Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / monarch-initiative/owlsim-v3 issues and pull requests
#109 - Bump gson from 2.2.4 to 2.8.9 in /owlsim-core/bin
Pull Request -
State: open - Opened by dependabot[bot] over 2 years ago
Labels: dependencies
#108 - Bump gson from 2.2.4 to 2.8.9 in /owlsim-core
Pull Request -
State: open - Opened by dependabot[bot] over 2 years ago
Labels: dependencies
#107 - Bump jena-core from 2.11.2 to 4.2.0 in /owlsim-core/bin
Pull Request -
State: open - Opened by dependabot[bot] over 3 years ago
Labels: dependencies
#106 - Bump jena-core from 2.11.2 to 4.2.0 in /owlsim-core
Pull Request -
State: open - Opened by dependabot[bot] over 3 years ago
Labels: dependencies
#105 - Migrate to central logging
Issue -
State: open - Opened by seandavi over 3 years ago
#104 - If backend framework has a plugin for prometheus metrics, consider adding a prometheus metrics endpoint
Issue -
State: open - Opened by seandavi over 3 years ago
#103 - Add request-level logging for long-running queries
Issue -
State: open - Opened by seandavi over 3 years ago
#102 - Bump commons-io from 2.2 to 2.7 in /owlsim-core/bin
Pull Request -
State: open - Opened by dependabot[bot] almost 4 years ago
Labels: dependencies
#101 - Bump commons-io from 2.2 to 2.7 in /owlsim-core
Pull Request -
State: open - Opened by dependabot[bot] almost 4 years ago
Labels: dependencies
#100 - Bump ant from 1.8.2 to 1.10.9 in /owlsim-core
Pull Request -
State: open - Opened by dependabot[bot] about 4 years ago
Labels: dependencies
#99 - Bump ant from 1.8.2 to 1.10.9 in /owlsim-core/bin
Pull Request -
State: open - Opened by dependabot[bot] about 4 years ago
Labels: dependencies
#98 - Bump junit from 4.12 to 4.13.1
Pull Request -
State: open - Opened by dependabot[bot] over 4 years ago
Labels: dependencies
#97 - Bump ant from 1.8.2 to 1.9.15 in /owlsim-core/bin
Pull Request -
State: closed - Opened by dependabot[bot] over 4 years ago
- 1 comment
Labels: dependencies
#96 - Bump ant from 1.8.2 to 1.9.15 in /owlsim-core
Pull Request -
State: closed - Opened by dependabot[bot] over 4 years ago
- 1 comment
Labels: dependencies
#95 - Monarch OwlSim API is timing out.
Issue -
State: closed - Opened by monicacecilia almost 6 years ago
- 2 comments
#94 - Documentation of similarity measures (and REST services)
Issue -
State: open - Opened by matentzn almost 7 years ago
#93 - Building javadoc fails due to missing parameter descriptions
Issue -
State: open - Opened by matentzn almost 7 years ago
#92 - Phenotype sort
Issue -
State: open - Opened by jmcmurry about 7 years ago
- 1 comment
#91 - Use requests in golr exporter
Pull Request -
State: closed - Opened by kshefchek over 7 years ago
- 2 comments
#90 - Low phenodigm scores for disease matching
Issue -
State: open - Opened by kshefchek over 7 years ago
#89 - Explore many-to-many matches for profiles
Issue -
State: open - Opened by jmcmurry over 7 years ago
- 3 comments
#88 - Add option in services layer to include pairwise matches in all phenotypes
Issue -
State: open - Opened by cmungall over 7 years ago
#87 - Add prefix filter to service layer
Issue -
State: open - Opened by kshefchek almost 8 years ago
#86 - For Hs configuration, add option for diseases and genes
Issue -
State: closed - Opened by kshefchek almost 8 years ago
- 1 comment
Labels: enhancement
#85 - Factor in phenotype frequency
Issue -
State: closed - Opened by jmcmurry almost 8 years ago
- 1 comment
#84 - Docker image root ontology
Issue -
State: open - Opened by jnguyenx almost 8 years ago
Labels: enhancement
#83 - Command error in repository Readme
Issue -
State: closed - Opened by ManavalanG almost 8 years ago
- 1 comment
#82 - 58 docker biolink update
Pull Request -
State: closed - Opened by jnguyenx almost 8 years ago
Labels: enhancement
#81 - services: should be possible to match by individual IDs as well as class IDs
Issue -
State: open - Opened by cmungall almost 8 years ago
#80 - Consider p value calculation for IC based sim calculations
Issue -
State: open - Opened by kshefchek almost 8 years ago
- 2 comments
Labels: question
#79 - [#78] allow labels to be loaded as tsvs
Pull Request -
State: closed - Opened by jnguyenx almost 8 years ago
Labels: enhancement
#78 - Add a way to load label tsv along with data tsv
Issue -
State: closed - Opened by jnguyenx almost 8 years ago
Labels: enhancement
#77 - Implementing meta-information for annotations of objects
Issue -
State: closed - Opened by drseb almost 8 years ago
- 6 comments
Labels: enhancement, help wanted, question
#76 - Implemented prefix filter,
Pull Request -
State: closed - Opened by cmungall almost 8 years ago
#75 - Add additional filters for match service
Issue -
State: open - Opened by kshefchek almost 8 years ago
#74 - implemented a simple boolean matcher.
