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

test: add new data file for ChromeleonFile_test

It contains a new raw data header, and a "n.a." value in
the Step column

6d51edda42a88099d63f78e8d2f598e3189a37b6 authored over 5 years ago by Pasquale Domenico Colaianni <[email protected]>
feat: support new raw data header in ChromeleonFile

feat: skip "n.a." datum at first raw data point

b5d7abbe397e9e496444d88c3eb4cbab7fbe140b authored over 5 years ago by Pasquale Domenico Colaianni <[email protected]>
fix: rename mz_extraction_window to mz_extract_window in DiaHelper

26c894a44c3860d59da469845fcb39deb8f5de9c authored over 5 years ago by Pasquale Domenico Colaianni <[email protected]>
Put evergreen into namespace. Some other fixes.

Signed-off-by: Julianus Pfeuffer <[email protected]>

c6192abe52ab390fe1f03d8b3d75d0ec703757c2 authored over 5 years ago by Julianus Pfeuffer <[email protected]>
Merge pull request #4179 from hroest/feature/osw_cleanup

Feature/osw cleanup

36e2a8fdb5cb60eaf1f29eed297c59f79cea18ae authored over 5 years ago by Hannes Roest <[email protected]>
Update OpenSwathScoring.cpp

bde5d2d79c7b04c3f74ac45589dbeb95a7615c4b authored over 5 years ago by Hannes Roest <[email protected]>
Chris' comments. Try to fix builds. Code style.

Signed-off-by: Julianus Pfeuffer <[email protected]>

ab3a54c259034429393aab712f3cf25efcc14991 authored over 5 years ago by Julianus Pfeuffer <[email protected]>
hot fix

8e925f6a9466d6433d53603ba4b7a8b2bb5e31c0 authored over 5 years ago by Timo Sachsenberg <[email protected]>
First wave of comments.

Signed-off-by: Julianus Pfeuffer <[email protected]>

0d70bd5c4b778e4a9371df08cff1d8090fed9b15 authored over 5 years ago by Julianus Pfeuffer <[email protected]>
First wave of comments.

Signed-off-by: Julianus Pfeuffer <[email protected]>

c830532967dd7d74bd0d24b82488a42e5653792e authored over 5 years ago by Julianus Pfeuffer <[email protected]>
[FIX-#4189] initialise option for automated drawing of m/z annotations (off by default) - fixes #4189

0a4013f2b0c61e883f3a704cde41792a04a0e545 authored over 5 years ago by Hendrik Weisser <[email protected]>
[NOP] coding style adjustments

3c902bc1991534d1ea0228e16be83979d5ea163c authored over 5 years ago by Hendrik Weisser <[email protected]>
default mods in SSE

2d73df7a71a2dd185905ba7e0a8ad5686f38fb84 authored over 5 years ago by Timo Sachsenberg <[email protected]>
[FIX] move to private

c5caacc03cdbb606011d6e28d6abde8415668edc authored over 5 years ago by oliveralka <[email protected]>
[TEST] adopt test

220e909cb946fe212c1904bc7ec60c1881c79035 authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] pyOpenMS fix

29c49919e246ec6d8b4462bb480e50e4e7e45e94 authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] use ref instead of ptr

6461cd6e3eada11a3a3ef619710ddee5b734d5ca authored over 5 years ago by Hannes Roest <[email protected]>
fixes in MapRTTransformer

ebe5b1b6240b97b6c9fe607b1867a794eded556d authored over 5 years ago by M Bernt <[email protected]>
fixes in mapaligner

853d2268024ac5f18b8e830bec559a3c91b3362f authored over 5 years ago by M Bernt <[email protected]>
Squashed commits from proteomicLFQ branch.

de7d4d019551dc3f5972d1c353ddd5fbd5a06626 authored over 5 years ago by Julianus Pfeuffer <[email protected]>
Merge pull request #4178 from cbielow/mzTab_speed2

[FEATURE] 2% performance increase reading mzML

4e2f547da21429254ab465cf2c3b4e7b440a5868 authored over 5 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #4180 from hroest/feature/visual_fix

Feature/visual fix

092614c059c05e6aaeb3ea868668a127bd3c1830 authored over 5 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #4142 from grosenberger/feature/oswprotgroup

[FEATURE] TargetedFileConverter: Improved support for shared peptides

ca017247c250a668f7db20e850f88f5154db8bd6 authored over 5 years ago by Timo Sachsenberg <[email protected]>
[FIX] minor refactoring

