Ecosyste.ms: Issues

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

GitHub / lmb-embrapa/machado issues and pull requests

#367 - update docs

Pull Request - State: closed - Opened by azneto 2 months ago

#366 - Updates dependencies and Github Actions

Pull Request - State: closed - Opened by azneto 2 months ago

#365 - Dependabot alerts #14

Pull Request - State: closed - Opened by azneto 4 months ago

#364 - Dependabot security alert

Pull Request - State: closed - Opened by azneto 6 months ago

#363 - replace contained with located in the python script

Pull Request - State: closed - Opened by mthang about 1 year ago

#362 - load_fasta failed

Issue - State: closed - Opened by mthang about 1 year ago - 22 comments

#361 - load_rnaseq_data.py

Pull Request - State: closed - Opened by mmudado over 1 year ago

#360 - improves error messages

Pull Request - State: closed - Opened by azneto over 1 year ago

#359 - implements the functions check_ids and retrieve_cvterm

Pull Request - State: closed - Opened by azneto over 1 year ago

#358 - minor improvements

Pull Request - State: closed - Opened by azneto over 1 year ago

#356 - jbrowser path and reference files

Issue - State: closed - Opened by Aciole-David over 1 year ago - 11 comments

#355 - Configuração pagina inicial

Issue - State: closed - Opened by gledisonteixeira over 1 year ago - 12 comments

#354 - minor fix to run on postgresql 14 and above

Pull Request - State: closed - Opened by azneto over 1 year ago

#353 - Set tests to run using github actions and updates docs

Pull Request - State: closed - Opened by azneto almost 2 years ago

#351 - New tests for data loading commands

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

#350 - Error step 20/36

Issue - State: closed - Opened by gledisonteixeira about 2 years ago - 3 comments

#349 - adds new sample files for the commands load_similarity_matches and load_similarity

Pull Request - State: closed - Opened by azneto over 2 years ago - 1 comment

#348 - adds new sample files for the commands load_publication, load_feature…

Pull Request - State: closed - Opened by azneto over 2 years ago - 1 comment

#347 - Support identical feature names in different organisms

Pull Request - State: closed - Opened by njbooher over 2 years ago - 9 comments

#346 - Speed up JBrowse RefSeqs endpoint

Pull Request - State: closed - Opened by njbooher over 2 years ago - 3 comments

#345 - RefSeqs JBrowse route is unusably slow with a large number of sequences

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

#343 - new tests for travis CI

Pull Request - State: closed - Opened by azneto over 2 years ago - 1 comment

#342 - Update to django 3.2.14

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

#341 - updates docs to use elasticsearch 7

Pull Request - State: closed - Opened by azneto over 2 years ago - 1 comment

#340 - updates django and includes django-haystack to the dependencies

Pull Request - State: closed - Opened by azneto over 2 years ago - 1 comment

#339 - Bump django from 3.2.12 to 3.2.13

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 1 comment
Labels: dependencies

#338 - minor changes to improve sonarcloud score

Pull Request - State: closed - Opened by azneto over 2 years ago - 1 comment

#337 - minor changes to improve sonarcloud score

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

#336 - Allows to add DOI to feature_properties and make DOI searcheable by elasticsearch

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

#335 - Registering all models in admin.py

Issue - State: closed - Opened by swrosati over 2 years ago - 7 comments

#334 - Bump django from 3.2.10 to 3.2.12

Pull Request - State: closed - Opened by dependabot[bot] almost 3 years ago - 2 comments
Labels: dependencies

#333 - Issue while loading data into the database

Issue - State: closed - Opened by guff95 almost 3 years ago - 13 comments

#331 - upgrade django-haystack to run elasticsearch 7

Issue - State: closed - Opened by azneto about 3 years ago - 1 comment
Labels: enhancement, help wanted

#330 - set which overlapping features will be indexed in the settings.py

Issue - State: open - Opened by azneto about 3 years ago
Labels: enhancement, help wanted

#329 - Upgrade django to 3.2

Pull Request - State: closed - Opened by njbooher about 3 years ago - 1 comment

#328 - Jbrowse Can't load ref Seq

Issue - State: closed - Opened by wjwei-handsome about 3 years ago - 13 comments

#327 - Handle weird xrefs during loading

Pull Request - State: closed - Opened by njbooher over 3 years ago - 1 comment

#326 - Erro ao baixar Jbrowse Machado-docker

Issue - State: closed - Opened by gledisonteixeira over 3 years ago - 7 comments

#325 - Jbrowse use featureloc

Pull Request - State: closed - Opened by njbooher over 3 years ago - 10 comments

#324 - minor fixes to display empty rather than None

Pull Request - State: closed - Opened by azneto over 3 years ago - 1 comment

#323 - Infraspecific name

Pull Request - State: closed - Opened by njbooher over 3 years ago - 1 comment

#321 - Dependency version pinning

Issue - State: closed - Opened by njbooher over 3 years ago - 2 comments

#320 - Call init properly

Pull Request - State: closed - Opened by njbooher over 3 years ago - 2 comments

#319 - updates to handle CNV

Pull Request - State: closed - Opened by azneto over 3 years ago - 1 comment

#318 - Indexing improvement

Pull Request - State: closed - Opened by njbooher over 3 years ago - 2 comments

#316 - updates searches to Raw

Pull Request - State: closed - Opened by azneto over 3 years ago

#315 - updates index to ignore case and the prefix of dbxrefs

Pull Request - State: closed - Opened by azneto over 3 years ago

#314 - adds dbxrefs to the elasticsearch index

Pull Request - State: closed - Opened by azneto over 3 years ago

#313 - updates retrieve_feature_id to ignore case

Pull Request - State: closed - Opened by azneto over 3 years ago - 1 comment

#312 - Bump django from 3.1.8 to 3.1.9

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 1 comment
Labels: dependencies