Pull Request -
State: open - Opened by cmungall almost 8 years ago
- 2 comments
#73 - [#72] added service for single entity
Pull Request -
State: closed - Opened by jnguyenx almost 8 years ago
- 3 comments
#72 - add ontomatch: 1 entity vs ontology
Issue -
State: closed - Opened by jnguyenx almost 8 years ago
- 1 comment
#71 - Adding ability to load individuals from in-memory data as well as off-disk.
Pull Request -
State: closed - Opened by julesjacobsen almost 8 years ago
- 7 comments
#70 - 57 loader refactor
Pull Request -
State: closed - Opened by julesjacobsen almost 8 years ago
- 1 comment
#69 - Add paging to ontomatch service
Issue -
State: open - Opened by cmungall almost 8 years ago
- 5 comments
#68 - WIP: Adding metadata required for release on mvncentral
Pull Request -
State: open - Opened by cmungall almost 8 years ago
#67 - [#58] Added Dockerfile
Pull Request -
State: closed - Opened by jnguyenx almost 8 years ago
- 1 comment
#66 - Unecessary auto-(un)boxing of intgers in BMKnowledgeBaseOWLAPIImpl
Issue -
State: closed - Opened by julesjacobsen almost 8 years ago
- 1 comment
#65 - Provide better documentation for how to use owlsim-v3 as a java library
Issue -
State: open - Opened by cmungall almost 8 years ago
- 1 comment
#64 - [#62] moved guice modules away from core
Pull Request -
State: closed - Opened by jnguyenx almost 8 years ago
#63 - Make specific routes for the different matchers
Issue -
State: open - Opened by cmungall almost 8 years ago
#62 - Leakage of owlsim-server guice configuration into owlsim-core
Issue -
State: closed - Opened by julesjacobsen almost 8 years ago
- 7 comments
#61 - ProfileMatcher should have a isNegationAware method
Issue -
State: open - Opened by julesjacobsen almost 8 years ago
#60 - WIP: first pass at frequency-awareness
Pull Request -
State: closed - Opened by cmungall almost 8 years ago
- 6 comments
#59 - Add capability to breakdown similarity results by symptom or high level terms
Issue -
State: open - Opened by cmungall almost 8 years ago
- 1 comment
#58 - Docker file / image for owlsim3 server
Issue -
State: closed - Opened by tudorgroza almost 8 years ago
- 2 comments
Labels: enhancement
#57 - Refactor or better document loaders
Issue -
State: open - Opened by cmungall almost 8 years ago
- 10 comments
#56 - Implement bayesian frequency awareness
Issue -
State: open - Opened by cmungall almost 8 years ago
- 5 comments
Labels: R24
#55 - Align with drseb code
Issue -
State: open - Opened by cmungall almost 8 years ago
#54 - Allow querying by individual id
Issue -
State: open - Opened by cmungall almost 8 years ago
#53 - Empty matches with simple configuration file
Issue -
State: open - Opened by jnguyenx almost 8 years ago
- 1 comment
Labels: bug
#52 - [#44] almost working generated json. Blocked by a swagger-core bug
Pull Request -
State: closed - Opened by jnguyenx about 8 years ago
- 3 comments
#51 - Parameter choice leading to '-Inf' in NaiveBayesFixedWeightThreeStateProfileMatcher
Issue -
State: open - Opened by drseb about 8 years ago
#50 - Unused code elements in NaiveBayesFixedWeightThreeStateProfileMatcher
Issue -
State: open - Opened by drseb about 8 years ago
- 2 comments
#49 - change method-name converIndexSetToBitmap to convertIndexSetToBitmap
Pull Request -
State: closed - Opened by drseb about 8 years ago
#48 - [#44] smartapi reported errors
Pull Request -
State: closed - Opened by jnguyenx about 8 years ago
#47 - swagger update
Pull Request -
State: closed - Opened by jnguyenx about 8 years ago
- 2 comments
Labels: bug, enhancement
#46 - Update swagger to fix encoding issue
Issue -
State: closed - Opened by jnguyenx about 8 years ago
#45 - Port annotation sufficiency from owlsim2
Issue -
State: closed - Opened by cmungall about 8 years ago
- 1 comment
#44 - Register with smart API
Issue -
State: open - Opened by cmungall about 8 years ago
- 1 comment
