callahantiff/PheKnowLator issues and pull requests

#141 - Bump tqdm from 4.47.0 to 4.66.3 in /builds

Pull Request - State: open - Opened by dependabot[bot] 7 months ago
Labels: dependencies

#140 - Disappearing edges when creating KG

Issue - State: closed - Opened by GuarinoValentina about 1 year ago - 6 comments
Labels: other

#139 - fixing none pred bug

Pull Request - State: closed - Opened by callahantiff about 1 year ago - 1 comment
Labels: bug

#138 - Migrate from Google Cloud Container Registry to Artifact Registry

Issue - State: open - Opened by callahantiff over 1 year ago
Labels: CI/CD - KG Builds, other, dependencies

#137 - GitHub Actions -- Docker build-push-action failing

Issue - State: open - Opened by callahantiff over 1 year ago - 3 comments
Labels: bug

#136 - Maintenance

Pull Request - State: closed - Opened by callahantiff over 1 year ago - 1 comment
Labels: bug, other

#135 - bug patch

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

#134 - Entity search tutorial

Pull Request - State: closed - Opened by callahantiff about 2 years ago - 1 comment
Labels: bug, enhancement, hacktoberfest-accepted

#133 - adding disclaimer regarding paused monthly builds

Pull Request - State: closed - Opened by callahantiff about 2 years ago - 1 comment
Labels: hacktoberfest-accepted

#130 - adding missing functions

Pull Request - State: closed - Opened by callahantiff about 2 years ago - 1 comment
Labels: bug, hacktoberfest-accepted

#127 - Simplify input files -- input yaml

Issue - State: open - Opened by callahantiff over 2 years ago - 5 comments
Labels: coding

#126 - Bump lxml from 4.6.5 to 4.9.1 in /builds

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

#125 - Bump numpy from 1.21.0 to 1.22.0 in /builds

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

#124 - Bump numpy from 1.18.1 to 1.21.0 in /builds

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

#123 - Bump lxml from 4.6.3 to 4.6.5 in /builds

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

#122 - DON'T MERGE -- ARCHIVE Build overhaul v4.0.0

Pull Request - State: open - Opened by callahantiff almost 3 years ago - 1 comment
Labels: enhancement, coding, release v4.0.0

#121 - removing sparql query dependency

Pull Request - State: closed - Opened by callahantiff about 3 years ago - 1 comment
Labels: bug

#120 - removed dependance on PRO Endpoint

Pull Request - State: closed - Opened by callahantiff about 3 years ago - 1 comment
Labels: bug, dependencies

#119 - Issue 118

Pull Request - State: closed - Opened by callahantiff about 3 years ago - 3 comments
Labels: bug

#118 - Foreign characters in node labels

Issue - State: closed - Opened by sanyabt about 3 years ago - 18 comments
Labels: bug

#117 - Resolving Issue 116

Pull Request - State: closed - Opened by callahantiff about 3 years ago - 3 comments
Labels: bug, hacktoberfest-accepted

#116 - Newline char in node description/definition causes dirty lines in node metadata files

Issue - State: closed - Opened by nomisto about 3 years ago - 5 comments
Labels: bug

#115 - requirements.txt

Issue - State: closed - Opened by Bancherd-DeLong about 3 years ago - 7 comments
Labels: help

#114 - Adding Edge Pattern and Relation Types

Issue - State: open - Opened by callahantiff about 3 years ago - 3 comments
Labels: help, other

#113 - New Resource Request: LINCS

Issue - State: open - Opened by callahantiff about 3 years ago
Labels: new resource

#112 - Extend issue template

Pull Request - State: closed - Opened by callahantiff about 3 years ago - 1 comment
Labels: other, hacktoberfest-accepted

#111 - Adding Better File Index to GCS Bucket

Pull Request - State: closed - Opened by callahantiff about 3 years ago - 1 comment
Labels: enhancement, hacktoberfest-accepted

