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 branch 'develop' into mztab2stream

5452cbbfe43b8ad857696abf91cebe3209fff7eb authored over 2 years ago by Timo Sachsenberg <[email protected]>
Update test000.py

16aeccbe91afa1e8a8179f55cc527f7709f5dc46 authored over 2 years ago by Timo Sachsenberg <[email protected]>
update name

f0bbd5648abb09966eb9e8683ed40ba6821ce6a2 authored over 2 years ago by Timo Sachsenberg <[email protected]>
pyopenms test - don't modify existing element (leads to side effects in combination with parallel execution)

fixes #6081
replaces https://github.com/OpenMS/OpenMS/pull/6223

6933550dc1b2fb198527c1e7a75476c061212d98 authored over 2 years ago by Timo Sachsenberg <[email protected]>
update SiriusAdapter tests

e4a505493e8b368bf6da59f1c8b67c81f70d5fca authored over 2 years ago by axelwalter <[email protected]>
set sirius version to 5.5.5

db76bf8104a9a48627a6f41fb58f1f2507b93b91 authored over 2 years ago by axelwalter <[email protected]>
update SiriusAdapter tests

b26f5f51ec5b0954f630ca7a30d2d07c9c42781e authored over 2 years ago by axelwalter <[email protected]>
add write-summaries flag to sirius command

90b721aa888e9f63844dca33c3df4456c24b648c authored over 2 years ago by axelwalter <[email protected]>
Merge pull request #6242 from cbielow/fix_windoc

fix windows installation instructions

bce47a158b1663a5a5bc4c284942f390472b4fd5 authored over 2 years ago by Chris Bielow <[email protected]>
Apply suggestions from code review

80622ed58cd2ad2f51c57222b2b0ea953705b6dd authored over 2 years ago by Chris Bielow <[email protected]>
fix windows installation instructions

d850739429aadedd27b874a3b4af8aaa9dd415de authored over 2 years ago by bielow <[email protected]>
Decoy mass implemented by exclusion list + precursor qvalue output.

f64a01c8e10a017193f07f24d00efee331e124cc authored over 2 years ago by kyowonjeong <[email protected]>
mztab exporter update

36d1c57d603cc14275b9c6d174cb94c18e0f99c3 authored over 2 years ago by Timo Sachsenberg <[email protected]>
more switches to stream reader/writer

24eb693cc42f872b1417b5983b3938490066cec0 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Decoy mass implemented by exclusion list.

7507f42b76d3441b7734f76ac513d3bfd0e85f98 authored over 2 years ago by kyowonjeong <[email protected]>
Merge pull request #6234 from jcharkow/feature/msConvertdiaPASEF

[IO] add support for diapasef msconvert mzml files

c21cfcd36e87e70fd77faac17444914fb28e50aa authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge branch 'develop' into feature/msConvertdiaPASEF

c8eefc5f567e89142eceeac1f2b2f3bd3185eebc authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #6229 from OpenMS/feature/noise_data_mzML

Support for noise data in TRFP conversion

ea193ca38f062b5f2f820488dafe5138fbd196fd authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #6232 from OpenMS/removeMyriMatch

deprecate MyriMatch

944179f6912ca91f6c03e34a200922549f8e1175 authored over 2 years ago by JihyungKim <[email protected]>
Merge remote-tracking branch 'origin/develop' into removeMyriMatch

66db6860358155003837f7a2db2e02caaaf142e6 authored over 2 years ago by Timo Sachsenberg <[email protected]>
update SiriusAdapter tests

2dbb8171dcfaaa63bc0e58a6828cb602bb15c289 authored over 2 years ago by axelwalter <[email protected]>
update THIRDPARTY

9e19f9988c1ae349853ab489646c2d02d7b59822 authored over 2 years ago by axelwalter <[email protected]>
Merge pull request #6227 from OpenMS/year_change

changed copyright year number

16a93d924ac776a730a05ab9f68fd815f5e1599e authored over 2 years ago by JihyungKim <[email protected]>
Merge branch 'develop' into year_change

2fee8b68313655d4c95eca1b20a79ca7004c9066 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge remote-tracking branch 'origin/develop' into removeMyriMatch

6e548b0e3c06fcec670897b898ffddcf1ebd71e9 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge branch 'develop' into feature/noise_data_mzML

