Package: django-sodar-core
SODAR Core is a framework for Django web application development.It was conceived to facilitate the creation of scientific data management and
analysis web applications, but can be useful in other contexts as well.
In that it is similar to the CMS or ecommerce frameworks that you can findAwesome Django Listbut you will find the components/libraries provided in SODAR Core are more generic and in this reflecting the broader range of applications that we target.Examples / See It In ActionSODAR Core is a framework for developing Django web applications. The following
data management and analysis web applications are based on SODAR Core and have
been made available as open source:SODARis the system for Omics data access and retrieval. It is used to
model study metadata and manage associated data files in different Omics
research projects. SODAR Core was created by separating re-usable research
project management components from the SODAR project. The source code of SODAR
can be found ongithub.com/bihealth/sodar-server.VarFishis a web-based tool for the analysis of variants.
It showcases how to build a complex data warehousing and data analysis web
appliction using SODAR Core.
More details are described in theNAR Web Server Issue publication (doi:10.1093/nar/gkaa241).
The source code can be found ongithub.com/bihealth/varfish-server.
A demo is available atvarfish-demo.bihealth.org.Digestiflowis a web-based data system for the management and
demultiplexing of Illumina Flow Cells. It further implements various tools for
sanity checking Illumina sample sheets and quality control (e.g., comparing
barcode adapter sequence and actual sequence present in the sequencer output).
You can find out more in our publication inBioinformatics (doi:10.1093/bioinformatics/btz850).
The source code can be found ongithub.com/bihealth/digestiflow-server.Kioscis a web application that allows to build scheduler Docker
containers for “data science” apps and dashboards.
You can find the source code ongithub.com/bihealth/kiosc.QuickstartSODAR Core can only be used from within Django projects. The easiest way to
start out is following theFor the Impatientsection in our documentation.IntroductionThe SODAR Core repository containes reusable and non-domain-specific apps making
up the base of the SODAR system. These apps can be used for any Django
application which wants to make use of the following features:Project-based user access controlDynamic app content managementAdvanced project activity loggingSmall file uploading and browsingManaging server-side background jobsCaching and aggregation of data from external servicesTracking site information and statisticsAPI token managementThis repository provides the following installable Django apps:projectroles: Base app for project access management and
dynamic app content management. All other apps require the integration of
projectroles.adminalerts: Site app for displaying site-wide messages to all users.appalerts: Site app and backend for raising alerts to users from apps.bgjobs: Project app for managing background jobs.filesfolders: Storage and management of small files.siteinfo: Site app for displaying site information and statistics for
administrators.sodarcache: Generic caching and aggregation of data referring to external
services.timeline: Project app for logging and viewing project-related activity.tokens: Token management for API access.userprofile: Site app for viewing user profiles.Also included are resources and examples for developing SODAR compatible apps.InstallationThedjango-sodar-corepackage can be installed into your Django project
from PyPI as follows. Note that it is strongly recommended to freeze the
dependency to a specific version, as this package is under active development
and breaking changes are possible.pip install django-sodar-core==0.13.4For installing a development version you can point your dependency to a specific
commit ID in GitHub. Note that these versions may not be stable.pip install -e git+https://github.com/bihealth/sodar-core.git@xxxxxxxxxxxxx#egg=django-sodar-corePlease note that This package installs a collection of Django apps to be used in
a Django web site project. SeeSODAR Core documentationfor detailed documentation on use, integration and development.RepositoryThe branches of the SODAR Core repository are organized as follows:mainThe latest stable release.devThe current development branch. Most recent features go here, but stability
is not guaranteed. Pull requests should always be based on this branch.When including SODAR Core in your Django project, it is highly recommended to
freeze your dependency to a specific release tag or commit ID. The project is
under development and breaking changes may be introduced frequently.