Ecosyste.ms: OpenCollective
An open API service for software projects hosted on Open Collective.
github.com/OpenMS/OpenMS
The codebase of the OpenMS project
https://github.com/OpenMS/OpenMS
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12074 6adb6e08-d915-0410-...
de3e9c3053e7c12554abb5fdc9adf0e37f92192c authored almost 11 years ago by Hendrik Weisser <[email protected]>
- provide separate names for OpenSwath Interfaces and OpenMS Interfaces
- wrap MSDataWritingCons...
- adopt SemanticValidator and XMLValidator to also allow a generic .xml
file for validation
- ...
- cppcheck fixes
- build fixes (forgotten OPENMS_DLLAPI)
git-svn-id: https://open-ms.svn.source...
50b17278c61682a690d3470bdd3ac9b2afd69058 authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12070 6adb6e08-d915-0410-...
4643805d9f86db316dd9a6e49b00a10758f8c2a8 authored almost 11 years ago by Chris Bielow <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12069 6adb6e08-d915-0410-...
7e1c42ffb940d4fcebb0a2314d03b202dc762a0a authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12066 6adb6e08-d915-0410-...
18c86da3231b37b0a72e2260e7ee4dab2e76af08 authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12065 6adb6e08-d915-0410-...
20fc33eacddb9014fccae863dbe45c4155650be8 authored almost 11 years ago by Erhan Kenar <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12064 6adb6e08-d915-0410-...
46c8b59193b8a1e7138c0d9fad1368ff9758fda5 authored almost 11 years ago by Chris Bielow <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12063 6adb6e08-d915-0410-...
9db0e014087b9d3b4a7568f93f69529f245667b4 authored almost 11 years ago by Chris Bielow <[email protected]>
- move code to OpenSwathScoring
- add documentation
git-svn-id: https://open-ms.svn.sourceforge...
aafd5880afbf3d1590ac465de96e08b12b2c75df authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12061 6adb6e08-d915-0410-...
d45aeca5c4cb0d12ca8d563d70ced66b4539624e authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12060 6adb6e08-d915-0410-...
5e2a4b4e48bde1b52784e8f57aa4f782c44f24c4 authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12059 6adb6e08-d915-0410-...
b9b3fc0d7f71f0f8ee3c051e46a8e75f015ee664 authored almost 11 years ago by Hannes Roest <[email protected]>
- the windowWideness parameter in mzXML gets converted to the CV Terms
1000827-29 in a way tha...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12057 6adb6e08-d915-0410-...
da0fc7dd23678d0299555cee6bc5be36b33e1359 authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12056 6adb6e08-d915-0410-...
d75b2b81dbbc46094258f7133fb979fe1643613b authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12055 6adb6e08-d915-0410-...
bc3991fe01efc09e90f6b152b176826bf52442a6 authored almost 11 years ago by Hannes Roest <[email protected]>
- replace StringList, DoubleList and IntList with their
std::vector equivalents
git-svn-id: h...
1130da957f1a075b7e67e3e515b1b730081af36f authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12052 6adb6e08-d915-0410-...
ddaaf9ea6d63bfb9fe793a4285f37a48ec4241a7 authored almost 11 years ago by Stephan Aiche <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12051 6adb6e08-d915-0410-...
4cdf728f70489b7947a9ac3b1b8acc0bff7042d8 authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12050 6adb6e08-d915-0410-...
653f99698ae85196e157447e283e0c7263298bdf authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12049 6adb6e08-d915-0410-...
3591e338c31c55fe7a12ec324608db549cb64794 authored almost 11 years ago by Hannes Roest <[email protected]>
- add test for MSDataCachedConsumer
- add test for MSDataTransformingConsumer
git-svn-id: https...
4611c97b3f9ac1f6be6335b2d2bb253bd0911e6d authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12047 6adb6e08-d915-0410-...
96c5e85d63d3c677c19f9319c32348d12e3c9b6b authored almost 11 years ago by Hannes Roest <[email protected]>
- switch in MzMLSpectrumDecoder to StringManager to get access to faster
parsing as well
git-...
69a7c8454f426fcda26ec9816315c6dba8d8a15d authored almost 11 years ago by Hannes Roest <[email protected]>
- provide new implementation for conversion in StringManager (only ASCII
strings will be conve...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12044 6adb6e08-d915-0410-...
c3a9304f70acfee1f8a87443173c13a433950b83 authored almost 11 years ago by Stephan Aiche <[email protected]>
* fixed checker warnings in StringListUtils_test
* fixed some spelling errors
* updated and e...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12042 6adb6e08-d915-0410-...
ba006770f75562df1cfc16d8fbd9063679f7324b authored almost 11 years ago by Stephan Aiche <[email protected]>* some code cleanups
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12...
ff2c717e9eca7ad360382e19192133c18c19ec23 authored almost 11 years ago by Stephan Aiche <[email protected]>
* StringList member functions are now static utils methods
* replaced StringList class with ty...