#110 - 🔑 SSL Certification Workaround + 🧹 Minor Tidying

Pull Request - State: closed - Opened by callahantiff about 3 years ago - 2 comments
Labels: coding, CI/CD - KG Builds, hacktoberfest-accepted

#109 - 🦉 + 🥅 + 🐞 - OWL-NETS Assumption Bug

Pull Request - State: closed - Opened by callahantiff about 3 years ago - 1 comment
Labels: bug, enhancement

#108 - Script Notebook: OWLNETS_Example_Application.ipynb

Issue - State: closed - Opened by callahantiff over 3 years ago - 1 comment
Labels: coding

#107 - Incorporating Ensmallen -- 🔮 Magic ✨ 🎩

Issue - State: open - Opened by callahantiff over 3 years ago
Labels: other

#106 - 📜 Issue 91

Pull Request - State: closed - Opened by callahantiff over 3 years ago - 1 comment
Labels: CI/CD - KG Builds

#105 - 🪓 Splitting Monthly Build Script

Pull Request - State: closed - Opened by callahantiff over 3 years ago - 1 comment
Labels: CI/CD - KG Builds

#103 - Patching resource file

Pull Request - State: closed - Opened by callahantiff over 3 years ago - 1 comment
Labels: dependencies

#102 - July 2021 Build -- Delay

Issue - State: closed - Opened by callahantiff over 3 years ago
Labels: other, dependencies

#99 - Create Edge-Type Attribute File

Issue - State: open - Opened by callahantiff over 3 years ago - 15 comments
Labels: enhancement, other

#97 - Consider switching to https://identifiers.org/ URI or CURIEs

Issue - State: open - Opened by matthias-samwald over 3 years ago - 2 comments
Labels: other

#96 - 📊 Analysis sample

Pull Request - State: closed - Opened by callahantiff over 3 years ago - 1 comment
Labels: enhancement

#95 - log directory is not created when pkt_kg is imported

Issue - State: closed - Opened by bsantan over 3 years ago - 1 comment
Labels: bug

#94 - Bump lxml from 4.6.2 to 4.6.3 in /builds

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

#93 - ⛓️ Parallelizing pkt core

Pull Request - State: closed - Opened by callahantiff over 3 years ago - 1 comment
Labels: enhancement

#92 - Pheknowlator knowledge graph in OBO format

Issue - State: closed - Opened by ablack3 almost 4 years ago - 4 comments
Labels: wontfix, other

#91 - Enabling Google GCS Directory Listing

Issue - State: closed - Opened by callahantiff almost 4 years ago - 6 comments
Labels: enhancement, other

#90 - CI/CD Pipeline: Ensuring Builds Use Most Current Data

Issue - State: open - Opened by callahantiff almost 4 years ago - 3 comments
Labels: CI/CD - KG Builds

#89 - Issue 80

Pull Request - State: closed - Opened by callahantiff almost 4 years ago - 1 comment
Labels: other

#88 - Wiki: Create Endpoint Page

Issue - State: open - Opened by callahantiff almost 4 years ago
Labels: enhancement, project organization

#87 - Bump lxml from 4.5.2 to 4.6.2 in /builds

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

#86 - Create Build Dashboard

Issue - State: open - Opened by callahantiff almost 4 years ago
Labels: enhancement

#85 - Ci cd build

Pull Request - State: closed - Opened by callahantiff almost 4 years ago - 3 comments
Labels: ISMB challenge

#84 - Kg construction fixes

Pull Request - State: closed - Opened by callahantiff almost 4 years ago - 2 comments
Labels: knowledge graph, ISMB challenge

#83 - draft SPARQL endpoint

Pull Request - State: closed - Opened by bill-baumgartner almost 4 years ago - 2 comments
Labels: enhancement, knowledge graph, ISMB challenge

#81 - Scripting prebuild notebooks

Pull Request - State: closed - Opened by callahantiff almost 4 years ago - 1 comment
Labels: release v2.0.0, ISMB challenge

