7ae335ff0f43ea authored about 12 years ago by Witold Wolski <[email protected]>

boost gsl replace

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9983 6adb6e08-d915-0410-9...

52d9ff3a32601e2670c6513047f31280f97971de authored about 12 years ago by Witold Wolski <[email protected]>

[NOP] License change to BSD

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9982 6adb6e08-d915-0410-9...

994be4e0fb07365b2b3685435f720e28a13f1952 authored about 12 years ago by Hendrik Weisser <[email protected]>

[FIX] Fixed ticket #407

You can now press "OK" in TOPPAS parameter dialog without crashing the workflow (if no parameter ...

809595ce82ef82247d8382b79ac3ded886b1e813 authored about 12 years ago by Johannes Veit <[email protected]>

[NOP] License change; all code .C and .h files are now under BSD-3-clause; part 4

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9980 6adb6e08-d915-0410-9...

e091dce960a7382b6b8f8787c950d905e4f75313 authored about 12 years ago by Stephan Aiche <[email protected]>

[NOP] License change; all code .C and .h files are now under BSD-3-clause; part 3

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9979 6adb6e08-d915-0410-9...

d95679cbdffa805bcac24f7882ffbdc0cb72315d authored about 12 years ago by Stephan Aiche <[email protected]>

[NOP] License change; all code .C and .h files are now under BSD-3-clause; part 2

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9978 6adb6e08-d915-0410-9...

74628fac78b3a0141f61d2cf108f6f6b3aaf4654 authored about 12 years ago by Stephan Aiche <[email protected]>

[NOP] License change; all code .C and .h files are now under BSD-3-clause; part 1

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9977 6adb6e08-d915-0410-9...

495976ae65651a2d5dc711be13efcb60c27b7ea3 authored about 12 years ago by Stephan Aiche <[email protected]>

[FIX] extend TOPPTool description: SGolay requires uniform data

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9976 6adb6e08-d915-0410-9...

6fc93773124f42baed37b8fbd7f6b533d211ca36 authored about 12 years ago by Hannes Roest <[email protected]>

[FIX, GUI] * fixed #111, adding tooltip to each TOPP/UTIL node which briefly describes what the tool does. Adding it to the list of tools (on the left) is hard, since we do not have the INI files / CTDs at the moment

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9974 6adb6e08-d915-0410-9...

0e35be915b586ae38a1893107b006bbe7e58e7f3 authored about 12 years ago by Chris Bielow <[email protected]>

[RESOURCE] updated psi-ms.obo

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9973 6adb6e08-d915-0410-9...

c6ec7f729bfbba2e9f587507dad79dd5bea7c245 authored about 12 years ago by Mathias Walzer <[email protected]>

[NOP] fixed license headers

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9972 6adb6e08-d915-0410-9...

c13c1e30b6257e092d4b38c49aa519ec80ec9924 authored about 12 years ago by Stephan Aiche <[email protected]>

fix labeling of filter button

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9971 6adb6e08-d915-0410-9...

e0c4c7b5eb99f76e5e9ac2f2a79c155c6c089e5d authored about 12 years ago by Hannes Roest <[email protected]>

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9970 6adb6e08-d915-0410-941f-83917bcadc18

f2f4ff27d3a1f049237165ea3bde2e5bf5ab7cf5 authored about 12 years ago by Oliver Kohlbacher <[email protected]>

first try -- based on all author names extracted from

SVN tags

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9969 6adb6e08-d...

e08cb29fbddd00ddcc2f85643c0c53798667ce06 authored about 12 years ago by Oliver Kohlbacher <[email protected]>

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9968 6adb6e08-d915-0410-941f-83917bcadc18

05896439faeae32dd06195bbb383e3fccf2990b6 authored about 12 years ago by Oliver Kohlbacher <[email protected]>

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9967 6adb6e08-d915-0410-941f-83917bcadc18

1c7292d4abf4d671be0ce8929c596b156ce601ed authored about 12 years ago by Oliver Kohlbacher <[email protected]>

new copyright header for all files

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9966 6adb6e08-d915-0410-...

198e6923c66218b4b8e06ede580d267e843428ff authored about 12 years ago by Oliver Kohlbacher <[email protected]>

[TEST] Modified tests for MassTraceDetection, ElutionPeakDetection, and FeatureFindingMetabo to reflect changes in functionality

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9965 6adb6e08-d915-0410-9...

2e10a027470a5b2f044531397a08dbed73609db6 authored about 12 years ago by Erhan Kenar <[email protected]>

[FIX,INTERNAL] fixed package creation on mac for homebrew qt

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9962 6adb6e08-d915-0410-9...

9d34ca3652f38e119a16da1f62fcac5be84c2b29 authored about 12 years ago by Stephan Aiche <[email protected]>

[FIX, INTERNAL] * setValidFormats_ can not be called twice on the same file-slot (avoids copy&paste errors)

* added some file type restrictions to tools (most files without restriction are text files or o...

349013c183be086af1a50fc553df508925764977 authored about 12 years ago by Chris Bielow <[email protected]>

[INTERNAL] * formatting of OPENMP statements in FeatureFinderAlgorithmPicked

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9959 6adb6e08-d915-0410-9...

204c8169e8bae18630565d2865b75fd27577f4b4 authored about 12 years ago by Chris Bielow <[email protected]>

[INTERNAL] added target to build system to autogenerate CTDs for all TOPP tools and UTILS

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9958 6adb6e08-d915-0410-9...

ecde4ee6055a8c1a3b044426e15bfa19f822ae94 authored about 12 years ago by Stephan Aiche <[email protected]>

[FIX] Parse bug of unimod lead to neutral losses assigned on umod level instead on specificity level. E.g. all Oxidations were annotated as carrier of the H4COS loss while this loss is only observed on methionine.

