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

Merge pull request #4283 from jpfeuffer/feature/macOSNotarization

[FEATURE] Added notarization when building packages on macOS

0c24d75d822a9876f8fb6967854aa89813d28ba0 authored about 5 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #4278 from hroest/fix/chromatograms_to_disk

[FIX] write all chromatograms to disk

897d5bb1baaed3c0ffa633849fa77862a57f7a01 authored about 5 years ago by Timo Sachsenberg <[email protected]>
Update OpenSwathWorkflow.cpp

46ed397787d196bdc1eb8fc38c4728b0e0558c0f authored about 5 years ago by Hannes Roest <[email protected]>
Update OpenSwathOSWWriter.cpp

2e8062e8ebc146bde0d83b1825139e0226dce6dd authored about 5 years ago by Hannes Roest <[email protected]>
[FEATURE] SQLite file format for ID data (OMSFile): extended/improved support for meta data (MetaInfoInterface)

0cee4523e7e3fac75cee535f9079bc0ed7eaa12d authored about 5 years ago by Hendrik Weisser <[email protected]>
Remove OMSSA test on Catalina. Only allow Notarizarion on Catalina.

7bdb42f11d3ef832e38599dd9759ce36ec05b35c authored about 5 years ago by Julianus Pfeuffer <[email protected]>
Document changes as discussed in review.

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

600f7c1d69a0ee3b2eb5cf7f09906ba54073713f authored about 5 years ago by Julianus Pfeuffer <[email protected]>
Update OpenSwathOSWWriter.cpp

76cb3dccd2604e69a6642f811f649796de563a08 authored about 5 years ago by Hannes Roest <[email protected]>
Merge pull request #4284 from OpenMS/hroest-patch-1

Update install-linux.doxygen

0a71d7f58bb69fcb8031b4b7182dd6be2344af63 authored about 5 years ago by Hannes Roest <[email protected]>
Remove second occurrence of var. template in lambda. Fix test by sorting groups before writing.

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

cd714241e5f95a41283ce2465fc57c7d05b9049c authored about 5 years ago by Julianus Pfeuffer <[email protected]>
[INTERNAL] OMSFile: use load/store helper objects for resource management (avoid Qt warning on exit)

dd01bd65a5124d4042596ab32ede8788c5428cdb authored about 5 years ago by Hendrik Weisser <[email protected]>
[FEATURE] SQLite file format for ID data (OMSFile): support for meta data (MetaInfoInterface)

1f3b4094809e3b5e02bbc7384cd035db744ebb15 authored about 5 years ago by Hendrik Weisser <[email protected]>
Update install-linux.doxygen

15d6b559e8f255edcd2ec78c7fec33b1472a9083 authored about 5 years ago by Hannes Roest <[email protected]>
Remove second occurrence of var. template in lambda. Fix test.

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

02ab345cea56793840b5f852425f253ca6cc7162 authored about 5 years ago by Julianus Pfeuffer <[email protected]>
[TEST] update test

2e23efc8d4da1bfde760bac65ae4e76c89554fe5 authored about 5 years ago by Hannes Roest <[email protected]>
[TEST] still works

82d6e4796f3aafd90f353364816e58f65958526d authored about 5 years ago by Hannes Roest <[email protected]>
[TEST] fix test

63246d337dc6385d113d990eb68bed0abce8569a authored about 5 years ago by Hannes Roest <[email protected]>
Merge branch 'develop' into fix/chromatograms_to_disk

4e66fb7f120b4ee2868df0d0177db08264a9a80d authored about 5 years ago by Hannes Roest <[email protected]>
[FEATURE] Added notarization when building packages on macOS

9fe394444cac5962c23aac3791f9f4e754b7d18f authored about 5 years ago by Builder <[email protected]>
Update CMakeLists.txt

9b6adfb6b5f53e54867c461d6c5a3718274c9876 authored about 5 years ago by Hannes Roest <[email protected]>
[TEST] added test case for String c'tor from unsigned char*

e63f7c4d1e0be9f1c89b09243ca00633c2fc36ae authored about 5 years ago by Hendrik Weisser <[email protected]>
Merge pull request #4277 from hroest/feature/osw_fixes

Feature/osw fixes

e49d8ead786708de0b0807bb8ba324d287e22bf4 authored about 5 years ago by Timo Sachsenberg <[email protected]>
[INTERNAL] use new String c'tor to simplify reading text from SQLite

808052b9f7e2bb01d498833a4babd5de48e36ac1 authored about 5 years ago by Hendrik Weisser <[email protected]>
[API] added String c'tor from 'unsigned char*' for SQLite compatibility

00bcac50f80a73dc9d07c8c1691cf5af76649e04 authored about 5 years ago by Hendrik Weisser <[email protected]>
[API,INTERNAL] SqliteConnector improvements

- changed misleading function name ('executePreparedStatement' -> 'prepareStatement')
- simplifie...