155ef9649d790eee0f06064a7aa13e9c780b8ff3 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge branch 'develop' into feature/msConvertdiaPASEF

f097cb7a7f8e2c63107dac68963f9c44c04d3409 authored over 2 years ago by Timo Sachsenberg <[email protected]>
[LOG] option to include query in DB error messages for .oms files

e9c1445d76787d4ee4320331ff8352791d53e137 authored over 2 years ago by Hendrik Weisser <[email protected]>
update THIRDPARTY

57b4204b479005958e778e844149aa69efa47890 authored over 2 years ago by axelwalter <[email protected]>
Crux related parts have been removed. Tested in M1 arm64 machine.

pepXML_v122.xsd Shema has been restored.

d636242f5f2c5dc0d516e7e415546b13aa059364 authored over 2 years ago by kyowonjeong <[email protected]>
Merge branch 'develop' into remove_crux

696925a449aa8ef5163dab796ffded3f56e4d7a8 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into refact_toppview

# Conflicts:
# contrib
# src/openms/include/OpenMS/KERNEL/RangeManager.h

4dca51a919ccb313b726fa3cafd285fcea28f7c7 authored over 2 years ago by bielow <[email protected]>
update contrib hash

0cb681ad3e2b43fd2be00ae97da895647a61bf34 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge branch 'develop' into removeMyriMatch

9ed75855a32cbdf30cbe758ff08a65729868298c authored over 2 years ago by Timo Sachsenberg <[email protected]>
update THIRDPARTY

6674830a9b319a55b1550725ab4de52bbe3ee6cf authored over 2 years ago by axelwalter <[email protected]>
[IO] add support for diapasef msconvert mzml files

MSConvert has a different label for the IM array of diaPASEF converted
files. Ensure that OpenSw...

8e507c05147b4673b68f7113d2a8683d27b9b9b2 authored over 2 years ago by Joshua <[email protected]>
update submodule THIRDPARTY

bdc802f0a2a12ef8004834db759a8876d8612d0f authored over 2 years ago by axelwalter <[email protected]>
Crux related parts have been removed. Tested in M1 arm64 machine.

5d1b6e25870c23879fc77aaed69ecdf5a76a05a4 authored over 2 years ago by kyowonjeong <[email protected]>
remove MyriMatch related files in THIRDPARTY

3fdac50581246a357931795c9eb20ad6bb39d387 authored over 2 years ago by JeeH-K <[email protected]>
Update third_party_tests.cmake

583c575aab3540f46d74cec51147f8d53fc3bbe3 authored over 2 years ago by Timo Sachsenberg <[email protected]>
deprecate MyrimatchAdapter

3e0271e867e6382a70123ade15f55c6bd3887bc8 authored over 2 years ago by JeeH-K <[email protected]>
Support for noise data in TRFP conversion

d9ef737f37b2245e466dbdf0a7a9323ed0b6d81b authored over 2 years ago by timosachsenberg <[email protected]>
Merge pull request #6209 from OpenMS/timosachsenberg-patch-1

[pyOpenMS] fix modifiedPeptideGenerator

992607472515a45887deb58bb87918e2eb75536b authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #6228 from OpenMS/timosachsenberg-patch-2

Add files via upload

605388334313be9e5f6b637d98452764795956ce authored over 2 years ago by Timo Sachsenberg <[email protected]>
Add files via upload

659b67b70e91a8b8177404c4810d83222ad3e94b authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #6226 from OpenMS/feature/update3rd

update 3rd party

44667372dcc2d93b568a328d81eb85cb4e23d920 authored over 2 years ago by Timo Sachsenberg <[email protected]>
update 3rd party

018670acfbf75b5b1bbc335240fb7b393fd31aa5 authored over 2 years ago by timosachsenberg <[email protected]>
changed copyright year number

bf1c6064857506a75cc6bc7fd700169713984e07 authored over 2 years ago by JeeH-K <[email protected]>
Merge pull request #5367 from OpenMS/feature/remove_omssa

remove OMSSA

1c87ee5a05c6433c83e753aef8807d8454fe27d2 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #6208 from axelwalter/feature/TextExporter-meta-values

[Feature] TextExporter write ConsensusFeature meta values

4733d6dddf966dd41a188981b632a17f6ea4143d authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #6221 from axelwalter/fix/GNPSExport-pyopenms-tests

[Fix] GNPSExport pyopenms tests

8fc115a892d91c1128bdbc340be1022cc89b2ff0 authored over 2 years ago by axelwalter <[email protected]>
Merge remote-tracking branch 'origin/develop' into feature/remove_omssa

ce04451d5534267bef7b00aec6e7db53874cf6d3 authored over 2 years ago by timosachsenberg <[email protected]>
fix tests