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9957 6adb6e08-d915-0410-9...

c4c31d0ac6f8baf13b7147a3fa4ff1003384f20e authored about 12 years ago by Timo Sachsenberg <[email protected]>

[FIX, INTERNAL] * FeatureFinderAlgorithmPicked reported wrong number of overlapping features removed

* TOPPAS now only writes the first TOPP call of each node to the command line (otherwise it can ...

1642a302b50be0a7535b008a6bdeef11bd3cd456 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] Added more CV terms in writeout.\nMore CV terms for AnalysisSummary to correctly distinguish different quant. methods

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9955 6adb6e08-d915-0410-9...

0bc2d6fa8e2e9120179f3faa9871791ee4debe34 authored about 12 years ago by Mathias Walzer <[email protected]>

[FEATURE] added Carbon-13 to Carbon-12 mass difference to constants. Still manyconstants.

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9954 6adb6e08-d915-0410-9...

81f8d9681548d1ee917508f81dde65d0e538bf69 authored about 12 years ago by Timo Sachsenberg <[email protected]>

[FEATURE] * improved performance of FeatureFinderCentroided by ~20% by precalculating exp() function calls in GaussTraceFitter

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9953 6adb6e08-d915-0410-9...

7bb4fc7e3b2b5bf781603d0210a306324f703d52 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] * X!TandemAdapter will not delete XTandem output XML file if debug-mode >= 2 now (for debugging)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9952 6adb6e08-d915-0410-9...

ef4b67b94fbebe2ac73d2a621d642d8ca9d206f7 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] * IDEvaluation now writes raster images when only out_type is given. Before, the file was not created.

* better error checking in IDEvaluation

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot...

5f2dd20ef461c464fd9416f18bf9f179ce1094ce authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] * added test for PeptideIndexer (for tolerant search fallback)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9950 6adb6e08-d915-0410-9...

dfd172a7a2cc22ab2f48302a582894929a317a7b authored about 12 years ago by Chris Bielow <[email protected]>

[FIX, FEATURE] * fixed #268

* PeptideIndexer uses Aho-Corasick first for fast matching yielding x10 speed and x2.5 memory, a...

b7ee9cdce2a218cec7ba7fa54269319910681993 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] cleaning up of IDEvaluation (reacts to Alt-F4, signals/slots fixed, menu cleaned up, debug messages removed)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9947 6adb6e08-d915-0410-9...

c37ce87b3786dbd1ed326c31bcafa0eb5c0f41c6 authored about 12 years ago by Chris Bielow <[email protected]>

[FEATURE] added advanced option to extract rank ranges from idXML in IDFilter

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9946 6adb6e08-d915-0410-9...

6d5c2edfc3f55a905e6d04378c72cef9bc43ecb0 authored about 12 years ago by Timo Sachsenberg <[email protected]>

[FEATURE] added initial qc pipeline functionality for experimental purposes.

Added a scripts(.py/.R) to create a quality report file, called qcML(experimental).
Added a gener...

75137da775ce445bb821024d615f08f62d03e2eb authored about 12 years ago by Mathias Walzer <[email protected]>

[FEATURE, DOC] * added export of ConsensusXML to EDTA (e.g. to easily check if Map Alignment was successful using Excel - since it can read EDTA)

* added this hint to FeatureLinkerUnlabeled

git-svn-id: https://open-ms.svn.sourceforge.net/svn...

63f94f8ed320984e1dca494d069c53d3c07ed698 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] file suffixes for output nodes are restricted in length now (could get arbitrary large in "dry-run" mode, when actual extension is unknown)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9943 6adb6e08-d915-0410-9...

67541e5c165df2b9cd3782eb270a80e813f64b89 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] made FASTAIterator safer (copying not allowed, post-increment disabled, mem-leak fixed)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9942 6adb6e08-d915-0410-...

d76e8b7a30449b7bbc99a0111fffb5227c0b87dc authored about 12 years ago by Chris Bielow <[email protected]>

[FEATURE] added support for EDTA writing from FEATUREXML files to FileConverter

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9941 6adb6e08-d915-0410-9...

7b992d845d240af2680e76357866d5659c387bab authored about 12 years ago by Chris Bielow <[email protected]>

[FEATURE, FIX]

* added new UTIL IDEvaluation, which will plot or show q-value curves using Qt and can be used t...

573b5cf8247747394713224755d650ba5ff5f6ea authored about 12 years ago by Chris Bielow <[email protected]>

[DOC] * fixed some typos

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9938 6adb6e08-d915-0410-9...

07610e9449ad5e86b4abc3708174fdfd8bd4d2b3 authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] using larger font-size for axis labels in TOPPView

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9937 6adb6e08-d915-0410-9...

bf0a5f4d297b48a3b78e9712ee34b09c78dc22ca authored about 12 years ago by Chris Bielow <[email protected]>

[FIX,DOC] fixed #340 and renamed ++ operators (wrong description)

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9936 6adb6e08-d915-0410-9...

35f51a8433a076c784f33471c1ef3f39ab0dc2cd authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] stop ImageCreator from crashing when a filename without a suffix is supplied

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9935 6adb6e08-d915-0410-9...

0062462e4aec707602abd61ea07e8be5f56e002c authored about 12 years ago by Chris Bielow <[email protected]>

[FIX] fixed #165 (TOPPAS becomes unresponsive while copying files) using asynchronous file copy

git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@9933 6adb6e08-d915-0410-9...

9e4ec8fd4dfe574b465585812da43efb206058df authored about 12 years ago by Chris Bielow <[email protected]>