github.com/OpenMS/OpenMS commits | Ecosyste.ms: OpenCollective

when no peak group is found, no write down in file..

f9df7e2c5289d538b969dbee9bec856504068274 authored over 5 years ago by kyowonjeong <[email protected]>

[NOP] cleanup

94525a3f59995b2db415640a87479a16aec7f7d7 authored over 5 years ago by Hannes Roest <[email protected]>

[FIX] sql fix

7ef3e988e9c2755faf0675762b2e62a9b7a7e559 authored over 5 years ago by Hannes Roest <[email protected]>

[FIX] OpenSWATH: Patch to precent NAN from spectral angle score

b71618519affd369f8901f7400b0a2dd726bff1f authored over 5 years ago by George Rosenberger % Califano Lab <[email protected]>

Merge pull request #46 from hendrikweisser/rna-lfq

Updates for NucleicAcidSearchEngine integration

d9d5a35a0e5bc0471e4966ff111e698878cd8f1a authored over 5 years ago by Samuel W <[email protected]>

[FIX,RESOURCE] fixed formatting errors in table of RNA modifications

7fbf92b4166d79ea553de7dd82c339aa2a1b1db1 authored over 5 years ago by Hendrik Weisser <[email protected]>

[RESOURCE] updated table of RNA modifications, added reference to source

11f29444499e65275bd08f3569c6f3e6155113ec authored over 5 years ago by Hendrik Weisser <[email protected]>

[FIX] RNAMassCalculator: added missing include

0668e2a1d6c09d5d6dcfdecb64dc37b13083927b authored over 5 years ago by Hendrik Weisser <[email protected]>

Merge branch 'develop' of https://github.com/OpenMS/OpenMS into rna-lfq

f5f6c0103e57765ccd91a1cb4eb63e9d3ee10ebd authored over 5 years ago by Hendrik Weisser <[email protected]>

Merge branch 'poshul/hendrikweisser-rna-ms2-id' of https://github.com/poshul/OpenMS into rna-lfq

e918c34f4dd1aaf5900ba624f14c822732e5d969 authored over 5 years ago by Hendrik Weisser <[email protected]>

[TEST,FIX] updated test to reflect recent changes in class 'ModifiedNASequenceGenerator'

37ba4390f8aa7ba9137d3e01a6837df9c81c4fae authored over 5 years ago by Hendrik Weisser <[email protected]>

Merge pull request #3976 from cbielow/fasterWrites

Faster write of (id)XML

cdda28fe6da4c29734545213ab6e28e6b36900ca authored over 5 years ago by Chris Bielow <[email protected]>

new contrib

cd0eec06882bf7f1366aee0aea8fc485019a458e authored over 5 years ago by Chris Bielow <[email protected]>

[FEATURE] file format version

a035a2eb9ea196d4a453ec7e864c8d0b7aec3cca authored over 5 years ago by Hannes Roest <[email protected]>

delete outdated

4aea883ba1b51f32110020ddf4194856ae4998e3 authored over 5 years ago by Chris Bielow <[email protected]>

Merge branch 'develop' of https://github.com/OpenMS/OpenMS into fasterWrites

# Conflicts:
# contrib

b43291a7ca105e76b7549370e32587a41c175f06 authored over 5 years ago by Chris Bielow <[email protected]>

Merge pull request #3975 from cbielow/develop

better wording for FileInfo (total number of peaks)

18609041a617c016b2a894910ec5be4fb62b37eb authored over 5 years ago by Chris Bielow <[email protected]>

Merge pull request #3969 from cbielow/num2string_fast

[FEATURE] faster number conversion to String using Boost::Karma

8b730e72b7a976b242a9b9f7c525cb74fa1f75a6 authored over 5 years ago by Timo Sachsenberg <[email protected]>

better wording for FileInfo

813fe85d4cfeac30981ee81f1958d41fc6edabbd authored over 5 years ago by Chris Bielow <[email protected]>

fix test

cca3fbfc592d11c07b38dd230d1226abc105e06d authored over 5 years ago by Chris Bielow <[email protected]>

fix remaining tests

be412e41e642adc47dac626818fb9732c23587d5 authored over 5 years ago by Chris Bielow <[email protected]>

