Ecosyste.ms: OpenCollective

An open API service for software projects hosted on Open Collective.

OpenMS

Make mass spectrometry analysis accessible to anyone
Collective - Host: opensource - https://opencollective.com/openms - Website: https://openms.org - Code: https://github.com/openms

fix log functions

github.com/OpenMS/OpenMS-1 - 9aeaa89e93da11b10bc36cb04affc4a3cbe0bc51 authored about 2 years ago by bielow <[email protected]>
fix log functions

github.com/OpenMS/OpenMS - 9aeaa89e93da11b10bc36cb04affc4a3cbe0bc51 authored about 2 years ago by bielow <[email protected]>
[FIX] CorrectMZ support for PASEF data

Change CorrectMZ function to be similar to correctIM() such that in
PASEF data, precursors are e...

github.com/OpenMS/OpenMS - 7a6b444b4f2fc88976a7eaddc207fa1f758706f8 authored about 2 years ago by Joshua <[email protected]>
[FIX] CorrectMZ support for PASEF data

Change CorrectMZ function to be similar to correctIM() such that in
PASEF data, precursors are e...

github.com/OpenMS/OpenMS-1 - 7a6b444b4f2fc88976a7eaddc207fa1f758706f8 authored about 2 years ago by Joshua <[email protected]>
a first version ...

github.com/OpenMS/OpenMS-1 - e4980a0fcd2f5dee09408395094fb49cc320ed1f authored about 2 years ago by bielow <[email protected]>
a first version ...

github.com/OpenMS/OpenMS - e4980a0fcd2f5dee09408395094fb49cc320ed1f authored about 2 years ago by bielow <[email protected]>
[NOP] fix spacing

github.com/OpenMS/OpenMS - 72b68966855e26d0f1ef1cdbfe2b2ad8776565e1 authored about 2 years ago by Joshua <[email protected]>
[NOP] fix spacing

github.com/OpenMS/OpenMS-1 - 72b68966855e26d0f1ef1cdbfe2b2ad8776565e1 authored about 2 years ago by Joshua <[email protected]>
Merge branch 'develop' into feature/OswImCalibOutput

github.com/OpenMS/OpenMS-1 - 5f63055c84ccba7bacd5b4fa3246723fc8dec8ba authored about 2 years ago by Timo Sachsenberg <[email protected]>
Merge branch 'develop' into feature/OswImCalibOutput

github.com/OpenMS/OpenMS - 5f63055c84ccba7bacd5b4fa3246723fc8dec8ba authored about 2 years ago by Timo Sachsenberg <[email protected]>
Publishing Site OpenMS/openms.de at f0b6dba95657b08a4a8966d677bc3caf00dc6b2e on Tue Jul 26 12:25:46 UTC 2022

github.com/OpenMS/openms.github.io - 31a24ec48312cc9b2a0372e21559be6628ba7456 authored about 2 years ago by rahul799 <[email protected]>
fix

github.com/OpenMS/OpenMS-website - f0b6dba95657b08a4a8966d677bc3caf00dc6b2e authored about 2 years ago by rahul799 <[email protected]>
indent in header row

github.com/OpenMS/OpenMS - 815d71fc4564bde675eb4c62ea92d4ac63cb2b30 authored about 2 years ago by axelwalter <[email protected]>
indent in header row

github.com/OpenMS/OpenMS-1 - 815d71fc4564bde675eb4c62ea92d4ac63cb2b30 authored about 2 years ago by axelwalter <[email protected]>
Publishing Site OpenMS/openms.de at c2bd21fef3abf5d5dbce90c96745a71beadb655d on Tue Jul 26 12:23:07 UTC 2022

github.com/OpenMS/openms.github.io - 41d0b8b14bc8057adfba9d71372b7cc4e6d5735e authored about 2 years ago by rahul799 <[email protected]>
Merge branch 'main' of https://github.com/OpenMS/openms.de

github.com/OpenMS/OpenMS-website - c2bd21fef3abf5d5dbce90c96745a71beadb655d authored about 2 years ago by rahul799 <[email protected]>
adding quick facts