#80 - Create Notebook to Enable pkt use in Efforts like HuBMAP

Issue - State: closed - Opened by callahantiff almost 4 years ago - 1 comment
Labels: enhancement, release v2.0.0

#79 - ✅ - Need pkt Build Framework Overview Figure

Issue - State: closed - Opened by callahantiff almost 4 years ago - 21 comments
Labels: project organization

#78 - Fixes issue 64

Pull Request - State: closed - Opened by callahantiff almost 4 years ago - 1 comment
Labels: release v2.0.0, ISMB challenge

#77 - Handling MESH-CHEBI Mappings

Issue - State: closed - Opened by callahantiff almost 4 years ago - 2 comments
Labels: release v2.0.0, ISMB challenge

#76 - Fixes issue 66

Pull Request - State: closed - Opened by callahantiff almost 4 years ago - 1 comment
Labels: release v2.0.0, ISMB challenge

#75 - Add a Codacy badge to README.rst

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

#74 - Determine KG Baseline Format

Issue - State: closed - Opened by callahantiff almost 4 years ago - 1 comment
Labels: release v2.0.0, ISMB challenge

#73 - Convert Ontology Cleaning Jupyter Notebook into Script

Issue - State: closed - Opened by callahantiff almost 4 years ago
Labels: release v2.0.0, ISMB challenge

#72 - Convert Data Preprocessing Jupyter Notebook to Script

Issue - State: closed - Opened by callahantiff almost 4 years ago
Labels: release v2.0.0, ISMB challenge

#71 - Add Baseline KG Embeddings To CI/CD

Issue - State: closed - Opened by callahantiff almost 4 years ago - 1 comment
Labels: release v2.0.0, ISMB challenge

#70 - Configure Google Cloud Storage

Issue - State: closed - Opened by callahantiff almost 4 years ago - 3 comments
Labels: release v2.0.0, ISMB challenge

#69 - Set-up SPARQL Endpoint

Issue - State: closed - Opened by callahantiff almost 4 years ago - 8 comments
Labels: release v2.0.0, ISMB challenge

#68 - Setting Up and End-to-End CI/CD Framework

Issue - State: open - Opened by callahantiff almost 4 years ago - 2 comments
Labels: release v2.0.0, ISMB challenge

#67 - Preparing for ISMB Bio-Ontologies Task

Issue - State: closed - Opened by callahantiff almost 4 years ago - 2 comments
Labels: knowledge graph, other

#66 - Migrate from Travis CI to GitHub Actions

Issue - State: closed - Opened by callahantiff almost 4 years ago
Labels: release v2.0.0, ISMB challenge

#65 - Coding: Add Jupyter Notebook to Dockerfile

Issue - State: open - Opened by LeRicNet almost 4 years ago - 2 comments
Labels: coding, release v3.0.0

#64 - TODO: Update DOID nodes with MONDO Identifiers

Issue - State: closed - Opened by callahantiff almost 4 years ago
Labels: release v2.0.0, ISMB challenge

#63 - Ontology swap

Pull Request - State: closed - Opened by callahantiff almost 4 years ago
Labels: release v2.0.0

#62 - Enhancement: Improve Networkx MultiDiGraph Metadata

Issue - State: closed - Opened by callahantiff about 4 years ago - 4 comments
Labels: release v2.0.0, ISMB challenge

#61 - Other: Also use persistent RDFlib store for output graphs

Issue - State: open - Opened by zmaas about 4 years ago - 1 comment
Labels: other, release v3.0.0

#60 - Other: Add sparse KG representation output

Issue - State: closed - Opened by callahantiff about 4 years ago - 1 comment
Labels: release v2.0.0, ISMB challenge

#59 - Owl nets bug

Pull Request - State: closed - Opened by callahantiff about 4 years ago
Labels: bug, release v2.0.0, ISMB challenge

#58 - Add integer and identifiers to node metadata

Issue - State: closed - Opened by callahantiff about 4 years ago - 6 comments
Labels: release v2.0.0, ISMB challenge