#43 - Add routes to service to introspect details of loaded ontologies
Issue -
State: open - Opened by cmungall about 8 years ago
- 1 comment
#42 - Adding enrichment service
Pull Request -
State: closed - Opened by cmungall about 8 years ago
#41 - matching between ontology classes (not instances)
Pull Request -
State: closed - Opened by cmungall about 8 years ago
#40 - Create route to show all best ontology class matches between pairs of ontology terms in two ontologies
Issue -
State: closed - Opened by cmungall about 8 years ago
#39 - Add service to return list of matchers plus their characteristics
Issue -
State: open - Opened by cmungall about 8 years ago
#38 - services: return more informative error messages
Issue -
State: open - Opened by cmungall about 8 years ago
#37 - 24 curie
Pull Request -
State: closed - Opened by jnguyenx about 8 years ago
#36 - [#33] configure Jackson to ignore empty beans
Pull Request -
State: closed - Opened by jnguyenx about 8 years ago
#35 - too much logging info
Issue -
State: open - Opened by cmungall about 8 years ago
#34 - services: change parameter names in match
Issue -
State: open - Opened by cmungall about 8 years ago
#33 - swagger is producing invalid json
Issue -
State: closed - Opened by cmungall about 8 years ago
- 1 comment
#32 - Add compare attribute sets to REST service layer
Issue -
State: closed - Opened by kshefchek about 8 years ago
- 2 comments
#31 - Write some examples/tests that demonstrate some general fuctionalities
Issue -
State: open - Opened by cmungall about 8 years ago
#30 - Phenopacket reading
Pull Request -
State: open - Opened by balhoff over 8 years ago
- 3 comments
#29 - Fixed error from import of missing class.
Pull Request -
State: closed - Opened by balhoff over 8 years ago
- 1 comment
#28 - Read phenopackets
Issue -
State: open - Opened by balhoff over 8 years ago
- 4 comments
#27 - Add OMIA species to OwlSim calculations
Issue -
State: open - Opened by jmcmurry over 8 years ago
Labels: enhancement
#26 - Error running Makefile
Issue -
State: open - Opened by balhoff over 8 years ago
- 3 comments
#25 - Test resource missing
Issue -
State: closed - Opened by balhoff over 8 years ago
#24 - Implement CURIE handling
Issue -
State: closed - Opened by cmungall almost 9 years ago
- 11 comments
#23 - Full test v3 vs v2 for both speed and accuracy
Issue -
State: open - Opened by cmungall almost 9 years ago
#22 - Bridge to owlsim2 service layer
Issue -
State: open - Opened by cmungall almost 9 years ago
#21 - RoaringBitmaps?
Issue -
State: open - Opened by julesjacobsen almost 9 years ago
- 1 comment
Labels: question
#20 - Reciprocal ranking of models
Issue -
State: open - Opened by jmcmurry about 9 years ago
- 1 comment
#19 - adding owlsim logos for light/dark backgrounds
Pull Request -
State: closed - Opened by jmcmurry about 9 years ago
#18 - testSelfComparisonKS in ICDistributionTest sometimes fails
Issue -
State: open - Opened by cmungall over 9 years ago
#17 - Adding labels to phenotype list
Issue -
State: open - Opened by yuanzhou over 9 years ago
#16 - Should MatcherModule move from services to core?
Issue -
State: closed - Opened by cmungall over 9 years ago
- 4 comments
Labels: question
#15 - ICDistributionTest.testSelfComparisonKS sometimes fails
Issue -
State: open - Opened by cmungall over 9 years ago
#14 - add license
Issue -
State: open - Opened by nlwashington almost 10 years ago
- 3 comments
#13 - Handling apparent contradicitions with negation data
Issue -
State: open - Opened by cmungall almost 10 years ago
- 11 comments
Labels: R24
#12 - Move repo to monarch org
Issue -
State: closed - Opened by cmungall almost 10 years ago
#11 - Command line options to get LCS, IC and similarity measures without annotations
Issue -
State: open - Opened by jkh1 almost 10 years ago
#10 - refactor Matchers with Comparator methods
Issue -
State: open - Opened by nlwashington about 10 years ago
- 5 comments
Labels: enhancement