github.com/OpenMS/OpenMS-website - e2e61e04e1d0767534c1ca38a9c47809a66691cb authored about 2 years ago by rahul799 <[email protected]>
update GNPSExport test

github.com/OpenMS/OpenMS - 1fc0d7407578a1b9624df5b749ed25a6bd0412c8 authored about 2 years ago by axelwalter <[email protected]>
update GNPSExport test

github.com/OpenMS/OpenMS-1 - 1fc0d7407578a1b9624df5b749ed25a6bd0412c8 authored about 2 years ago by axelwalter <[email protected]>
add index column for meta value file

github.com/OpenMS/OpenMS-1 - 163eaed41e2fa2c0a538949e3b6d2fc0ddc37598 authored about 2 years ago by axelwalter <[email protected]>
add index column for meta value file

github.com/OpenMS/OpenMS - 163eaed41e2fa2c0a538949e3b6d2fc0ddc37598 authored about 2 years ago by axelwalter <[email protected]>
[FIX] OpenSwathDecoy exclude too many peptides bug

Previously I added a function to ensure OpenSwathDecoy generator does
not add decoys that are al...

github.com/OpenMS/OpenMS - b5658824c8182a0490e2844623bd633edc1c1c24 authored about 2 years ago by Joshua <[email protected]>
[TEST] OpenSwathDecoyTest_5

add to test to ensure decoys of different charge states and same
sequence are not excluded.

github.com/OpenMS/OpenMS - b06a19d18d9afb75c2a68e79ea8809e46d19e5e0 authored about 2 years ago by Joshua <[email protected]>
[FIX] OpenSwathDecoy exclude too many peptides bug

Previously I added a function to ensure OpenSwathDecoy generator does
not add decoys that are al...

github.com/OpenMS/OpenMS-1 - b5658824c8182a0490e2844623bd633edc1c1c24 authored about 2 years ago by Joshua <[email protected]>
[TEST] OpenSwathDecoyTest_5

add to test to ensure decoys of different charge states and same
sequence are not excluded.

github.com/OpenMS/OpenMS-1 - b06a19d18d9afb75c2a68e79ea8809e46d19e5e0 authored about 2 years ago by Joshua <[email protected]>
[TEST] add test for PASEF IM irt calibration

Append to OpenSwathWorkflow_23 test to also test that pasef windows can be
correctly assigned in...

github.com/OpenMS/OpenMS-1 - 5c8402a1f388027563910a5b62e7f6e78d3b4375 authored about 2 years ago by Joshua <[email protected]>
[TEST] add test for PASEF IM irt calibration

Append to OpenSwathWorkflow_23 test to also test that pasef windows can be
correctly assigned in...

github.com/OpenMS/OpenMS - 5c8402a1f388027563910a5b62e7f6e78d3b4375 authored about 2 years ago by Joshua <[email protected]>
[NOP] format changes for PR

github.com/OpenMS/OpenMS - 5a66d1356c20a00d0127f721fe366bf73d3779f2 authored about 2 years ago by Joshua <[email protected]>
[NOP] format changes for PR

github.com/OpenMS/OpenMS-1 - 5a66d1356c20a00d0127f721fe366bf73d3779f2 authored about 2 years ago by Joshua <[email protected]>
log sirius stdout for SiriusAdapter tests

github.com/OpenMS/OpenMS-1 - 2b367eb0c93130fd32fc82dba61d802e9fc33c3c authored about 2 years ago by axelwalter <[email protected]>
log sirius stdout for SiriusAdapter tests

github.com/OpenMS/OpenMS - 2b367eb0c93130fd32fc82dba61d802e9fc33c3c authored about 2 years ago by axelwalter <[email protected]>
merged develop and resolved conflict in SiriusAdapterAlgorithm.cpp

github.com/OpenMS/OpenMS - 5bd65a4cc36f30af22a6b2719cdd6d4a0705c5aa authored about 2 years ago by axelwalter <[email protected]>
merged develop and resolved conflict in SiriusAdapterAlgorithm.cpp

github.com/OpenMS/OpenMS-1 - 5bd65a4cc36f30af22a6b2719cdd6d4a0705c5aa authored about 2 years ago by axelwalter <[email protected]>
update changelog

