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Sequencescape is a cloud based and highly extenable LIMS system for use in labs with large numbers of samples. * Work order tracking * Sample and study management * Capacity management for pipelines * Accounting * Accessioning for samples and studies at the EBI ENA/EGA * Dynamically defined workflows for labs with support for custom processes * Labware and freezer tracking * API support for 3rd party applications Current installation supports a million sampled and 1.3 million pieces of labware and is used in a organisation of 900 people. === Getting started === $ cp config/config.yml.example config/config.yml $ $EDITOR config/config.yml $ gem install bundler $ bundle install $ rake db:schema:load $ rake db:seed $ ./script/delayed_job start $ ./script/server # Login as admin/admin === Data model === +--------+ | Sample | +-------+ +--------+ _ | Study | | / +-------+ +-------+ +---------+ / +---------+ | Asset | --- | Request | -----| Project | +-------+ +---------+ +---------+ == Delayed job == For background processing Sequencescape uses delayed_job ensure that the server is running. === Supporting applications === There are a number of services that are needed in certain parts of Sequencescape these are listed bellow. == Barcode printing == Sequencescape expects a barcode printing SOAP service to run on the given URL. The WSDL of the service is defined in doc/barcode.wsdl. We will in the future work on extracting our barcoding Hitachi Printing Language generator. Which we use for barcode printing. == Plate barcode service == Due to DNA plate barcode series being stored in a legacy system in Sanger your required to use a webservice for supplying numbers for plates with a simple service. == Barcode rendering (danio) == To render barcodes you need the danio application. It will generate an image from a barcode. == Pico green == To analyse Pico green plats you need for the pico green application. == Data warehousing == There is a client application for building a data warehouse based on the information in Sequencescape. == NPG - Illumina tracking software == For tracking illumina instruments you need the NPG systems. NPG is linked to Sequencescape via a cluster formation batch which represents a flowcell. http://www.sanger.ac.uk/resources/software/npg/