EBISPOT/zooma issues and pull requests

#131 - PreferredPrefix fix

Pull Request - State: closed - Opened by henrietteharmse 10 months ago

#130 - Bump spring-core from 4.1.2.RELEASE to 5.2.24.RELEASE

Pull Request - State: open - Opened by dependabot[bot] over 1 year ago
Labels: dependencies, java

#129 - update stable with plenty of changes from dev

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

#128 - Bump spring-expression from 4.1.2.RELEASE to 5.2.20.RELEASE

Pull Request - State: open - Opened by dependabot[bot] over 1 year ago
Labels: dependencies, java

#127 - Bump ua-parser-js from 0.7.22 to 0.7.34 in /zooma-ui/src/main/frontend

Pull Request - State: open - Opened by dependabot[bot] over 1 year ago
Labels: dependencies, javascript

#126 - Bump json5 from 1.0.1 to 1.0.2 in /zooma-ui/src/main/frontend

Pull Request - State: open - Opened by dependabot[bot] over 1 year ago
Labels: dependencies, javascript

#125 - Bump qs from 6.5.2 to 6.5.3 in /zooma-ui/src/main/frontend

Pull Request - State: open - Opened by dependabot[bot] over 1 year ago
Labels: dependencies, javascript

#124 - issue-120: add exclusions for libraries added in project

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

#123 - issue-120: accommodate library issues when building docker image

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

#122 - issue-120: update Dockerfile

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

#121 - issue-120: remove gitlab CI and add github workflow

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

#120 - Discontinue use of docker hub

Issue - State: closed - Opened by serjoshua over 1 year ago

#119 - Bump minimist from 1.2.5 to 1.2.8 in /zooma-ui/src/main/frontend

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 1 comment
Labels: dependencies, javascript

#118 - Licensing

Issue - State: closed - Opened by henrietteharmse over 1 year ago - 1 comment

#117 - Switch to OLS4 to get updated ontologies

Issue - State: open - Opened by jamesamcl almost 2 years ago

#116 - Bump ua-parser-js from 0.7.22 to 0.7.33 in /zooma-ui/src/main/frontend

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

#115 - Bump spring-webmvc from 4.1.2.RELEASE to 5.2.20.RELEASE

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

#114 - Bump spring-beans from 4.1.2.RELEASE to 5.2.20.RELEASE

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

#113 - Bump express from 4.17.1 to 4.18.2 in /zooma-ui/src/main/frontend

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

#112 - Bump spring-web from 4.1.2.RELEASE to 6.0.0

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

#111 - Bump qs and express in /zooma-ui/src/main/frontend

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

#110 - Bump decode-uri-component from 0.2.0 to 0.2.2 in /zooma-ui/src/main/frontend

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

#109 - Bump loader-utils and react-scripts in /zooma-ui/src/main/frontend

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

#108 - Bump jackson-databind from 2.7.3 to 2.12.7.1 in /ols-client

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

#107 - Bump jackson-databind from 2.3.3 to 2.12.7.1

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

#106 - Bump spring-web from 4.1.2.RELEASE to 4.2.7.RELEASE

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

#105 - Even if you select ontologies to search in, results are returned from different ones

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

#104 - Bump terser from 4.8.0 to 4.8.1 in /zooma-ui/src/main/frontend

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

#103 - Bump jackson-databind from 2.7.3 to 2.13.4.1 in /ols-client

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

#102 - Bump jackson-databind from 2.3.3 to 2.13.4.1

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

#101 - Bump jackson-databind from 2.3.3 to 2.12.6.1

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

#100 - Bump spring-expression from 4.1.2.RELEASE to 5.2.21.RELEASE

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

#99 - Unexpected host in olslinks href

Issue - State: closed - Opened by fabianegli over 2 years ago - 6 comments

#98 - Bump spring-security-core from 3.2.5.RELEASE to 5.5.7

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

#97 - Bump spring-core from 4.1.2.RELEASE to 5.2.22.RELEASE

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

#96 - Could uk.ac.ebi.fgpt:zooma-bootstrap:2.1.11-SNAPSHOT drop off redundant dependencies?

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

#95 - API call gives JSON error

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

#94 - Internal Server Errors from Zooma API

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

#93 - ojdbc6 jar in the docker image is a web page

Issue - State: open - Opened by jamesamcl over 2 years ago

#92 - Bump spring-core from 4.1.2.RELEASE to 5.3.19

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

#91 - Bump spring-webmvc from 4.1.2.RELEASE to 5.3.18

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

#90 - Bump spring-core from 4.1.2.RELEASE to 5.3.18

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

#89 - Bump spring-beans from 4.1.2.RELEASE to 5.3.18

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

#88 - Bump node-sass from 4.14.1 to 7.0.0 in /zooma-ui/src/main/frontend

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

#87 - Bump jackson-databind from 2.3.3 to 2.9.10.8

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

#86 - Incorrect mappings given with Good confidence when number is different

Issue - State: open - Opened by jamesamcl almost 3 years ago

#85 - Exact matches in ontology sources are only "Good" mapping confidence - should be high?