84668129528ff64bd86c3131ed01ba8be6a2a07e authored over 5 years ago by oliveralka <[email protected]>
[FEATURE] speed optimization for non-indexed files

f87744e7eb7822ae1274cf6a07064611fd421e6d authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] carry over data arrays for chromatograms

87081b1da73202a59113d1b31977a3869d552ed1 authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] fix selection for empty arrays

5185f807e7300fb7bee9cca7998681ba5e7d5120 authored over 5 years ago by Hannes Roest <[email protected]>
[TEST] add test

75153a57be4211ef97b5979504e54e06b07f3c5a authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] scoring function for std::vector

dd952a18af692e3a010d499a36391b765a43e7f1 authored over 5 years ago by Hannes Roest <[email protected]>
[NOP] precondition

e1f1dc7eee7f0e6c0a0969470d1b0d705d899102 authored over 5 years ago by Hannes Roest <[email protected]>
[NOP] extract fxn

34d5795de318bc9348e3f43ff019c552f2296fc4 authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] Changes for MSstatsTMT R Package Update

fce0bacdd7b68fc63282c9a33bed734f653b58a8 authored over 5 years ago by oliveralka <[email protected]>
[FEATURE] use estimateBestPeptides

50efa57bb2ee4fb109b5878c54bfa941319d473e authored over 5 years ago by Hannes Roest <[email protected]>
[FEATURE] perform IM calibration

2991a805b170c4d423470c120ac26eaf17baf151 authored over 5 years ago by Hannes Roest <[email protected]>
[FEATURE] also do calibration for ion mobility

450b3b4fe1032bd3cf5928680954f9b0bb5af921 authored over 5 years ago by Hannes Roest <[email protected]>
cleanup

0193996c57b11a11a130ca6915f214a2654e7a3d authored over 5 years ago by Hannes Roest <[email protected]>
[FEATURE] integrate drift spectrum

1910d1698b26d2a0743b4d7c562e5f4157988a7a authored over 5 years ago by Hannes Roest <[email protected]>
Merge branch 'develop' into openswath

86205e256ce5a316ff84b273685bfb24cc81b89f authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] fixes

- fix test
- address review comments

c30011b837e7f9f59437a4339d020f5d2d3b7fd5 authored over 5 years ago by Hannes Roest <[email protected]>
minor fixes to XMLHandler

10140bfab7f9dee8d11329082532fac1125ea16c authored over 5 years ago by Chris Bielow <[email protected]>
Merge pull request #4157 from hroest/feature/online_docu

[FEATURE] add link to online docu

9311b7bdde90e9dbbce6d8cf987505066f76ad93 authored over 5 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #4165 from hroest/feature/mrmassay_doc

[FEATURE] cleanup, doc

0a642e06ea220e232ebeb90d298f7a78461ad941 authored over 5 years ago by Hannes Roest <[email protected]>
XMLCh is uin16 on GCC...

e5735f56f0ec8508d584bd5e9749d1747f3ab9b9 authored over 5 years ago by Chris Bielow <[email protected]>
XMLCh is uin16 on GCC...

0bd79bc16d0a732d792ff3f96fb20289689a7171 authored over 5 years ago by Chris Bielow <[email protected]>
Escape square brackets for Cmake

1b0dc0c07005a8194cef8c57c5030c40611b2b9d authored over 5 years ago by jpfeuffer <[email protected]>
Fix

6355426d3fcf06d17c04ad30448a9b7abeada362 authored over 5 years ago by Hannes Roest <[email protected]>
NOP

ad39929ecf19beaae0dee3f23d12dc36185af0a9 authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] ImageCreator: fix failure to show precursor locations if m/z range is given as 'high:low'

156d3bade0e3f3dabb2ae15fc8b380c4a63a3e60 authored over 5 years ago by Hendrik Weisser <[email protected]>
[FEATURE] 2% performance increase reading mzML (getting rid of static init check (lock) and heap alloc)! whhhoohaaa! :)

6149e32a65cc9c57e0fcf225aa8fb5d54bd82ab8 authored over 5 years ago by Chris Bielow <[email protected]>
[FEATURE] 2% performance increase reading mzML (getting rid of static init check (lock) and heap alloc)! whhhoohaaa! :)

142650131fe24a8ca1213753eb06ba88ddce1cb6 authored over 5 years ago by Chris Bielow <[email protected]>
Merge pull request #4172 from hroest/feature/osw_speed