#311 - modify search to run partial searches rather than starts_with searches

Pull Request - State: closed - Opened by azneto over 3 years ago - 1 comment

#310 - fix obj.name == None

Pull Request - State: closed - Opened by azneto over 3 years ago - 1 comment

#309 - handles the DOI attribute

Pull Request - State: closed - Opened by azneto over 3 years ago - 1 comment

#308 - exclude feature annotation of overlapping features of the same type

Pull Request - State: closed - Opened by azneto over 3 years ago

#307 - creates a class feature_attribute and configures it to handle QTLDB.gff files.

Pull Request - State: closed - Opened by azneto over 3 years ago - 1 comment

#306 - assay.py implemented get_or_create for assay_prop

Pull Request - State: closed - Opened by mmudado over 3 years ago - 1 comment

#305 - search_indexes: performance tweak and error handling

Pull Request - State: closed - Opened by azneto over 3 years ago

#304 - feature.js publication corrections

Pull Request - State: closed - Opened by mmudado over 3 years ago

#303 - Error when trying to import GFF files

Issue - State: closed - Opened by gledisonteixeira over 3 years ago - 7 comments

#302 - Bump django from 3.1.7 to 3.1.8

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago
Labels: dependencies

#301 - Changing the template

Issue - State: closed - Opened by aussieEd over 3 years ago - 4 comments

#300 - Gene ontology

Issue - State: closed - Opened by aussieEd over 3 years ago - 2 comments

#298 - defines the valid_types in the settings file and

Pull Request - State: closed - Opened by azneto over 3 years ago

#297 - includes a single fixed submit button in replacement for several appl…

Pull Request - State: closed - Opened by azneto over 3 years ago

#296 - includes a single fixed submit button in replacement for several appl…

Pull Request - State: closed - Opened by azneto over 3 years ago - 1 comment

#295 - upgrades to django 3.1.7 and updates the docs

Pull Request - State: closed - Opened by azneto almost 4 years ago

#294 - Dúvida - Transcriptomas

Issue - State: closed - Opened by fabianomenegidio about 4 years ago - 2 comments
Labels: question

#293 - species name in italics

Pull Request - State: closed - Opened by azneto about 4 years ago

#292 - Organism names in "Data summary" should be in italic

Issue - State: closed - Opened by mmudado about 4 years ago - 1 comment

#291 - fixes drf-yasg securityDefinition

Pull Request - State: closed - Opened by azneto about 4 years ago

#290 - retrieves API examples from the settings.py file

Pull Request - State: closed - Opened by azneto about 4 years ago

#289 - API endpoint to retrieve feature general information and location

Pull Request - State: closed - Opened by azneto about 4 years ago

#288 - New API endpoints for expression and coexpression data

Pull Request - State: closed - Opened by azneto about 4 years ago

#287 - New API

Issue - State: closed - Opened by marcosjviana about 4 years ago - 2 comments

#286 - Create new APIs and update the feature template page

Issue - State: closed - Opened by azneto over 4 years ago

#283 - feature.html unnecessary html line erased

Pull Request - State: closed - Opened by mmudado over 4 years ago

#282 - Create API to retrieve all information from feature page for a given feature_id

Issue - State: closed - Opened by mmudado over 4 years ago - 3 comments

#281 - Species scientific names should be displayed in italic

Issue - State: closed - Opened by mmudado over 4 years ago - 1 comment

#280 - creates an API to search for feature ID by accession

Pull Request - State: closed - Opened by azneto over 4 years ago

#279 - updates documentation to include the MACHADO_URL variable

Pull Request - State: closed - Opened by azneto over 4 years ago

#278 - retrieves the base url from settings.MACHADO_URL

Pull Request - State: closed - Opened by azneto over 4 years ago

#277 - fixes incorrect serializer

Pull Request - State: closed - Opened by azneto over 4 years ago

#276 - Complete refactoring of the rest framework to use swagger

Pull Request - State: closed - Opened by azneto over 4 years ago

#275 - adds orthologous and coexpression groups facet filters and hide facet…

Pull Request - State: closed - Opened by azneto over 4 years ago

#273 - hide facet filter if number of matches is 0

Issue - State: closed - Opened by azneto over 4 years ago

#272 - added http links to NCBI proteins in BLAST HITS

Pull Request - State: closed - Opened by mmudado over 4 years ago

#271 - update the export TSV/FASTA links

Pull Request - State: closed - Opened by azneto over 4 years ago

#270 - export search results for PUFs to .tsv file (Protocol D)

Issue - State: closed - Opened by marcosjviana over 4 years ago - 2 comments

#269 - Fixes: postgres error log

Pull Request - State: closed - Opened by azneto over 4 years ago

#268 - fixes the dbxrefs decorator

Pull Request - State: closed - Opened by azneto over 4 years ago