6712ac65980f98f5daee2ec9d8603f977689391c authored over 2 years ago by axelwalter <[email protected]>
Merge remote-tracking branch 'origin/develop' into feature/remove_omssa

7c239ed72e68c3953ddfae446dd3b73fac88b3ae authored over 2 years ago by timosachsenberg <[email protected]>
Merge branch 'develop' into feature/FLASHDeconvOnly

4b8bc17483871e286d784049697a39f67ddcb173 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #6214 from cbielow/ion_mob

Ion Mobilogram support

1f0d14afbeff9f23c3eddb671320af9e01aa95e6 authored over 2 years ago by Chris Bielow <[email protected]>
Merge branch 'develop' into timosachsenberg-patch-1

5c3c2b164fc964a128aeb2dcedbb851deb3297c4 authored over 2 years ago by Timo Sachsenberg <[email protected]>
[DOC] update openswath ion mobility extraction message

* [DOC] update openswath ion mobility extraction message

Update messages to specify the unit ...

59139e3869975e121c13c0e82526e8bf9f0ef6cf authored over 2 years ago by Joshua Charkow <[email protected]>
Merge pull request #6219 from cbielow/fix_datetime

fix segfault when assigning to a moved-from DateTime

bba67f643312bf5c9b153b845775fc32213ce38d authored over 2 years ago by Chris Bielow <[email protected]>
Merge pull request #6218 from OpenMS/jpfeuffer-patch-1

PLFQ docs

f2fa3beaa49faeb4b5a43d5b4b5937a5e36c8548 authored over 2 years ago by Chris Bielow <[email protected]>
fix segfault when assigning to a moved-from DateTime

f88d5fd4c10d6ac394404ea2d1c3458749148766 authored over 2 years ago by bielow <[email protected]>
PLFQ docs

fixes #6213

cfe9119d05be54b74b59635b5b1da89fc1354803 authored over 2 years ago by Julianus Pfeuffer <[email protected]>
Merge pull request #6217 from axelwalter/fix/gnps-export-docs

[Fix] add MapRTTransformer step in GNPSExpoert docs

3c327050328690d2b9277c13556b96dd4301197e authored over 2 years ago by Timo Sachsenberg <[email protected]>
individual trafoXML files and newest GNPSExport changes

890a04eba19a33a7aec407e4e746cc66cd96de32 authored over 2 years ago by axelwalter <[email protected]>
add MapRTTransformer step in GNPSExpoert docs

c2a2b6e2f84defa1ea8069fd6df879224e67a68a authored over 2 years ago by axelwalter <[email protected]>
added include for nan

609f43540c5f3362a963e07c0fd012c35feed29e authored over 2 years ago by bielow <[email protected]>
fix type

55e6354a4e4848a2924d7fe17c06d5888520ead3 authored over 2 years ago by bielow <[email protected]>
fix test

e82da92be4fc806b572fe895b226e78f31f80b52 authored over 2 years ago by bielow <[email protected]>
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into idfile-json-export

c460463b359ba51a375c4142488965a816ee2d49 authored over 2 years ago by Hendrik Weisser <[email protected]>
[NOP] added space in SQL query

268642fc41eab9e842e2ce51aeb8334ec8036697 authored over 2 years ago by Hendrik Weisser <[email protected]>
merge

36cb684e2b4900536efa02ebb1b7710bbf84825a authored over 2 years ago by bielow <[email protected]>
added MobilityPeak1D and Mobilogram

bfe2b6ddc361dadfeb358cb1fb01b2a6da98f0d5 authored over 2 years ago by bielow <[email protected]>
Some more cleanup.

e7d546d3101cc63d01502b48bef21f568f2e44bf authored over 2 years ago by Virginia Rossow <[email protected]>
added MobilityPeak1D and Mobilogram

0322986419beacef781535b39525b85b1b36b191 authored over 2 years ago by bielow <[email protected]>
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into refact_toppview

# Conflicts:
# src/openms/include/OpenMS/CHEMISTRY/EnzymaticDigestion.h
# src/openms/include/Ope...

ebf09aec5ee3657b5a0d2de01352b360229abfca authored over 2 years ago by bielow <[email protected]>
add mobility datastructure mockup

7ff8b5ba0a7542e681c6da16c7d0c9e0c55a29d5 authored over 2 years ago by bielow <[email protected]>
update test files