Issue - State: open - Opened by jamesamcl about 3 years ago - 6 comments

#84 - Bump tar from 4.4.6 to 4.4.19 in /zooma-js

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

#83 - Bump path-parse from 1.0.6 to 1.0.7 in /zooma-js

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

#82 - Bump tar from 4.4.6 to 4.4.15 in /zooma-js

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

#81 - Sending an API query to ZOOMA container returns Error 500 - Initialization of LuceneAnnotationSummarySearchService failed

Issue - State: open - Opened by uuo118 over 3 years ago

#80 - Deploying with Docker readme update suggestions

Issue - State: closed - Opened by uuo118 over 3 years ago - 1 comment

#79 - 2.x dev

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

#78 - Fix semantic tag issue

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

#77 - 2.x dev

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

#76 - Integration tests

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

#75 - Bump httpclient from 4.2.3 to 4.5.13 in /zooma-searcher-app

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

#74 - 2.x dev

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

#73 - Bump spring-security-web from 3.2.5.RELEASE to 5.2.10.RELEASE

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

#72 - Bump hosted-git-info from 2.7.1 to 2.8.9 in /zooma-js

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

#71 - First step towards minimal unit test. Fix for NullPointerException when SEMANTIC_TAG is not given

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

#70 - Update link to Zooma tracker on About page

Issue - State: open - Opened by daniwelter over 3 years ago - 1 comment

#69 - Zooma mappings summary + unmapped terms

Issue - State: open - Opened by daniwelter over 3 years ago - 6 comments

#68 - Allow data loading to continue after data source failed to load.

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

#67 - Providing certain background datasources in Zooma queries leads to 500s

Issue - State: closed - Opened by tudorgroza over 3 years ago - 1 comment

#66 - ClinVar Xrefs issue

Issue - State: closed - Opened by henrietteharmse over 3 years ago - 1 comment

#65 - Bump y18n from 3.2.1 to 3.2.2 in /zooma-js

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

#64 - Remove survey banner

Issue - State: closed - Opened by henrietteharmse over 3 years ago

#63 - Developer docs seems to have disappeared partially

Issue - State: closed - Opened by henrietteharmse over 3 years ago

#62 - Bump org.springframework.version from 4.1.2.RELEASE to 5.3.4

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

#61 - Merge new UI

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

#60 - "NA" matches "naive CD4+ T cell" in CL

Issue - State: open - Opened by cmungall over 3 years ago - 1 comment

#59 - ZOOMA should match against broad/narrow/related syns

Issue - State: open - Opened by cmungall over 3 years ago - 1 comment

#58 - Need to eliminate substring matches

Issue - State: open - Opened by cmungall over 3 years ago

#57 - Poor matches against SO, likely due to use of underscores

Issue - State: open - Opened by cmungall over 3 years ago - 3 comments
Labels: enhancement

#56 - Adding EBiSC as a ZOOMA curation source

Issue - State: open - Opened by henrietteharmse over 3 years ago

#55 - Add Survey Banner

Issue - State: closed - Opened by henrietteharmse almost 4 years ago

#54 - Bump jackson-databind from 2.3.3 to 2.9.10.7

Pull Request - State: closed - Opened by dependabot[bot] almost 4 years ago - 1 comment
Labels: dependencies, java

#53 - Bump ini from 1.3.5 to 1.3.7 in /zooma-js

Pull Request - State: closed - Opened by dependabot[bot] almost 4 years ago - 1 comment
Labels: dependencies, javascript

#52 - configure zooma to search in specific ontology

Issue - State: closed - Opened by FuqiX about 4 years ago - 7 comments

#51 - Bump junit from 4.10 to 4.13.1

Pull Request - State: closed - Opened by dependabot[bot] about 4 years ago - 1 comment
Labels: dependencies, java

#50 - NEVER merge, just comparison: IHCC Zooma customizations

Pull Request - State: closed - Opened by matentzn about 4 years ago - 5 comments

#49 - Zooma doesn't work in Firefox

Issue - State: open - Opened by paolaroncaglia about 4 years ago - 2 comments

#48 - Zooma 2 is incompatible with modern tomcat due to unescaped URL characters

Issue - State: open - Opened by matentzn about 4 years ago

#47 - Bump org.springframework.version from 4.1.2.RELEASE to 5.2.7.RELEASE

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies, java

#46 - Bump org.springframework.security.version from 3.2.5.RELEASE to 5.3.3.RELEASE

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies, java

#45 - Bump jackson-databind from 2.3.3 to 2.9.10.4

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies, java

#44 - Bump jquery from 3.3.1 to 3.5.0 in /zooma-js

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies, javascript

#43 - Zooma UI redirects user to OLS when the term does not exist in OLS

Issue - State: open - Opened by henrietteharmse over 4 years ago

#42 - Bump mixin-deep from 1.3.1 to 1.3.2 in /zooma-js

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies, javascript

#41 - Bump jquery from 3.3.1 to 3.4.1 in /zooma-js

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies, javascript

#40 - (java.util.regex.PatternSyntaxException: Unmatched closing ')' near index 9 micromolar) ^)

Issue - State: closed - Opened by henrietteharmse almost 5 years ago

#39 - Add BioSamples as datasource

Issue - State: closed - Opened by henrietteharmse almost 5 years ago - 1 comment

#38 - Bump jackson-databind from 2.3.3 to 2.9.10.1

Pull Request - State: closed - Opened by dependabot[bot] about 5 years ago - 1 comment
Labels: dependencies

#37 - Zooma seems to ignore the preferred datasource parameter

Issue - State: closed - Opened by henrietteharmse about 5 years ago - 1 comment

#36 - Zooma gives an error when the annotation that is searched for contains brackets.

Issue - State: open - Opened by henrietteharmse about 5 years ago - 3 comments

#35 - It should be possible to find terms that Zooma can mapped to.

Issue - State: open - Opened by henrietteharmse about 5 years ago

#34 - running zooma with local ontology

Issue - State: closed - Opened by mohamed-helmy about 5 years ago

#33 - API not handling values with encoded characters

Issue - State: open - Opened by simonjupp over 5 years ago

#22 - Zooma - Group zooma datasources and OLS ontologies based on EDAM topology

Issue - State: open - Opened by olgavrou about 7 years ago - 1 comment

GitHub / EBISPOT/zooma issues and pull requests