11a6b2f4ba696c55d4339dfa0cf8a7d15312e242 authored about 5 years ago by Hendrik Weisser <[email protected]>
[FEATURE] SQLite file format for ID data (OMSFile): more support for processing meta data; keep track of DB key/ID item mappings when loading

7e19813efed2cb4bd63a4875c1272f660218b3ec authored about 5 years ago by Hendrik Weisser <[email protected]>
Bug version

3ba1a00aecac1b022031dae4a7902fb7a5cf0372 authored about 5 years ago by kyowonjeong <[email protected]>
Merge pull request #4275 from hroest/feature/pp_cleanup

Feature/pp cleanup

0b0c459de1f71c02d4d91b3036a960eab7f4a16e authored about 5 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #4276 from hroest/feature/move_c

Feature: Move constructors

ece6e400518fef0aa641e6bbf0f4f9f2cdb1cbdf authored about 5 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #4279 from hroest/py_circ

Py circ

71de1270dd991f6dd06350aaeffc60ffef092b5b authored about 5 years ago by Timo Sachsenberg <[email protected]>
Update Map_test.cpp

e700a7762a50fcbfa82fe5225f593a357a27ac23 authored about 5 years ago by Hannes Roest <[email protected]>
Update OpenSwathWorkflow.cpp

5fc442a9c2d0cb5dce846cdd9aa13e149a64a445 authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] issue with circular dependencies

- remove function for now due to circular dependency

e5932053f0ceb33785546fc50e64045443413e2c authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] circular dependency fix

d0c27a9edbb13043328ef07fe22c2b87a8e2c2dd authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] circular dependency fix

d84eb731a6bf322e4f6a41f527023ce5786fb1c1 authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] write all chromatograms to disk

- fix bug where only chromatograms were written to disk within the same
SWATH window, preventi...

f0a4e18a6db81a211e93b1dabe95753181d5c6cc authored about 5 years ago by Hannes Roest <[email protected]>
Merge pull request #4274 from jpfeuffer/feature/boost171-contrib

Updated contrib boost to 1.71 bc of bug preventing compilation on newer clang.

9ac3013c718f6550b2da3f10f6ba89780e1918fc authored about 5 years ago by jpfeuffer <[email protected]>
[DOC] OpenSwath Documentation

27a00e552cba7a4ad083bbe2ff53fe850359035d authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] minor performance improvements

e00a28c7edbb347fb8f65daabb03b8beb0f2ab5e authored about 5 years ago by Hannes Roest <[email protected]>
[NOP] cleanup, extract fxn

e00cfacfa92718a8ac409c7e37a1f3b84d1b53ff authored about 5 years ago by Hannes Roest <[email protected]>
[TEST] move constructor

6048dc2dd6be894068b55c45743430037f6fc845 authored about 5 years ago by Hannes Roest <[email protected]>
[TEST] move constructor

3082869f6b632ceb276e4628cf4d663920dceab2 authored about 5 years ago by Hannes Roest <[email protected]>
[TEST] move constructor

58e5502d59245fa2988c479b3f6fadda225ff842 authored about 5 years ago by Hannes Roest <[email protected]>
[TEST] ConsesusFeature : might not work on MSVS

908757074e0d6e621bdc062a6315649faed5c0b1 authored about 5 years ago by Hannes Roest <[email protected]>
[TEST] move constructor

60686371bd6372785f39a0ed0856c301b4644afd authored about 5 years ago by Hannes Roest <[email protected]>
noexcept move constructor

8464e5c793bd070a62e048f4eb1f778a05e9d96d authored about 5 years ago by Hannes Roest <[email protected]>
[FEATURE] add move constructors and assignment operators

3d9376e4d795c1c8eff9f2c4d31d3401d4a68124 authored about 5 years ago by Hannes Roest <[email protected]>
[FEATURE] add move constructors and assignment operators for Feature

05554ddcfab8e321c38a225179e301abd69c6def authored about 5 years ago by Hannes Roest <[email protected]>
[FEATURE] add move constructors and assignment operators

d6c2d57cdddea54eb9e9f83e83be0638b80bc3c0 authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] access to data acquisition

c8224f1057f7b98ecfa1a93053a0241ac4394c3d authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] also deal with NA compound names

a9fbff81ee566e93b46ad0009eca67d0f185984b authored about 5 years ago by Hannes Roest <[email protected]>
[NOP] minor changes

40f6414a96b0a78864b4a52a75e34682c9b25fb8 authored about 5 years ago by Hannes Roest <[email protected]>
[FEATURE] cleanup PeakPickerHiRes

c910a114e48a3367663e5c22c5bf56eebfcb3314 authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] performance improvement

2e5d4de554d296d1d28456f9d4a11cc1447f83af authored about 5 years ago by Hannes Roest <[email protected]>
Updated contrib boost to 1.71 bc of bug preventing compilation on newer clang.