github.com/OpenMS/OpenMS-1 - 54be3454b6c382f52ae300bfdf8df8c716db7487 authored about 2 years ago by Joshua <[email protected]>
update changelog

github.com/OpenMS/OpenMS - 54be3454b6c382f52ae300bfdf8df8c716db7487 authored about 2 years ago by Joshua <[email protected]>
[TEST] fix tests with new output

replace output files for tests which now include the new delta_im
parameters

github.com/OpenMS/OpenMS - ebff85461cadd75b181e68a6d6ac2ae88b59e639 authored about 2 years ago by Joshua <[email protected]>
[TEST] fix tests with new output

replace output files for tests which now include the new delta_im
parameters

github.com/OpenMS/OpenMS-1 - ebff85461cadd75b181e68a6d6ac2ae88b59e639 authored about 2 years ago by Joshua <[email protected]>
Add extra IM output to OSW

add output of delta im (both MS1 and MS2 level) and add IM for both MS1
and MS2

github.com/OpenMS/OpenMS-1 - 10475cc620935614e25d040cab48627c1af09ede authored about 2 years ago by Joshua <[email protected]>
Add extra IM output to OSW

add output of delta im (both MS1 and MS2 level) and add IM for both MS1
and MS2

github.com/OpenMS/OpenMS - 10475cc620935614e25d040cab48627c1af09ede authored about 2 years ago by Joshua <[email protected]>
[FIX] fix swath tests for calibrate IM

github.com/OpenMS/OpenMS - 2bd0dc66f2f28304359ea3cceb06bfacb93d2e74 authored about 2 years ago by Joshua <[email protected]>
[FIX] fix swath tests for calibrate IM

github.com/OpenMS/OpenMS-1 - 2bd0dc66f2f28304359ea3cceb06bfacb93d2e74 authored about 2 years ago by Joshua <[email protected]>
[FIX] IM calibration with PASEF data

Previously IM calibration not working with PASEF data, code thought it
was sonar data. Added fun...

github.com/OpenMS/OpenMS-1 - e51f1eb5fbfd58fc5efaaa322e670d34df91850f authored about 2 years ago by Joshua <[email protected]>
[FIX] IM calibration with PASEF data

Previously IM calibration not working with PASEF data, code thought it
was sonar data. Added fun...

github.com/OpenMS/OpenMS - e51f1eb5fbfd58fc5efaaa322e670d34df91850f authored about 2 years ago by Joshua <[email protected]>
[FEATURE] PASEF picking for iRT calibration

Allow iRT peptides to be picked from the SWATH which they are most
centered around with their io...

github.com/OpenMS/OpenMS - e5ab3cc16c1d7ad3b63d2846365c561a30cfaf06 authored about 2 years ago by Joshua <[email protected]>
[FEATURE] PASEF picking for iRT calibration

Allow iRT peptides to be picked from the SWATH which they are most
centered around with their io...

github.com/OpenMS/OpenMS-1 - e5ab3cc16c1d7ad3b63d2846365c561a30cfaf06 authored about 2 years ago by Joshua <[email protected]>
Merge pull request #6265 from tillenglert/fix/MSFragger_PEPmodel_Support

Fix/MSFragger_PEPModel_Support

github.com/OpenMS/OpenMS-1 - 031a36f3790a8a2fcd9818a2f9414e58bfe720c9 authored over 2 years ago by Julianus Pfeuffer <[email protected]>
Merge pull request #6265 from tillenglert/fix/MSFragger_PEPmodel_Support