Feature/osw speed

73279bd37c9891672a0a2abc1687d35b3bbd9bb5 authored over 5 years ago by Timo Sachsenberg <[email protected]>
[TEST] fix test

d0ee45f4df8a8281e8baa4d3c02b7caf3e994359 authored over 5 years ago by Hannes Roest <[email protected]>
Merge pull request #4166 from oliveralka/feature/idfilter_params

Clean-Up IDFilter parameters

6e3992848963e5d57fd601a16b2ae7891f99f5c4 authored over 5 years ago by jpfeuffer <[email protected]>
[TEST] fix pyOpenMS test

ae9be305642370d42e79589e80c7b98de7903c9e authored over 5 years ago by Hannes Roest <[email protected]>
Update CTD 0.3 schema to upstream

From here: https://github.com/WorkflowConversion/CTDSchema/blob/master/CTD.xsd

c29851d584519d3f99f25e75cc1a73dad2b307dc authored over 5 years ago by jpfeuffer <[email protected]>
[FIX] pyopenms, typo, rename param

1d5b988d04b41c271a9a0da807689d363ce22bdd authored over 5 years ago by oliveralka <[email protected]>
Update OpenSwathScoring.pxd

218f8c22ad83974228981c9a7c746d8d6504c1ae authored over 5 years ago by Hannes Roest <[email protected]>
pyopenms fix

74196e61b3fc2e80c6c67cd0e084738c29a374c0 authored over 5 years ago by Hannes Roest <[email protected]>
[PYOPENMS] fix pyopenms

09f8a75ad85d7811a96518fdc7a26d3dfd763820 authored over 5 years ago by Hannes Roest <[email protected]>
[FEATURE] ImageCreator: updated default gradient; avoid loading MS2 spectra if possible

91bac7a4030fd85e19b53f0cc885780bac2c806d authored over 5 years ago by Hendrik Weisser <[email protected]>
[PARAM] ImageCreator: added options for RT and m/z filtering (to create 'zoomed-in' images)

ca8a3a9088d6041f40a420cf06d076c901f2d8d3 authored over 5 years ago by Hendrik Weisser <[email protected]>
[COMMENT] small improvements to some comments

a7fa351f8db95d93b67e0c9c0adf713aaf16cda1 authored over 5 years ago by Hendrik Weisser <[email protected]>
Merge remote-tracking branch 'upstream/develop' into feature/idfilter_params

1e2bd8bd7463e08e0b85ce34f59c8871f076d3b1 authored over 5 years ago by oliveralka <[email protected]>
[FIX] fix meta value

b1b2f53fade00094cff29cb4d5390570039075f1 authored over 5 years ago by Hannes Roest <[email protected]>
[BUILD] add nested parallelism to cmake interface (#4170)

22d89b770f431e96fde2cae6b022d00afd22afff authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] fix some warnings during RT alignment (#4171)

a0f0a98ecfdf1c2fa7ae087e2e4d5ed96acff0e2 authored over 5 years ago by Hannes Roest <[email protected]>
[TEST] fix tests

6c64866a00d813afdce829f22d3c6a019433851d authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] speedup

222b0ccd39cfbbe75a11b3da5a21987795d2826d authored over 5 years ago by Hannes Roest <[email protected]>
[TEST] fix tests

3fe0e167e310e050e756b08aafa817d3c0204bec authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] backwards compatibility

dca500eb2a89da4d2e357f6ecf50fed973df55c9 authored over 5 years ago by Hannes Roest <[email protected]>
[FEATURE] speedup

7624621b3f4a6623e6ce910b9207a381cca72f77 authored over 5 years ago by Hannes Roest <[email protected]>
amend

e9a9813cf1fedf8415947c7eb9c86b2416c31d23 authored over 5 years ago by Hannes Roest <[email protected]>
[BUILD] add nested parallelism to cmake interface

6c23b123dcfdf56312c8029a45aded25f80f4757 authored over 5 years ago by Hannes Roest <[email protected]>
[FEATURE] OpenSwath memory fix

- only load MS1 chromatogram of current batch into memory instead of all
MS1 chromatograms
- f...