8ceb0cd4a1e1ec7f03c5b2a7e8276d7ffe9ecd94 authored about 5 years ago by Julianus Pfeuffer <[email protected]>
Adapt tests.

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

1e1ec67f7029d928424b73a29ea59e087e77159c authored about 5 years ago by Julianus Pfeuffer <[email protected]>
Fix bugs from refactoring Epifany to algorithm class. Revert change preventing compilation on gcc 4.8. Add test for the Epifany tool. Change protein scores to doubles for extended precision in FDR ranking.

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

deca9e43f4a75ae18526e3fd15ed59493726bed8 authored about 5 years ago by Julianus Pfeuffer <[email protected]>
Merge pull request #4270 from cbielow/feat_TOPPAS

Internal cleanup

aaacb5e7e7fc0f2507b2988056ac4f4e242f74ec authored about 5 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #4250 from OpenMS/feature/im_osw

Feature: Ion mobility scoring

b7f3d1bb456f17a7c4ae42b20721bbfdf70e9ce3 authored about 5 years ago by Hannes Roest <[email protected]>
[FEATURE] SQLite file format for ID data (OMSFile): storing DataValues, software information; better support for enums

46daddad90f71b4cc7c8db67cc5d5b40feb94478 authored about 5 years ago by Hendrik Weisser <[email protected]>
fix some TOPPView, as requested :P

da011643bd15cdc542afd8412d191ebe9ac52f65 authored about 5 years ago by Chris Bielow <[email protected]>
Merge pull request #4265 from jpfeuffer/feature/FeatLinkMapIdx

[FIX] Add map_index for Unassigned PeptideIdentifications for linking

ee8415e28bf86282e2a06e8310d5e751bc5b6293 authored about 5 years ago by Timo Sachsenberg <[email protected]>
fix

fb4b68f8a2edfd1c4286a89bb3eadc76d839b2ef authored about 5 years ago by Chris Bielow <[email protected]>
[FIX] remove redundant code

4f72229ae2c3f5f3cd505e8e48871f8353ef6cfa authored about 5 years ago by Chris Bielow <[email protected]>
[CLEANUP] remove redundant code

b1b523525f24409001aa583241747d94d990ad9d authored about 5 years ago by Chris Bielow <[email protected]>
Check and warn with missing map_index meta value.

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

28611791a276a47384b768414b0c54c7ae7675a9 authored about 5 years ago by Julianus Pfeuffer <[email protected]>
[FEATURE] SQLite file format for ID data (OMSFile): loading of score types

96bc7c58ddee2975188f3698d972415005e888c0 authored about 5 years ago by Hendrik Weisser <[email protected]>
Merge pull request #4269 from oliveralka/fix/MAD_optional

[FIX] MetaboliteAdductDecharger: set primary output optional

766a7a5a0c09949af7326f5782062d710c7f550a authored about 5 years ago by Chris Bielow <[email protected]>
[FIX] set primary output optional

676af78afa9b3c16000756b08595bb8675ac23c4 authored about 5 years ago by oliveralka <[email protected]>
Merge pull request #4214 from hendrikweisser/meta-get-default

Optional default value for "MetaInfo[Interface]::get[Meta]Value"

61219b2c48abf09d480950fda86d06c4fb30f3ba authored about 5 years ago by Hannes Roest <[email protected]>
[FEATURE] progress on SQLite-based file format for ID data: storing of CV terms and score types

b1a3ae06913f7ed809f6a2f5c5ff2c9b86c5e415 authored about 5 years ago by Hendrik Weisser <[email protected]>
[API] remove redundant 'name' field from class 'IdentificationData::ScoreType' (already has a name in the CV term)

60c57013e4736f3cec683b127af7852210aad248 authored about 5 years ago by Hendrik Weisser <[email protected]>
[NOP] whitespace/style fixes

b89fd5839b631afcb9e0efeeaf9b99159b215ac8 authored about 5 years ago by Hendrik Weisser <[email protected]>
Support newer boosts

4da97faeb0c2874c37f3c3024fab473fe0a19a70 authored about 5 years ago by jpfeuffer <[email protected]>
Allow boost 1.71

01ca1a048d37a2bd8ed0d7616c6579664eea52b5 authored about 5 years ago by jpfeuffer <[email protected]>
[INTERNAL] use Qt SQL wrapper instead of SQLite C bindings in class OMSFile

cae3ce7344f08be6a3c1f7c36f2ae8bd87730079 authored about 5 years ago by Hendrik Weisser <[email protected]>
[BUILD] enable Qt SQL component for use in class OMSFile (are all these changes necessary?)