320c238b39edc96dcac82a495da2b9a889555cc0 authored over 2 years ago by axelwalter <[email protected]>
[pyOpenMS] fix modifiedPeptideGenerator

4d2768eb33055fdfb4301e94a5434e4bd84bd09d authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #6207 from cbielow/compile_time_opt

reduce compile time

b93fab574bac7071efad8c6c00ca61fe61700a5f authored over 2 years ago by Chris Bielow <[email protected]>
write meta value headers function

af641bcf4d90b9fc9c9788a28824ff938e45097a authored over 2 years ago by axelwalter <[email protected]>
update tests

34e316b1f6ffdcd709645717a8253e5f37176c6b authored over 2 years ago by axelwalter <[email protected]>
add metavalue export for consensusXML

716dca076e6993b7ae498e20ed60c202539d86d0 authored over 2 years ago by axelwalter <[email protected]>
add assignement

2b8648b5095188d7daaedd14d4ccf537a70fe775 authored over 2 years ago by bielow <[email protected]>
Merge remote-tracking branch 'origin/origin/compile_time_opt' into compile_time_opt

befdf571ca3dfda9e2f48ecf064eb525e9f4e69b authored over 2 years ago by bielow <[email protected]>
switch to unique_ptr to avoid mem leaks and worse..

169eba70286539baf9fb4664f2b5f90c4cc72a9b authored over 2 years ago by bielow <[email protected]>
Update src/openms/include/OpenMS/DATASTRUCTURES/DateTime.h

Co-authored-by: Timo Sachsenberg <[email protected]>

064fd11c624f923429dfeac2bb5f89e828211438 authored over 2 years ago by Chris Bielow <[email protected]>
reduce compile time

e6fee28c231221969c11771fa9b031391a940fe4 authored over 2 years ago by bielow <[email protected]>
Merge branch 'refact_toppview' of https://github.com/cbielow/OpenMS into refact_toppview

60ed4593626de9eb120154e513e3a6ae2b3c34d7 authored over 2 years ago by bielow <[email protected]>
reduce compile time

d9cc6ffb8b344975eada8da4bcaec87498b16fb8 authored over 2 years ago by bielow <[email protected]>
fix projection and point scaling for IM data

62e140cac852a4b74d9d6352862e6098e9cfeae3 authored over 2 years ago by bielow <[email protected]>
some changes in MQExporterHelper

d776a9119e6ab3566a65f6d1df02861598e8195e authored over 2 years ago by beschorneh32 <[email protected]>
Merge branch 'maxquant-output' of https://github.com/vrossow/OpenMS into maxquant-output

582cd152d5096bdf23e84453a6842c2bfa26955a authored over 2 years ago by Virginia Rossow <[email protected]>
Implemented suggestions in Evidence and Msms

14540875b7f6cfeccee9e849c10c87ec4503bfa0 authored over 2 years ago by Virginia Rossow <[email protected]>
fix projection and point scaling for IM data

16762b296af48f924f9491685952401269e9bf6f authored over 2 years ago by bielow <[email protected]>
Big performance boost by introducing recurteAllPeaksInSepctrum in PeakGroup.cpp. Changing PeakGroup so scoring is included inside as private functions. Tested for dna, complex, histon, and standard

27046dd785c541ec742064b1b561fca52ae1231f authored over 2 years ago by kyowonjeong <[email protected]>
Big performance boost by introducing recurteAllPeaksInSepctrum in PeakGroup.cpp. Changing PeakGroup so scoring is included inside as private functions. Tested for dna, complex, histon, and standard

3300de5d5274b478637d5070c2e728e671263191 authored over 2 years ago by kyowonjeong <[email protected]>
Big performance boost by introducing recurteAllPeaksInSepctrum in PeakGroup.cpp. Changing PeakGroup so scoring is included inside as private functions. Many bugs on harmonic have been removed.

751b8778a95e794f3c0c94c1a20b8f74d2f66cb8 authored over 2 years ago by kyowonjeong <[email protected]>
support 2D IM Frames: zooming and selected_peak text

9ce615bb1343cfff300dd75cdeb889c3be48b983 authored over 2 years ago by bielow <[email protected]>
Merge branch 'idfile-json-export' of https://github.com/hendrikweisser/OpenMS into idfile-json-export

cb13c15014ee34539972a8179b24a5ad24cff82d authored over 2 years ago by Hendrik Weisser <[email protected]>
[TEST] updated JSONExporter test files to recent changes

ec88c800144a234f1b867ed3fee971621410c1fc authored over 2 years ago by Hendrik Weisser <[email protected]>