30027b89648e9fc9f7760e32d77682cd6c777dce authored over 5 years ago by Hannes Roest <[email protected]>
[FIX]

1b4a67cbf43cb025140a6369faa5751ea4713e97 authored over 5 years ago by oliveralka <[email protected]>
add RT alignment meta values also to empty PepIds (unidentified MS2 spectra)

d4af17245f390d8dad9ee3f5942726cc7744fd16 authored over 5 years ago by Chris Bielow <[email protected]>
[TEST] create multi-threaded test (#3998)

* add switch for new optional columns

* [ADD] further const, move

* check for empty, updat...

dfaeb9fe6475aa51f6b1b4f1e844118219ccc743 authored over 5 years ago by Hannes Roest <[email protected]>
Merge remote-tracking branch 'JeeH-K/feature/TDdeconv' into feature/TDdeconv

257a970ca637f5769b0666f7a98cdfcb0fae87f6 authored over 5 years ago by kyowonjeong <[email protected]>
FINAL VERSION

79e1a4533f8689c790b1d4500f9e814665703733 authored over 5 years ago by kyowonjeong <[email protected]>
[CodeFactor] Apply fixes (#4115)

d38b45ce24035145ce930e02db2ab62728a6e87d authored over 5 years ago by Timo Sachsenberg <[email protected]>
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into feature/TDdeconv

38694f2b650384735f9c9caf357710f7b20a5c93 authored over 5 years ago by JeeK <[email protected]>
Merge remote-tracking branch 'origin/feature/TDdeconv' into feature/TDdeconv

22beb6fdd209a44d31237779505a85296f8dcd06 authored over 5 years ago by JeeK <[email protected]>
Allowing one isotope error

9eba1e8047c1c27dedf330b41d20c27558e0ee5a authored over 5 years ago by JeeK <[email protected]>
FINAL VERSION

9cc6ebab25b712e6519b3c23655f04da02988231 authored over 5 years ago by kyowonjeong <[email protected]>
Works good for 120kda

f1d85f1fe83349bf5d6365cff9fc98d98c27966c authored over 5 years ago by kyowonjeong <[email protected]>
[REMOVE] thresh, raname unique_per_spectrum, unique_per_peptide

65fa27d29a096fd24eac6f2566cf5ad3c919b63b authored over 5 years ago by oliveralka <[email protected]>
[Feature] Param 1.7.0 support (#4163)

* [Feature] Added support for bool in ParamXML1.7.0 (used in INIs/CTDs)

* Forgot schema

* ...

74caefc2db92f824ced3d0924d5a8133c3d7294c authored over 5 years ago by jpfeuffer <[email protected]>
Merge remote-tracking branch 'JeeH-K/feature/TDdeconv' into feature/TDdeconv

fb3fd83ea25b407a5f53c1b0754c105d59702bc0 authored over 5 years ago by kyowonjeong <[email protected]>
Works good for 120kda

b430c2a39aa76c4de872ed8519b521fc157711a3 authored over 5 years ago by kyowonjeong <[email protected]>
[UPDATE] unique -> unique per spectrum

7bb130f0c038be1ff859c3e58d75fd243654f25d authored over 5 years ago by oliveralka <[email protected]>
[MOVE] code move

67c40c75f4f8fa246b1d0d55edd975941fbff3b6 authored over 5 years ago by Hannes Roest <[email protected]>
Update TransitionTSVFile.cpp

5322d48bb3e0f02cf2d7ee0871143871625174ad authored over 5 years ago by George Rosenberger <[email protected]>
[FEATURE] parametrize calibration

46cc0f4f75e4d44d148b6a1334fe9aa6064fa8e6 authored over 5 years ago by Hannes Roest <[email protected]>
[DOC] numpress docu

a8646e729e3fbc276e9833fc3a3bea23f251709d authored over 5 years ago by Hannes Roest <[email protected]>
[REFACTOR] code refactor & cleanup

7a03b1f6987ddbd4282c1f2a1e2a8e2b10e2f66a authored over 5 years ago by Hannes Roest <[email protected]>
[NOP] reorder

19cfc9357bce518af9f5207850e22b5ff3222363 authored over 5 years ago by Hannes Roest <[email protected]>
[CLI] add spectrum addition method option

831be11c7cedf215a9c1612046658541061fd6d7 authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] also allow sampling rate estimation for simple spectra

8aa76b02e213cdf35833d78626a6a891b56dace6 authored over 5 years ago by Hannes Roest <[email protected]>
[MOVE] move fxn

3282a34628a17b4631d3aa8d75b6d1670ff8d413 authored over 5 years ago by Hannes Roest <[email protected]>
[FIX] add simple sort

1ed549c6fa58e2ac239b8f1f947fe349b0429738 authored over 5 years ago by Hannes Roest <[email protected]>