[FEATURE] store gene name

e159e737cae0dca6005a30f3ee6bbf09851ff182 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] check for table existence

ba2a1173be55cddd1026d7b01724647c4c8e0f17 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] add gene to PQP tables

00046235ea591d3280f4bfe48e26bafaa4db6902 authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] fix tests

9784088b5498777a0574847a9d45760d57630ba0 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] use signed, positive 63 bit unique ids

7f02a84adc26c090e0c98bde8f1f4b0cd164e223 authored over 5 years ago by Hannes Roest <[email protected]>

fix py

2fa247ff6018028f94e96a0b9f5f386a77e1c160 authored over 5 years ago by Chris Bielow <[email protected]>

fix compile error

83be1ae120f3bc6b82c691fc4e9443126fe1f01f authored over 5 years ago by Chris Bielow <[email protected]>

fix

f1d73fde47afd60cf0646e6f3f11aa949fbe141c authored over 5 years ago by Chris Bielow <[email protected]>

[FIX] fix bugs in unrelated tests

a30124af065404fd59ba9379e1eb444383c8e45d authored over 5 years ago by Chris Bielow <[email protected]>

[FIX] python test

e1324e919b6d3bee82947ea4c001629c804074fd authored over 5 years ago by Chris Bielow <[email protected]>

[FIX] fast conversion from string->double in FuzzyDiff (avoiding streams like the plague actually helps a lot).

9bce0c7a5b824de0f011752351c604203d7da6c3 authored over 5 years ago by Chris Bielow <[email protected]>

when no peak group is found, no write down in file..

57850fb98d20e76951f5ae66f3338ad72f94fe47 authored over 5 years ago by kyowonjeong <[email protected]>

when no peak group is found, no write down in file..

2d1a06acce337737b9f7c74d3bb0d80d1775d2da authored over 5 years ago by kyowonjeong <[email protected]>

Merge branch 'develop' of https://github.com/OpenMS/OpenMS into rna-lfq-ambivar

2f77fa2a1b99af2f44af1b5268e454d9be69a949 authored over 5 years ago by Hendrik Weisser <[email protected]>

Merge pull request #3971 from enetz/fix/TV_parse_charges

[FIX, GUI] fixed parsing charges from automatic spectrum labeling

94b1007512b5c4398c0fab76cec02c8475a6e332 authored over 5 years ago by Timo Sachsenberg <[email protected]>

[FEATURE] added support for ambiguous modification codes to NucleicAcidSearchEngine (work in progress)

a20553e7085604f055ee1a7bd33b42ff5ebc993a authored over 5 years ago by Hendrik Weisser <[email protected]>

[COMMENT] removed commented-out code in NASequence implementation

4627f3661a332b8c0f5d72fa05bb41bd02fd0fd7 authored over 5 years ago by Hendrik Weisser <[email protected]>

[FIX,RESOURCE] fixed formatting errors in table of RNA modifications

5e2ca36d57e9a57ea397eea47417487fbd62fa91 authored over 5 years ago by Hendrik Weisser <[email protected]>

[FIX] fix some MacClang issues (stream operator>> is broken); remove remnant code

db13347e96b74d7f27c7de11c55ee9af4a0825f7 authored over 5 years ago by Chris Bielow <[email protected]>

[FIX, GUI] resize PeakAnnotation window rows to content

this fixes issues with the representation of the text as well,
e.g. applies line breaks in the n...