Fix/MSFragger_PEPModel_Support

github.com/OpenMS/OpenMS - 031a36f3790a8a2fcd9818a2f9414e58bfe720c9 authored over 2 years ago by Julianus Pfeuffer <[email protected]>
Added myself to the Author list

github.com/OpenMS/OpenMS - 204bb9e25dadd83bd9b4b2ec0459180444390a24 authored over 2 years ago by tillenglert <[email protected]>
Added myself to the Author list

github.com/OpenMS/OpenMS-1 - 204bb9e25dadd83bd9b4b2ec0459180444390a24 authored over 2 years ago by tillenglert <[email protected]>
fixed downstream support for MSFragger idXML, when using the PEP tool

github.com/OpenMS/OpenMS-1 - edb2006aacd33d6c1fff3d72a834812ddefc045f authored over 2 years ago by tillenglert <[email protected]>
fixed downstream support for MSFragger idXML, when using the PEP tool

github.com/OpenMS/OpenMS - edb2006aacd33d6c1fff3d72a834812ddefc045f authored over 2 years ago by tillenglert <[email protected]>
Merge branch 'OpenMS:develop' into maxquant-output

github.com/OpenMS/OpenMS - ce1a004456f20ed359c944d633ec5a22d413ca88 authored over 2 years ago by Virginia Rossow <[email protected]>
Merge branch 'OpenMS:develop' into maxquant-output

github.com/OpenMS/OpenMS-1 - ce1a004456f20ed359c944d633ec5a22d413ca88 authored over 2 years ago by Virginia Rossow <[email protected]>
Build version

github.com/OpenMS/OpenMS-1 - 08e532cb86d443db5153ec9ee7f8265dcc299eac authored over 2 years ago by kyowonjeong <[email protected]>
Build version

github.com/OpenMS/OpenMS - 08e532cb86d443db5153ec9ee7f8265dcc299eac authored over 2 years ago by kyowonjeong <[email protected]>
Bugs in decoy scannumber fixed. Reintroduced charge score threshold of 0.7. Should make a parameter for this

github.com/OpenMS/OpenMS - cfde822a6d3846346947ae19885c8390ffc8e35d authored over 2 years ago by kyowonjeong <[email protected]>
Bugs in decoy scannumber fixed. Reintroduced charge score threshold of 0.7. Should make a parameter for this

github.com/OpenMS/OpenMS-1 - cfde822a6d3846346947ae19885c8390ffc8e35d authored over 2 years ago by kyowonjeong <[email protected]>
small fixes

github.com/OpenMS/OpenMS-1 - 789ee0c23947708851950d2c279ec6fe167f6dbb authored over 2 years ago by bielow <[email protected]>
small fixes

github.com/OpenMS/OpenMS - 789ee0c23947708851950d2c279ec6fe167f6dbb authored over 2 years ago by bielow <[email protected]>
fix tutorial

github.com/OpenMS/OpenMS - 9683e4b1df0956d1ef089f8df7e2a1c4338851d6 authored over 2 years ago by bielow <[email protected]>
fix tutorial

github.com/OpenMS/OpenMS-1 - 9683e4b1df0956d1ef089f8df7e2a1c4338851d6 authored over 2 years ago by bielow <[email protected]>
Publishing Site OpenMS/openms.de at b2810ae5284c20c0bd05e1c6cbafb184a36d02da on Fri Jul 22 10:57:43 UTC 2022

github.com/OpenMS/openms.github.io - 1855c7fbdf43f0641d51a524ec59dd3900fa3545 authored over 2 years ago by poshul <[email protected]>
Update terms.md

fixed old reference to texas

github.com/OpenMS/OpenMS-website - b2810ae5284c20c0bd05e1c6cbafb184a36d02da authored over 2 years ago by Samuel Wein <[email protected]>
Publishing Site OpenMS/openms.de at 59e9035da2df08b040d35751cc48b7ce66606e82 on Fri Jul 22 10:56:00 UTC 2022

github.com/OpenMS/openms.github.io - a2c2424f763a35923028c0b3b63d41da55f671fd authored over 2 years ago by poshul <[email protected]>
Update teams.md

github.com/OpenMS/OpenMS-website - 59e9035da2df08b040d35751cc48b7ce66606e82 authored over 2 years ago by Samuel Wein <[email protected]>
Publishing Site OpenMS/openms.de at f3b07321fa1378e695a994fcc9b6bbc299f2fb55 on Fri Jul 22 10:54:36 UTC 2022

github.com/OpenMS/openms.github.io - 2a649ec2b5a90cab639dc1bb6e2670d226793ca1 authored over 2 years ago by poshul <[email protected]>
Update code-of-conduct.md

github.com/OpenMS/OpenMS-website - f3b07321fa1378e695a994fcc9b6bbc299f2fb55 authored over 2 years ago by Samuel Wein <[email protected]>
Publishing Site OpenMS/openms.de at fa6b3f087ac48187b237c51e4ac326b82359a3b9 on Fri Jul 22 10:53:38 UTC 2022

github.com/OpenMS/openms.github.io - 1dd09b6653c5759b161f80876552896564aa6336 authored over 2 years ago by poshul <[email protected]>
Update about.md