* switched part of StringList code also to ListUtils
git-svn-id: https://open-ms.svn.sourcefor...
a1f2f38da80c88c7a65326f3c288c85be3867fe9 authored almost 11 years ago by Stephan Aiche <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12038 6adb6e08-d915-0410-...
df9ea4047b2644730475aa67ceb0f62b87d3d523 authored almost 11 years ago by Stephan Aiche <[email protected]>* currently supported are create, contains, and concatenate
git-svn-id: https://open-ms.svn.so...
3435981a737c3785b3e35fa9946ef235d0276409 authored almost 11 years ago by Stephan Aiche <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12036 6adb6e08-d915-0410-...
5812448afe89ab998641bf8cac7979d6d475c0ca authored almost 11 years ago by Hannes Roest <[email protected]>- test the different interpretations of the retention time
git-svn-id: https://open-ms.svn.sour...
06015cf82d436a1d32c6094031abdd664be531ed authored almost 11 years ago by Hannes Roest <[email protected]>
- the retention time given in the CSV file can mean different things and
its interpretation ca...
- maintain the same ordering as the input files even in a parallel
environment
git-svn-id: ht...
1919a1145d37c16cc789ea4bda24d0eb8953d53b authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12032 6adb6e08-d915-0410-...
9fa28a2cbe8dccbb4cf68e0543b0e1a6940c80e6 authored almost 11 years ago by Stephan Aiche <[email protected]>
- update documentation about input file for TraML conversion
- allow CollisionEnergy as well as ...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12030 6adb6e08-d915-0410-...
dc9575f351ed67004b31a505c9cd4bdffc78ff38 authored almost 11 years ago by Stephan Aiche <[email protected]>
* see https://bugreports.qt-project.org/browse/QTBUG-22829 for details on the bug
* affects bo...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12028 6adb6e08-d915-0410-...
4acbdf5c3edf55c171c941e9b55ddc6e0d6c49bd authored almost 11 years ago by Stephan Aiche <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12027 6adb6e08-d915-0410-...
49027f11e6d1e13984d6b000f6f7352e8962d5f5 authored almost 11 years ago by Erhan Kenar <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12026 6adb6e08-d915-0410-...
eca6bcc7d22b84b691015cd8f2e13419d27c3f65 authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12025 6adb6e08-d915-0410-...
1d71712e982478c668e22a36594d6e81e4650237 authored almost 11 years ago by Erhan Kenar <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12024 6adb6e08-d915-0410-...
207a2f394e708c592c5c1ece41e40c1d4bdc1537 authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12023 6adb6e08-d915-0410-...
3259ecfa478d8fd1debf1c90844af6bfeac0d8ce authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12022 6adb6e08-d915-0410-...
82777dd263d6c440a0a9481e93444c51cce789bc authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12021 6adb6e08-d915-0410-...
e6578ee7aae5be86f0bcb7360bfc9f75b96bd0a1 authored almost 11 years ago by Hendrik Weisser <[email protected]>
- opens files in binary mode to avoid unwanted line ending conversions
- potentially fix the Ind...
cleanup code and comments, change positive integer swath_nr into size_t
git-svn-id: https://ope...
6640db2f954628e8ef836e5af5d4452a819eb46d authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12018 6adb6e08-d915-0410-...
f55ddf9482abe16a6661ee68ed76d957e7ac97bd authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12017 6adb6e08-d915-0410-...
a56a2b904160f862b6b9d701e4bf59b5477a1ddf authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12016 6adb6e08-d915-0410-...
8f8da5f722ef68b2f9da05ce03d05c1d1898e58f authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12015 6adb6e08-d915-0410-...
b3b2e12dfa2cca39d15fb97c95325dcf8f0ee874 authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12014 6adb6e08-d915-0410-...
8de4649b7fe31e793324a73da8a5a65abf5e0341 authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12013 6adb6e08-d915-0410-...
b6b4a5dc1dbaa33845f2cbc19ea93b7f62615d54 authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12012 6adb6e08-d915-0410-...
947a4a54bccfd9443366e45dbfa24ab01cfda08b authored almost 11 years ago by Stephan Aiche <[email protected]>
- Win8 VS12 complained about overloaded + operator, try to use
OpenMS::String to reduce ambigu...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12010 6adb6e08-d915-0410-...
69801793a0881a9a661eebfa1469919c59f5b302 authored almost 11 years ago by Hannes Roest <[email protected]>
we had timeouts of this test on the build servers, therefore try to
reduce the workload a bit an...
- using the -i flag, the FileInfo executable will check whether a given
mzML contains valid in...
- throw meaningful errors when encountering faulty input
- test different types of spectrum tags...
- testing TEST_EQUAL(spectrum == spectrum, true) produces less debug
output
git-svn-id: https...
cf2391ed9eb5dc7555c6e9c08727f0f68c08b4c4 authored almost 11 years ago by Hannes Roest <[email protected]>
- read the expected defaultArrayLength in the MzMLSpectrumDecoder to
prevent a warning in MzML...
