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

update Deisotoper python documentation and throw exception for unrealistic tolerances

timosachsenberg opened this issue over 1 year ago

fixes bug in string conversion

timosachsenberg opened this pull request over 1 year ago

FeatureFinderMetaboIdent seems to add a proton to input molecular formulas

YasinEl opened this issue over 1 year ago

Update Main.doxygen

timosachsenberg opened this pull request over 1 year ago

Switch to SPDX license format

cbielow opened this pull request over 1 year ago

Does OpenMS support the deconvolution of sparse labeling C13 or N15 peptide mass spectrum?

YiqingElroy opened this issue over 1 year ago

fix #7051 (repairs #7035)

cbielow opened this pull request over 1 year ago

make internal calibration plots more robust

cbielow opened this pull request over 1 year ago

[FIX] Sage charge states and spec refs and general spec ref handling

jpfeuffer opened this pull request over 1 year ago

Inconsistent behavior in DeistopeAndSingleCharge function

birdday opened this issue over 1 year ago

CSV File reader does not support comment lines

jpfeuffer opened this issue over 1 year ago

Dangling reference to a temporary in OSMFileStore

SGSSGene opened this issue over 1 year ago

MzTab crashes in PLFQ if experimental design is not given

jonasscheid opened this issue over 1 year ago

Remove BOOST_USE_STATIC

jpfeuffer opened this pull request over 1 year ago

Move FDR, IDFilter and IDRipping into ProteomicsLFQ?

jpfeuffer opened this issue over 1 year ago

GHA Upload of docs missing

jpfeuffer opened this issue over 1 year ago

GHA Clang matrix branch is using GCC

jpfeuffer opened this issue over 1 year ago

GHA and Jenkins overwriting each other

jpfeuffer opened this issue over 1 year ago

[FIX] PercolatorInfile reading even more

jpfeuffer opened this pull request over 1 year ago

[FIX] CoarseIsotope generation

jpfeuffer opened this pull request over 1 year ago

Compilation on g++ < 8 broken due to filesystem header

jpfeuffer opened this issue over 1 year ago

macOS ARM CI for conda

jpfeuffer opened this issue over 1 year ago

fix ARM64 compile error

cbielow opened this pull request over 1 year ago

SIMD nightly build errors on macOS ARM

jpfeuffer opened this issue over 1 year ago

GHA Fix Win Thirdparty

jpfeuffer opened this pull request over 1 year ago

Update openms_ci_matrix_full.yml

poshul opened this pull request over 1 year ago

SageAdapter not tested on Windows

jpfeuffer opened this issue over 1 year ago

Fix PercolatorInfile loading

jpfeuffer opened this pull request over 1 year ago

SageAdapter reading Percolator output error

jpfeuffer opened this issue over 1 year ago

Update openms_ci_matrix_full.yml

poshul opened this pull request over 1 year ago

SageAdapter min and max_peaks settings not passed through

jpfeuffer opened this issue over 1 year ago

SageAdapter does not find anything on BSA

jpfeuffer opened this issue over 1 year ago

Test and add documentation for new pkg installer on macOS

jpfeuffer opened this issue over 1 year ago

Bump src/pyOpenMS/pyopenms-docs from `0d5e4f3` to `b44adfe`

dependabot[bot] opened this pull request over 1 year ago

Dockerfile heavily outdated

jpfeuffer opened this issue over 1 year ago

[ProteomicsLFQ] allow non-probabilistic scores for basic inference

jpfeuffer opened this pull request over 1 year ago

[FEATURE] add reporting for read/write speed for mzML

cbielow opened this pull request over 1 year ago

[SageAdapter] Pass threads param as (file) batch_size

timosachsenberg opened this pull request over 1 year ago

SageAdapter documentation lacking

jpfeuffer opened this issue over 1 year ago

Searchengine parameter names not agreeing

jpfeuffer opened this issue over 1 year ago

SageAdapter does not pass threads

jpfeuffer opened this issue over 1 year ago

Require Qt5.11+?

jpfeuffer opened this issue over 1 year ago

abibuilder8 not working for a long long time

jpfeuffer opened this issue over 1 year ago

Building packages with the new Matrix based Github actions CI doesn't work.

poshul opened this issue over 1 year ago

Poshul test package

poshul opened this pull request over 1 year ago

nightly OpenMS documentation seems to have issues (not updated?)