Port exec commitee bylaws to about

github.com/OpenMS/OpenMS-website - fa6b3f087ac48187b237c51e4ac326b82359a3b9 authored over 2 years ago by Samuel Wein <[email protected]>
Publishing Site OpenMS/openms.de at 76bf3bb9018e7850db0351d10d0ac63a257ede8e on Fri Jul 22 10:43:38 UTC 2022

github.com/OpenMS/openms.github.io - c77893cb0d8a5c49dde22ec231403fe5e4ffc8b3 authored over 2 years ago by poshul <[email protected]>
Update report-handling-manual.md

github.com/OpenMS/OpenMS-website - 76bf3bb9018e7850db0351d10d0ac63a257ede8e authored over 2 years ago by Samuel Wein <[email protected]>
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into refact_toppview

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

github.com/OpenMS/OpenMS - 712c663f9d557f7f82e49c31483e4cef337dd551 authored over 2 years ago by bielow <[email protected]>
Merge branch 'develop' of https://github.com/OpenMS/OpenMS into refact_toppview

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

github.com/OpenMS/OpenMS-1 - 712c663f9d557f7f82e49c31483e4cef337dd551 authored over 2 years ago by bielow <[email protected]>
Update binaries_lnx.ini

re-remove myrimatch binary

github.com/OpenMS/OpenMS-1 - 2a9ca82b1f043bd930865ea0ee0bf010fb752f73 authored over 2 years ago by Samuel Wein <[email protected]>
Update binaries_lnx.ini

re-remove myrimatch binary

github.com/OpenMS/OpenMS - 2a9ca82b1f043bd930865ea0ee0bf010fb752f73 authored over 2 years ago by Samuel Wein <[email protected]>
Update binaries_win.ini

re-remove myrimatch

github.com/OpenMS/OpenMS - e44038a5f8d630e230b9ef35279cde25689d65c8 authored over 2 years ago by Samuel Wein <[email protected]>
Update binaries_win.ini

re-remove myrimatch

github.com/OpenMS/OpenMS-1 - e44038a5f8d630e230b9ef35279cde25689d65c8 authored over 2 years ago by Samuel Wein <[email protected]>
Merge pull request #6230 from OpenMS/remove_crux

Crux related parts have been removed. Tested in M1 arm64 machine.

github.com/OpenMS/OpenMS-1 - 1744153f0ce0faf816ab7760a4c8d96384a932a8 authored over 2 years ago by Samuel Wein <[email protected]>
Merge pull request #6230 from OpenMS/remove_crux

Crux related parts have been removed. Tested in M1 arm64 machine.

github.com/OpenMS/OpenMS - 1744153f0ce0faf816ab7760a4c8d96384a932a8 authored over 2 years ago by Samuel Wein <[email protected]>
Merge remote-tracking branch 'upstream/develop' into HEAD

github.com/OpenMS/OpenMS - 309183a8ff0f3db9ca4fb17dcd54ec11abfc7334 authored over 2 years ago by Samuel Wein <[email protected]>
Merge remote-tracking branch 'upstream/develop' into HEAD

github.com/OpenMS/OpenMS-1 - 309183a8ff0f3db9ca4fb17dcd54ec11abfc7334 authored over 2 years ago by Samuel Wein <[email protected]>
Merge pull request #6257 from cbielow/prepTV

More preparations for TOPPView refactor

github.com/OpenMS/OpenMS-1 - be9861f50ac9c3c68a399bbf83d8d5bc771a8128 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Merge pull request #6257 from cbielow/prepTV