- documentation improvement
- improved error reporting for IndexedMzMLDecode
- add const-correct...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12003 6adb6e08-d915-0410-...
43f989c4eaefc4cd123289575fcf149bfebad6f9 authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12002 6adb6e08-d915-0410-...
b5360404ddfd729a2a3fc90a465ee99f801ac635 authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@12001 6adb6e08-d915-0410-...
84fd3d5a853269cca4363651c8b4fef9cf4dc306 authored almost 11 years ago by Hannes Roest <[email protected]>
- allow to not use Chauvenets criterion, thus forcing the removal of
datapoints until the best...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11998 6adb6e08-d915-0410-...
6d84945d11335bcce3122050d95b6d18a90ebb0b authored almost 11 years ago by Erhan Kenar <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11997 6adb6e08-d915-0410-...
9e7e1a2adf422ebdb131d9ad4a0ecc2b5fb23c20 authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11995 6adb6e08-d915-0410-...
c93b5630763590e9d4093daa648638b4f95e66c7 authored almost 11 years ago by Hendrik Weisser <[email protected]>
* indexed mzml file tests failed due to line ending conversions on win32 systems
* some doc cl...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11992 6adb6e08-d915-0410-...
446e401b1200fa457dddd0153e1adac5b42da2bc authored almost 11 years ago by Mathias Walzer <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11991 6adb6e08-d915-0410-...
497da7eb37fde0ee6bbb73304c430b7fcf1bd774 authored almost 11 years ago by Mathias Walzer <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11990 6adb6e08-d915-0410-...
f8aea293960d11689e31f74ec50761cd97630af2 authored almost 11 years ago by Stephan Aiche <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11989 6adb6e08-d915-0410-...
bdd12ac2d33b44752eb2044aec956ce4f6b12ee3 authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11988 6adb6e08-d915-0410-...
5ddd44b937765a76c0ebf7e08c87250ee0b2db30 authored almost 11 years ago by Hendrik Weisser <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11987 6adb6e08-d915-0410...
796146bf6ab59f6771013cd86e70c55b1ecd9dab authored almost 11 years ago by Timo Sachsenberg <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11986 6adb6e08-d915-0410-...
ca826521f02512a7cf1dd387c202116c2b6a3e9e authored almost 11 years ago by Stephan Aiche <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11985 6adb6e08-d915-0410-...
b10b9368f63ebf7cb7d169af2b969a0719b29ac1 authored almost 11 years ago by Stephan Aiche <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11984 6adb6e08-d915-0410...
dc48c65af5b32459e50ce463f5674142f1c6911c authored almost 11 years ago by Stephan Aiche <[email protected]>
- fix vat to var
- make the header writing more readable
git-svn-id: https://open-ms.svn.source...
fb4bea0c642ca2d566c59ab8ab5abcd7a633a8e7 authored almost 11 years ago by Hannes Roest <[email protected]>
- empty chromatograms would create very bad scores and lead to an
exception in the RT normaliz...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11981 6adb6e08-d915-0410-...
f6442e17fd30344afded5d5ea3a20d2831f1ec36 authored almost 11 years ago by Hannes Roest <[email protected]>
- make it possible to configure a separate path for the documentation
- patch suggested by Filip...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11979 6adb6e08-d915-0410-...
da7c9986cd257a1fb68c32a052d3e1e0f5c274c9 authored almost 11 years ago by Mathias Walzer <[email protected]>* updated changelog accordingly
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open...
6a515dd1e23882ec60578a289920bf46ca4f525d authored almost 11 years ago by Stephan Aiche <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11975 6adb6e08-d915-0410-...
9ebd0d44c444aff605d9e5720615b87f41c0188b authored almost 11 years ago by Hannes Roest <[email protected]>
- fix use_elution_model_score to be passed directly on the command line
- fix recalculate_peaks_...
git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11973 6adb6e08-d915-0410-...
5832ed91558ad70dc9f466e7259a76140121a2fa authored almost 11 years ago by Hannes Roest <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/OpenMS@11972 6adb6e08-d915-0410...
112f8c9a18a06a5da621c6cdf922deb24062e11e authored almost 11 years ago by Johannes Veit <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/branches/Release1.11.1@11971 6a...
ecc5e1305ef5b93cd09bb2cbd1f3809f7ff6355c authored almost 11 years ago by Johannes Veit <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/branches/Release1.11.1@11970 6a...
357c298009bda162162a7551eb30646a20e58076 authored almost 11 years ago by Johannes Veit <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/branches/Release1.11.1@11969 6a...
b2e652b4a8d2c988b9dcb197e4c7f4c324842b1f authored almost 11 years ago by Johannes Veit <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/branches/Release1.11.1@11968 6a...
4257e0dd03accf5bfe5690e1196924296dabb25a authored almost 11 years ago by Johannes Veit <[email protected]>git-svn-id: https://open-ms.svn.sourceforge.net/svnroot/open-ms/branches/Release1.11.1@11967 6a...
0b1a7a1d11e9164ea0daaabce10606822700afc7 authored almost 11 years ago by Johannes Veit <[email protected]>