#57 - Bug: Instance-based OWL-NETS build have anonymous nodes

Issue - State: closed - Opened by callahantiff about 4 years ago - 1 comment
Labels: bug

#56 - Coding: Improve storage of original triples when running OWL-NETS

Issue - State: closed - Opened by callahantiff about 4 years ago - 5 comments
Labels: release v3.0.0

#55 - Verify KG Output File Types

Issue - State: closed - Opened by callahantiff about 4 years ago - 1 comment
Labels: bug, release v2.0.0, ISMB challenge

#54 - TODO: Finalize KG Construction Survey

Issue - State: closed - Opened by callahantiff over 4 years ago - 11 comments
Labels: help

#53 - TODO: Move print statements to logging

Issue - State: closed - Opened by callahantiff over 4 years ago - 1 comment
Labels: enhancement, release v3.0.0

#52 - Wiki: Update v2.0.0 data source hyperlinks

Issue - State: closed - Opened by callahantiff over 4 years ago - 6 comments
Labels: release v2.0.0, ISMB challenge

#51 - Cannot Apply OWLAPI Formatting to Very Large KGs

Issue - State: closed - Opened by callahantiff over 4 years ago - 4 comments
Labels: bug

#50 - Handling Unicode Encoding Errors in Ontology Metadata

Issue - State: closed - Opened by callahantiff over 4 years ago - 3 comments
Labels: bug

#49 - TODO: Export/Create Link to GCP Instance Template

Issue - State: closed - Opened by callahantiff over 4 years ago - 2 comments
Labels: release v2.0.0, ISMB challenge

#48 - Develop

Pull Request - State: closed - Opened by callahantiff over 4 years ago - 1 comment
Labels: project organization, dependencies

#47 - Create Docker Container for Neo4J instance

Issue - State: closed - Opened by callahantiff over 4 years ago - 5 comments
Labels: release v2.0.0, ISMB challenge

#46 - Update Dockerfile

Issue - State: closed - Opened by callahantiff over 4 years ago - 1 comment
Labels: coding

#45 - Publish code to PyPI

Issue - State: closed - Opened by callahantiff over 4 years ago - 1 comment
Labels: release v2.0.0

#44 - Adding docker

Pull Request - State: closed - Opened by callahantiff over 4 years ago
Labels: enhancement

#43 - TODO: Publish Docker to Docker Hub

Issue - State: closed - Opened by callahantiff over 4 years ago - 5 comments
Labels: release v2.0.0, ISMB challenge

#42 - Adding docker

Pull Request - State: closed - Opened by callahantiff over 4 years ago
Labels: other, dependencies

#41 - Adding docker

Pull Request - State: closed - Opened by callahantiff over 4 years ago
Labels: coding, dependencies

#40 - Multi-Stage Docker Build -- Not Runnable Outside of Container

Issue - State: closed - Opened by callahantiff over 4 years ago - 1 comment
Labels: bug, coding, other

#39 - TODO - Project Organization: Neo4J Pricing

Issue - State: closed - Opened by callahantiff over 4 years ago - 2 comments
Labels: project organization, knowledge graph

#38 - TODO: Handle Redirects to PKT domain

Issue - State: closed - Opened by callahantiff over 4 years ago - 1 comment
Labels: enhancement, other

#37 - TODO: Create YouTube PKT Video

Issue - State: open - Opened by callahantiff over 4 years ago - 1 comment
Labels: release v2.0.0

#36 - HELP - Verifying README Content

Issue - State: closed - Opened by callahantiff over 4 years ago - 8 comments
Labels: project organization, help

#35 - CTD Data Source - CAPTCHA

Issue - State: closed - Opened by callahantiff over 4 years ago - 1 comment
Labels: other

#32 - Development

Pull Request - State: closed - Opened by callahantiff over 4 years ago - 1 comment
Labels: coding, knowledge graph

#30 - codacy and code climate test coverage st-up

Issue - State: closed - Opened by callahantiff over 4 years ago - 4 comments
Labels: help

GitHub / callahantiff/PheKnowLator issues and pull requests