timosachsenberg opened this issue over 1 year ago

More SIMD/SSE2: removeWhitespace

cbielow opened this pull request over 1 year ago

Full multijob matrix gha

poshul opened this pull request over 1 year ago

Bump contrib from `1240564` to `04d64c6`

dependabot[bot] opened this pull request over 1 year ago

Report active ISA extensions

cbielow opened this pull request over 1 year ago

add option to filter spectra by peptide

timosachsenberg opened this pull request over 1 year ago

IDFilter: KeepBestPerPeptide available via pyopenms but not as CLI flag in IDFilter

jonasscheid opened this issue over 1 year ago

[cleanup] removed EnzymaticDigestionLogModel

timosachsenberg opened this pull request over 1 year ago

Fixed broken / deprecated link

matteopilz opened this pull request over 1 year ago

fix neon flags (not needed)

cbielow opened this pull request over 1 year ago

[cleanup] remove linear mapping PIP

timosachsenberg opened this pull request over 1 year ago

[cleanup] remove DocumentIDTagger and IDPool from share

timosachsenberg opened this pull request over 1 year ago

remove errorstring from XMLHandler.pxd

timosachsenberg opened this pull request over 1 year ago

Fix_sage

timosachsenberg opened this pull request over 1 year ago

make idxml user parameter output deterministic

timosachsenberg opened this pull request over 1 year ago

[FIX] mzML threading issue

cbielow opened this pull request over 1 year ago

MapAlignerPoseClustering can crash with mzML files

axelwalter opened this issue over 1 year ago

[cleanup] remove FIDOAdapter

timosachsenberg opened this pull request over 1 year ago

loadExperiment crashes

uweschmitt opened this issue over 1 year ago

FeatureFinderMultiplex meets bad_alloc problems

liuzy2008 opened this issue over 1 year ago

Fatal Error When Packaging with Pyinstaller

lingjunli-research opened this issue over 1 year ago

Update openms_clang_format.yml

timosachsenberg opened this pull request over 1 year ago

remove tool also from KNIME packaging

timosachsenberg opened this pull request over 1 year ago

[Feature] IDPEP p-values

jpfeuffer opened this pull request over 1 year ago

Get rid of dependency on C compilers

jpfeuffer opened this pull request over 1 year ago

[discussion] remove utils and model as topp tool with utilities category

timosachsenberg opened this pull request over 1 year ago

SiriusAdapter fails in OpenMS 3.0

bernt-matthias opened this issue over 1 year ago

[cleanup] remove CompNovo

timosachsenberg opened this pull request over 1 year ago

[Cleanup] Remove some of the eval tools

timosachsenberg opened this pull request over 1 year ago

[Cleanup] Remove PepNovoAdapter

timosachsenberg opened this pull request over 1 year ago

Bump src/pyOpenMS/pyopenms-docs from `04c8016` to `0d5e4f3`

dependabot[bot] opened this pull request over 1 year ago

port FullMultijob to Github actions

poshul opened this issue over 1 year ago

Port release jenkins job to github actions

poshul opened this issue over 1 year ago

Bump THIRDPARTY from `0dda83f` to `402992f`

dependabot[bot] opened this pull request over 1 year ago

Bump src/pyOpenMS/pyopenms-docs from `04c8016` to `15accd0`

dependabot[bot] opened this pull request over 1 year ago

MapAlignerPoseClustering log filenames during aligment

axelwalter opened this pull request over 1 year ago

Remove_oldsvm

timosachsenberg opened this pull request over 1 year ago

Nightly conda failing or version wrong

jpfeuffer opened this issue over 1 year ago

TOPPAS: better button text to avoid confusion with loading data files

cbielow opened this pull request over 1 year ago

pyopenms_test_memoryleaktests failed

sagitter opened this issue over 1 year ago

Link to toppas tutorial not working

jpfeuffer opened this issue over 1 year ago

update pxds for cython 3 compatibility

timosachsenberg opened this pull request over 1 year ago

Update CHANGELOG

poshul opened this pull request over 1 year ago

Bump src/pyOpenMS/pyopenms-docs from `577aca4` to `04c8016`

dependabot[bot] opened this pull request over 1 year ago

Cython 3

jpfeuffer opened this issue over 1 year ago

Fix link in pyopenms package description

radusuciu opened this pull request over 1 year ago

Add some project urls to pyopenms package

radusuciu opened this pull request over 1 year ago

Use logger for pyopenms warnings/errors

radusuciu opened this pull request over 1 year ago

Base64 encoding/decoding using SIMDe

cbielow opened this pull request over 1 year ago

Deisotoper_test failed

sagitter opened this issue over 1 year ago

[CMAKE] detect coin-or in different places

jpfeuffer opened this pull request over 1 year ago

FindCoin.cmake: reverse logic of #6877, to allow pre-configured OpenMS source builds …

cbielow opened this pull request over 1 year ago

Clean up Licenses and Readmes

jpfeuffer opened this issue over 1 year ago

add suffix to package names on macOS for different archs

jpfeuffer opened this pull request over 1 year ago

MapRTTransformer does not change RT according to trafoXML

jonasscheid opened this issue over 1 year ago