Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / Nesvilab/philosopher issues and pull requests

#371 - panic: Cannot write file. open /tmp/proteomes.csv: permission denied

Issue - State: closed - Opened by cpanse almost 2 years ago - 1 comment

#370 - fix broken link to the docs

Pull Request - State: closed - Opened by fabianegli almost 2 years ago - 1 comment

#369 - Broken links

Issue - State: closed - Opened by fabianegli almost 2 years ago - 1 comment
Labels: enhancement

#368 - Fix broken link and add explanatory variables

Pull Request - State: closed - Opened by fabianegli almost 2 years ago - 3 comments
Labels: enhancement

#367 - `${PHILOSOPHER} database --id UP000001940` does not download full reference proteome anymore

Issue - State: closed - Opened by cpanse almost 2 years ago - 4 comments
Labels: bug

#366 - WARN url `https://philosopher/releases` is not working

Issue - State: closed - Opened by cpanse almost 2 years ago - 1 comment
Labels: bug

#365 - wrong output using `${PHILOSOPHER} database` v4.3

Issue - State: closed - Opened by cpanse about 2 years ago - 2 comments

#364 - replacing the uniprot api

Pull Request - State: closed - Opened by prvst about 2 years ago

#363 - Fix uniprot URL link

Pull Request - State: closed - Opened by jcharkow about 2 years ago - 1 comment

#362 - Philosopher 4.2.2 cannot annotate database

Issue - State: closed - Opened by asifratul about 2 years ago - 1 comment

#360 - V4.2.2

Pull Request - State: closed - Opened by prvst about 2 years ago

#357 - Database - Protein existence

Issue - State: closed - Opened by f-huber about 2 years ago - 5 comments
Labels: enhancement

#356 - RemoveAll .: invalid argument

Issue - State: closed - Opened by prvst about 2 years ago - 10 comments
Labels: help wanted

#354 - Is there any updates of the software?

Issue - State: closed - Opened by chuliangcui about 2 years ago

#353 - panic: runtime error: index out of range [1] with length 1

Issue - State: closed - Opened by seongminlab about 2 years ago - 9 comments
Labels: help wanted

#352 - Add basic init script to initialize Assets

Pull Request - State: closed - Opened by chhh about 2 years ago - 1 comment

#350 - Problem for quantification of TMT16 experiments

Issue - State: closed - Opened by fstein about 2 years ago - 16 comments
Labels: help wanted

#349 - Philosopher updated but generated bugs. Can I get back Philosopher 4.1.1?

Issue - State: closed - Opened by chuliangcui about 2 years ago - 15 comments
Labels: help wanted

#348 - Help needed. ProteinProphet does not start.

Issue - State: closed - Opened by fstein about 2 years ago - 19 comments
Labels: help wanted

#347 - Update PeptideProphet

Issue - State: closed - Opened by JB91451 about 2 years ago - 1 comment
Labels: enhancement

#346 - fix serialization of empty slice

Pull Request - State: closed - Opened by guoci about 2 years ago

#345 - Fix empty slice serialization

Pull Request - State: closed - Opened by guoci about 2 years ago

#344 - Cannot decode packed binary

Issue - State: closed - Opened by prvst about 2 years ago - 1 comment
Labels: help wanted

#342 - print traceback for fatal errors

Pull Request - State: closed - Opened by guoci about 2 years ago

#341 - bugfix serialization

Pull Request - State: closed - Opened by guoci about 2 years ago - 2 comments

#340 - V4.2.2

Pull Request - State: closed - Opened by prvst about 2 years ago

#338 - Asynchronous file reading issue with folders

Issue - State: closed - Opened by prvst over 2 years ago - 5 comments
Labels: bug

#336 - removing raw reader

Pull Request - State: closed - Opened by prvst over 2 years ago

#335 - Rc v4.2.1

Pull Request - State: closed - Opened by prvst over 2 years ago

#332 - Philosopher Filter not recognizing .pepxml?

Issue - State: closed - Opened by tjlundgren over 2 years ago - 1 comment

#330 - TMT6 quantification using pipeline command does not quantify correct channels

Issue - State: closed - Opened by fstein over 2 years ago - 3 comments
Labels: bug, help wanted

#329 - Omit cross os bins

Pull Request - State: closed - Opened by prvst over 2 years ago

#328 - Help needed. Empty PSM list stops pipeline.

Issue - State: closed - Opened by fstein over 2 years ago - 36 comments
Labels: help wanted

#327 - Writing philosopher output automatically into log file

Issue - State: closed - Opened by fstein over 2 years ago - 10 comments
Labels: enhancement

#326 - runtime error

Issue - State: closed - Opened by prvst over 2 years ago - 2 comments
Labels: help wanted

#323 - Issue with pipeline LFQ

Issue - State: closed - Opened by Naadir-Ganief over 2 years ago - 4 comments
Labels: help wanted

#319 - omit Linux executables in a Windows build and vice versa

Pull Request - State: closed - Opened by guoci over 2 years ago - 5 comments

#317 - Nogroups

Pull Request - State: closed - Opened by prvst over 2 years ago

#316 - fixing ptm filtering

Pull Request - State: closed - Opened by prvst over 2 years ago

#315 - cannot decode packed binary. msgpack: invalid code=d3 decoding bytes length

Issue - State: closed - Opened by stsour over 2 years ago - 2 comments
Labels: help wanted

#314 - bugfix `sys.Restore`

Pull Request - State: closed - Opened by guoci over 2 years ago

#313 - bugfix data restore

Pull Request - State: closed - Opened by guoci over 2 years ago

#307 - reordering struct fields

Pull Request - State: closed - Opened by prvst over 2 years ago

#306 - fixed the removeAll error

Pull Request - State: closed - Opened by prvst over 2 years ago

#304 - pushing fix

Pull Request - State: closed - Opened by prvst over 2 years ago

#296 - Pipeline stops with error for Integrated Report step (Abacus).

Issue - State: closed - Opened by fstein over 2 years ago - 15 comments
Labels: bug

#295 - philosophers on Linux analysis for AP-MS data

Issue - State: closed - Opened by prvst over 2 years ago - 8 comments
Labels: bug

#289 - philosopher pipeline does not run through

Issue - State: closed - Opened by fstein over 2 years ago - 11 comments

#274 - cannot decode packed binary. msgpack: invalid code=d3 decoding bytes length

Issue - State: closed - Opened by apataskar almost 3 years ago - 4 comments
Labels: help wanted

#261 - ProteinProphet Error

Issue - State: open - Opened by uonnet almost 3 years ago - 14 comments
Labels: help wanted

#251 - Bug in mod reporting if multiple PSMs are tied for rank 1 for a spectrum

Issue - State: closed - Opened by mriffle almost 3 years ago - 2 comments
Labels: bug