16d1637fe20e383e0ebebcd5cc42d0a2b4d17438 authored over 5 years ago by enetz <[email protected]>

[FIX, GUI] fixed parsing charges from automatic spectrum labeling

1e1e6d11b096833b70d5664133dcc63db595d67f authored over 5 years ago by enetz <[email protected]>

[INTERNAL] efficiency improvements in NucleicAcidSearchEngine

59146dc70169f78b79f2bb269d0e2a7764fdb992 authored over 5 years ago by Hendrik Weisser <[email protected]>

fix some tests

b29027b7f89906e74f373cb7f24cf21d3daedba2 authored over 5 years ago by Chris Bielow <[email protected]>

[FIX] allow user to enable nested parallelism

0d4c5354bd1a7127ba1d8634d93c2b3f2a292274 authored over 5 years ago by Hannes Roest <[email protected]>

[RESOURCE] updated table of RNA modifications, added reference to source

2eacc14a054aca6e90781732be2eb91d8c10f056 authored over 5 years ago by Hendrik Weisser <[email protected]>

Merge pull request #3966 from hroest/feature/sql_cleanup

Feature/sql cleanup

3b283eb801808f939a45c54ac765c4d1ded81815 authored over 5 years ago by Timo Sachsenberg <[email protected]>

Merge pull request #3968 from hroest/feature/fixes_2

[FIX] various fixes

cf1464ac0804369085d6402ec4eba615ba2da9f6 authored over 5 years ago by Timo Sachsenberg <[email protected]>

faster idXML file writing

0830c02d2f52a9b0c1464746678c9f7372d53975 authored over 5 years ago by Chris Bielow <[email protected]>

[FEATURE] number conversion to String using Boost::Karma

ff1923b456adc5eed2f89f9b82dbe6564c0a8190 authored over 5 years ago by Chris Bielow <[email protected]>

mass spec index bug fixed

83a6fb925375ac1680a11ad90fd7262523a9655d authored over 5 years ago by kyowonjeong <[email protected]>

Merge branch 'develop' into fix/nested_parallelism

98ca076e4c6836c3899126365efe46e74bd27e62 authored over 5 years ago by Hannes Roest <[email protected]>

[FIX] various fixes

9076d8172483dc4382b654559fadfa36617a7004 authored over 5 years ago by Hannes Roest <[email protected]>

[FIX] cleanup

8512f49a81ba75db3c55b5b37f4fe4cbf7541b3f authored over 5 years ago by Hannes Roest <[email protected]>

[CODE] style fix

031a533456d0edffa0540fcf73d7774d940f4dca authored over 5 years ago by Hannes Roest <[email protected]>

Merge pull request #3965 from enetz/fix/OPXL_decoy_metavalue

[FIX] OPXL xl_target_decoy MetaValue

25ec1f749e400d44d1ff8198f445b58ed6c242d3 authored over 5 years ago by Timo Sachsenberg <[email protected]>

[NOP] whitespace changes

de6768dba795614df9c967d7ce62a1943eba8c28 authored over 5 years ago by Hannes Roest <[email protected]>

[FIX] ammend

950cb7af10386a0fcf81d4d86d130b56491a720b authored over 5 years ago by Hannes Roest <[email protected]>

[FIX] headers

f795c9e325be2d8f8ada334e85c31e079e5cb0ef authored over 5 years ago by Hannes Roest <[email protected]>

Merge branch 'develop' into poshul/hendrikweisser-rna-ms2-id

32428bfffd7debfd35926dadaeb640a56bc124e9 authored over 5 years ago by Samuel W <[email protected]>

[TEST] updated OPXL test files to MetaValue change

b5af959e9f28f0f323a8fc6c9863d4f1de083781 authored over 5 years ago by enetz <[email protected]>

[FIX] OPXL: fixed handling of "target+decoy" classification

"target+decoy" peptides were treated as decoys for XLMS data. They are now treated as targets.
A...

ffec5b7a00b47102276de43d287004201acc8817 authored over 5 years ago by enetz <[email protected]>

feature output parameterized.

