Use Cases
October 5, 2016
RENCI
Chapel Hill, NC
Jason Coposky
@jason_coposky
Interim Executive Director, iRODS Consortium
The Wellcome Trust Sanger Institute
Sanger - replication
- Data preferentially placed on resource servers in the green data center (fallback to red)
- Data replicated to the other room.
- Checksums applied
- Green and red centers both used for read access.
Sanger - Metadata
attribute: library
attribute: total_reads
attribute: type
attribute: lane
attribute: is_paired_read
attribute: study_accession_number
attribute: library_id
attribute: sample_accession_number
attribute: sample_public_name
attribute: manual_qc
attribute: tag
attribute: sample_common_name
attribute: md5
attribute: tag_index
attribute: study_title
attribute: study_id
attribute: reference
attribute: sample
attribute: target
attribute: sample_id
attribute: id_run
attribute: study
attribute: alignment
- Example metadata attributes
- Users query and access data from local compute clusters
- Users access iRODS locally via the command line interface
Sanger - Federation
Sanger - baton
Baton Client
Thin layer over parts of the iRODS C API
- JSON support
- Connection friendly
- Comprehensive logging
- autoconf build on Linux and OSX
Current state
- Metadata listing
- Metadata queries
- Metadata addition
National Institute of Environmental Health Sciences
- Creating designer viruses:
- request > transfection and amplification > QC > sample delivery > reports
- Uses iRODS to combine, organize, and analyze sets of requests and instrument results
- Produces packaged results in response to researcher requests
- Quarterly cost reports for chargeback and trend analysis for quality control
NASA Atmospheric Science Data Center
University College London
- Repository for research data that spans social science to physics to genomics
- UK sponsored research requirements: last date of access request plus 10 years
- iRODS spans data storage technologies and enables federated access from other centres
RENCI - Use Cases
By iRODS Consortium
