Medicines Discovery Catapult

aurac-web-plugin

Browser plugin that can find, highlight and link to interesting life science things in web pages and PDFs.

doclib-common

Common utilities and components used by the document library

image-model-runner

json-combiner

Utility to scan and parse files by format and convert them into json output that can be ingested by mongoimport, Currently supports parsing of json and xml formats

prefetch

A Scala based microservice that fetches and processes remote files. Part of the Document Library eco-system

py-mongo

Wrapper for pymongo to allow simple instantiation of MongoDB from configuration.

scala-queue

Use Scala & Pekko to send and receive typed messages with RabbitMQ

scala-utils

A handful of convenience utilities in Scala for things like hashing and concurrency

spreadsheet-to-text-converter

Part of the Document Library micro service ecosystem. Converts spreadsheets to text.

supervisor

Part of the Document Library micro service ecosystem. Co-ordinates all the consumer micro services.

mdcatapult/aurac-web-plugin

Browser plugin that can find, highlight and link to interesting life science things in web pages and PDFs.

mdcatapult/py-mongo

Wrapper for pymongo to allow simple instantiation of MongoDB from configuration.

mdcatapult/doclib-common

Common utilities and components used by the document library

mdcatapult/gitlab-ci-cd-versioning

Code versioning and other continuous integration helpers for Gitlab CI/CD pipelines

mdcatapult/openseadragon

MDC clone of openseadragon

mdcatapult/PDF-Converter

Webservice to convert PDFs to HTML

mdcatapult/prefetch

A Scala based microservice that fetches and processes remote files. Part of the Document Library eco-system

mdcatapult/py-postgres

Methods to simplify configuring and connecting to Postgresql databases

mdcatapult/py-queue

Module to abstract queues. Currently implements RabbitMQ.

mdcatapult/py-util

Utility methods to help work with lists & dicts

mdcatapult/scala-mongo

Scala wrapper for MongoDB

mdcatapult/scala-queue

Use Scala & Pekko to send and receive typed messages with RabbitMQ

mdcatapult/scala-utils

A handful of convenience utilities in Scala for things like hashing and concurrency

mdcatapult/spreadsheet-to-text-converter

Part of the Document Library micro service ecosystem. Converts spreadsheets to text.

mdcatapult/supervisor

Part of the Document Library micro service ecosystem. Co-ordinates all the consumer micro services.

mdcatapult/viawebgl

MDC clone of viawebgl

mdcatapult/ai-tool-experiments

Lots and lots of LLM agent and RAG demos using crew-ai, langchain & llama-index.

mdcatapult/bio-aurac

Coordinating repository allowing users to run the bio-aurac application.

mdcatapult/biobert

BioBERT: a pre-trained biomedical language representation model for biomedical text mining

mdcatapult/COSHH-API

Go API complementing the COSHH UI web app

mdcatapult/COSHH-UI

Angular web app for tracking the locations and expiry dates of laboratory chemicals

mdcatapult/document-to-text-converter

Part of the Document Library micro service ecosystem. Converts PDFs and other document types to raw text. Uses Apache Tika.

mdcatapult/entity-recognition

Web service to recognise entities in html using a redis based dictionary

mdcatapult/go-astilectron-bundler

Bundle your Astilectron app with ease

mdcatapult/image-converter

Web service for cropping .ome.tiff files and combining .tiff files into a single pyramid .ome.tiff file

mdcatapult/pdffigures2

Given a scholarly PDF, extract figures, tables, captions, and section titles.

mdcatapult/py-config

Python lib that allows environment variables to override hocon style yaml or json config

mdcatapult/regex-entity-resolver

Scala web service for identifying terms within text and resolving them to a value

mdcatapult/scala-source-reader

Utility methods to read text from input streams like zip files. Uses Apache Tika

mdcatapult/unarchiver

Part of the Document Library micro service ecosystem. Uncompresses files that have been archived using zip, tar, gzip, 7zip & more