458cdb4f70ec7e8bd67676dc749ca99f26463758 authored over 5 years ago by kyowonjeong <[email protected]>

Merge pull request #3964 from hroest/feature/unimod

[FIX] ensure unimod also works in lower case

8aae52307a5fc63149dc3508b972e57c29ac932a authored over 5 years ago by Timo Sachsenberg <[email protected]>

Merge pull request #3948 from hroest/feature/im_pqp

Feature/im pqp

bdecfb04e183e379edf36ccdd5e61716be681824 authored over 5 years ago by Timo Sachsenberg <[email protected]>

[FIX] multi line strings

038a64e73d2ca71f7ce183230f52815124f587c9 authored over 5 years ago by Hannes Roest <[email protected]>

cleanup

0da5069421d93b85e4a3e9c7164d9eb4e9461d48 authored over 5 years ago by Hannes Roest <[email protected]>

Merge branch 'develop' into feature/im_pqp

9799c60fde22740c86fe7283c187ed04626bae71 authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] add test, cleanup

cddd61537db299df50600843acde2f44de0e9d25 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] reduce overhead when reading few spectra

- overhead is substantially reduced when reading only few spectra
- now meta-data is only collec...

f7d522f71e73c4e6e9d7686dca65cffd3dde3da4 authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] fix

5b92e17b34b3ddeb7183e4c66c25b056bc351c57 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] cleanup

060955cc8d34e86560532e98e0d8fa10ac5047e6 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] cleanup

a6f263f5910a22c170ba07506de06694e0a4f1b3 authored over 5 years ago by Hannes Roest <[email protected]>

amend

f52f68570d15d09ca1941a09b8bc7e01c59b6303 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] cleanup

60bc856b5e54404e55c82baca568bd9c79ca318e authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] add test

105a571a20c3158a5488f5a0f351fc7c4599f248 authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] add tesst

0d02998a750d7a6df12f2cd6479f28ddeea19043 authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] add tesst

9b887224f0513ba29ade12fe3c232f7e1b0d8076 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] cleanup

2f00c588c1578f2bc0f7635e363f4015417faf2d authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] add exception

ece92c3cbfef8dca8f6034a38250a7f8b3071516 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] use connector

f03136d08f18e4fc4394ac67cd557c7b7e26337a authored over 5 years ago by Hannes Roest <[email protected]>

namespace

99da06b03715cc20dd716ed76e6401e29aad8bb6 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] extract data from SQL

fc6c17a83fd244c4653d3b8b6aee74ead7198586 authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] update file

452869f0b562fe52b49402aabdf58f921d4c9eb4 authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] update file

d565b76963bd40f34ce57ec1ec0a09c41b29d240 authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] add meta data to test

852c207d880cac2bb26b5addfdb756198ac6b966 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] use connection

73c9b63f7671f75c90f7f49ec33fe5a287fc9b44 authored over 5 years ago by Hannes Roest <[email protected]>

[MOVE] code move

1ed079e42ecee2b7906b7a79d4aebe9f0cd4f52b authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] use connection

0bdbd82c4be47a37af8cda367fe70d100eecdfd8 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] use template

576f3b2a6edbcf30763b22d704e4438568f8a6b4 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] connector

7e6d3bde2cf6c7d9597c2711de493c8d39050b88 authored over 5 years ago by Hannes Roest <[email protected]>

[MOVE] move code

18ba7078e1302e37ab4806e8ace31a69e5cccd13 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] simplify code

8100ce6e9f28d44e1f6981511e05667347229480 authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] sqlite connector

fbc54d94b7d49d1ad6d3394e94d02b6102e3b15a authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] fix test

9ea26f40fdb9d5c0c72ec5dae5101d5cf6da9fc8 authored over 5 years ago by Hannes Roest <[email protected]>

[TEST] fix test

a4c9d08535bd7ce1a37bd384280b8d65bd6aca37 authored over 5 years ago by Hannes Roest <[email protected]>

switch

a5603c28f9a36d3d514f1d5ed35113d88fd07cde authored over 5 years ago by Hannes Roest <[email protected]>

[FEATURE] add class

04fb5b726caec7401ec0aebf78af7530681fe077 authored over 5 years ago by Hannes Roest <[email protected]>

[FIX] ensure unimod also works in lower case

- check for lower-case unimod identifier

8d72e0ad3e5c6c9421f3d7bf5bb3b1b7e8ff6329 authored over 5 years ago by Hannes Roest <[email protected]>

parameter optimized

7f5727a328f6f27045a285084ee6784238e01cd9 authored over 5 years ago by kyowonjeong <[email protected]>