49cd178418ca552acbd422be522f4a66355b2cc4 authored about 5 years ago by Hendrik Weisser <[email protected]>
Refactor to base class. Fix remaining tests.

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

8ec1fb09b6baaf9eaccdfb4b845149e11d3194a8 authored about 5 years ago by Julianus Pfeuffer <[email protected]>
Merge pull request #4266 from cbielow/feat_TOPPAS

Some TOPPAS improvements

03f326171422e983248604be95f1f743c2acd98b authored about 5 years ago by Timo Sachsenberg <[email protected]>
fix auto-loop- copy warning

139cf3dec77ce5cdc302a0d9bf64854a420b227a authored about 5 years ago by Chris Bielow <[email protected]>
bugfix

c4ff8a2f706725dfc8cffc1856e2e436324e1ded authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] review fix

6f3f396011bc89087fade42c3b45d7c1e32a9168 authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] review fix

15c11e41b224eb244110f9a3fd29b3c0670127c3 authored about 5 years ago by Hannes Roest <[email protected]>
[FIX] review fix

4b1a8eec456ebc9ad32bc630f455d45cc8e4c687 authored about 5 years ago by Hannes Roest <[email protected]>
[FEATURE] avoid unneccessary reset on nodes in TOPPAS when adding new nodes or adding egdes

f652aca21d6dc710c44886268fb1ce1e2f60aaaf authored about 5 years ago by Chris Bielow <[email protected]>
[FIX] fix TOPPAS segfault when closing the app (deref nullptr)

fbb27074357db7ce4eb44338c1d97d6aff2b64e6 authored about 5 years ago by Chris Bielow <[email protected]>
remove unused code

57d44cd077e1254180068ec679ec5277f3fbff70 authored about 5 years ago by Chris Bielow <[email protected]>
[INTERNAL] use new String c'tor to simplify reading text from SQLite

b4ba767c996d85fe9571ed941198923d9f03163b authored about 5 years ago by Hendrik Weisser <[email protected]>
[FIX,TEST] ID data conversion: fixed handling of unknown protein coverage (addendum), updated test

0dd41c3ee17d13d0d9495983929e5731f6099ae0 authored about 5 years ago by Hendrik Weisser <[email protected]>
[FEATURE] OMSFile: implementation and test of SQLite-based file format for ID data (work in progress)

4f2f3f32c128ef03d45e789a18baa6b3e8ff5341 authored about 5 years ago by Hendrik Weisser <[email protected]>
[FIX] Add map_index for Unassigned PeptideIdentifications for linking

and fix indices for assigned PepIDs when linking consensusMaps.

Signed-off-by: Julianus Pfeuffer...

6c754c7d1f2e29ee25618b7a3d0ef5d4d35e6602 authored about 5 years ago by Julianus Pfeuffer <[email protected]>
[FIX] ID data conversion: fixed handling of unknown protein coverage

ebbf42d0ae807badb560fb312bbf13f0968a5d13 authored about 5 years ago by Hendrik Weisser <[email protected]>
[API] added String c'tor from 'unsigned char*' for SQLite compatibility

b7603745adb4a43582ec7754829ae35a66a44a74 authored about 5 years ago by Hendrik Weisser <[email protected]>
[API,INTERNAL] SqliteConnector improvements

- changed misleading function name ('executePreparedStatement' -> 'prepareStatement')
- simplifie...

383e0a4ca754a631f337decd1cf76146e5bab338 authored about 5 years ago by Hendrik Weisser <[email protected]>
[NOP] whitespace/style fixes

bf51f57073493b4c922aaed74dacaf24066c7f1a authored about 5 years ago by Hendrik Weisser <[email protected]>
[FEATURE] added constraints check for coverage to 'IdentificationData::registerParentMolecule'

970b2d745c9487105735ffa3a4a70342e5777861 authored about 5 years ago by Hendrik Weisser <[email protected]>
Merge remote-tracking branch 'JeeH-K/feature/TDdeconv' into feature/TDdeconv

19290fb2511c3eaa66c566818015d14ee12ca8e0 authored about 5 years ago by kyowonjeong <[email protected]>
Mass trace null bug fixed

f795dd36915d80c219c11c83f97391aafd108234 authored about 5 years ago by kyowonjeong <[email protected]>
Mass trace null bug fixed

2a56b8e1b459f3d410ec7fd0af6b7584b44735d2 authored about 5 years ago by kyowonjeong <[email protected]>
Merge pull request #4258 from timosachsenberg/fix/IC2

[FIX] disable quadratic recalibration in LFQ tool for now

5af9d060f29140495c70aa65fae6e2a21f9f5be3 authored about 5 years ago by Timo Sachsenberg <[email protected]>