More preparations for TOPPView refactor

github.com/OpenMS/OpenMS - be9861f50ac9c3c68a399bbf83d8d5bc771a8128 authored over 2 years ago by Timo Sachsenberg <[email protected]>
Also expose peptide identification meta values (first one) attached to consensus/feature (#6256)

* add methods to extract peptide id meta values

* export consensus feature meta values of fir...

github.com/OpenMS/OpenMS - e1bd67c71643e974841847f2a3214e75e34cc9eb authored over 2 years ago by Timo Sachsenberg <[email protected]>
Also expose peptide identification meta values (first one) attached to consensus/feature (#6256)

* add methods to extract peptide id meta values

* export consensus feature meta values of fir...

github.com/OpenMS/OpenMS-1 - e1bd67c71643e974841847f2a3214e75e34cc9eb authored over 2 years ago by Timo Sachsenberg <[email protected]>
Crux related parts have been removed. Tested in M1 arm64 machine. Jihyung's comments have beend addressed : revoke pepXML_v122.xsd and just edit "new" for OpenMS 3.0 in CHANGELOG

github.com/OpenMS/OpenMS-1 - 6b5f08de100ecaf6116a04c7ab8e98972981460f authored over 2 years ago by kyowonjeong <[email protected]>
Crux related parts have been removed. Tested in M1 arm64 machine. Jihyung's comments have beend addressed : revoke pepXML_v122.xsd and just edit "new" for OpenMS 3.0 in CHANGELOG

github.com/OpenMS/OpenMS - 6b5f08de100ecaf6116a04c7ab8e98972981460f authored over 2 years ago by kyowonjeong <[email protected]>
minor variable name fix

github.com/OpenMS/OpenMS - 102cc66972faa2688c8b39b68cddffa7d3e1927c authored over 2 years ago by bielow <[email protected]>
minor variable name fix

github.com/OpenMS/OpenMS-1 - 102cc66972faa2688c8b39b68cddffa7d3e1927c authored over 2 years ago by bielow <[email protected]>
fix gcc compile error

github.com/OpenMS/OpenMS-1 - 5c45589c09c65c050f85f2b5d0c62b43107ffe49 authored over 2 years ago by bielow <[email protected]>
fix gcc compile error

github.com/OpenMS/OpenMS - 5c45589c09c65c050f85f2b5d0c62b43107ffe49 authored over 2 years ago by bielow <[email protected]>
Merge branch 'develop' into feature/FLASHDeconv

github.com/OpenMS/OpenMS - 6947bc453343724effbe5b0642f6db2ee9ef1dd0 authored over 2 years ago by JeeH-K <[email protected]>
Merge branch 'develop' into feature/FLASHDeconv

github.com/OpenMS/OpenMS-1 - 6947bc453343724effbe5b0642f6db2ee9ef1dd0 authored over 2 years ago by JeeH-K <[email protected]>
fix include (#6259)

github.com/OpenMS/OpenMS-1 - 3d9b1cc6c70caaffa12d9bdbd77a2e9aa5326c94 authored over 2 years ago by Samuel Wein <[email protected]>
fix include (#6259)

github.com/OpenMS/OpenMS - 3d9b1cc6c70caaffa12d9bdbd77a2e9aa5326c94 authored over 2 years ago by Samuel Wein <[email protected]>
Codefactor fixes

github.com/OpenMS/OpenMS - c02c2a67aa5c151a5d18159c1f8e686b2363dcc2 authored over 2 years ago by bielow <[email protected]>
Codefactor fixes

github.com/OpenMS/OpenMS-1 - c02c2a67aa5c151a5d18159c1f8e686b2363dcc2 authored over 2 years ago by bielow <[email protected]>
fix initialization of members

github.com/OpenMS/OpenMS-1 - 601af94b149dc767a645af654102fa0a228da8ef authored over 2 years ago by bielow <[email protected]>
fix initialization of members

github.com/OpenMS/OpenMS - 601af94b149dc767a645af654102fa0a228da8ef authored over 2 years ago by bielow <[email protected]>
fix compile errors

github.com/OpenMS/OpenMS - 1332df94d996bf53d80264231bffcc025ef3a9dd authored over 2 years ago by bielow <[email protected]>