DLA-Collections-test Version 1
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Run on usegalaxy.euAn example workflow for the Specimen Data Refinery tool, allowing an individual tool to be used
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| singles_or_list | singles_or_list | runtime parameter for tool Bundle Collection | n/a |
Steps
| ID | Name | Description |
|---|---|---|
| 0 | Input dataset | |
| 1 | Remove header | Remove beginning1 |
| 2 | Split file | toolshed.g2.bx.psu.edu/repos/bgruening/split_file_to_collection/split_file_to_collection/0.5.0 |
| 3 | Create specimen data object from csv | sdr_create_sdo_from_csv |
| 4 | Filter failed datasets | __FILTER_FAILED_DATASETS__ |
| 5 | JQ | toolshed.g2.bx.psu.edu/repos/iuc/jq/jq/1.0 |
| 6 | DLA - detect regions | sdr_teklia_worker_dla |
| 7 | Bundle Collection | toolshed.g2.bx.psu.edu/repos/nml/bundle_collections/bundle_collection/1.3.0 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| out_file1 | out_file1 | n/a | |
| list_output_txt | list_output_txt | n/a | |
| output | output | n/a | |
| output | output | n/a | |
| output | output | n/a | |
| output | output | n/a | |
| html_file | html_file | n/a |
Version History
Version 1 (earliest) Created 8th Jul 2022 at 14:04 by Oliver Woolland
Initial commit
Frozen
Version-1f7cd2a2
Creators and SubmitterViews: 110
Created: 8th Jul 2022 at 14:04
Last used: 11th Aug 2022 at 00:55
AttributionsNone
Related items
Teams: Specimen Data Refinery
Organizations: The Natural History Museum London
https://orcid.org/0000-0002-7341-1842
Teams: Specimen Data Refinery, Air Quality Prediction
Organizations: The University of Manchester
The Distributed System of Scientific Collections is a new world-class Research Infrastructure (RI) for Natural Science Collections. The DiSSCo RI aims to create a new business model for one European collection that digitally unifies all European natural science assets under common access, curation, policies and practices that ensure that all the data is easily Findable, Accessible, Interoperable and Reusable (FAIR principles).
DiSSCo represents the largest ever formal agreement between natural ...
Teams: Specimen Data Refinery
Web page: https://www.dissco.eu/
The SDR is concerned with digitisation pipelines for digital access to natural history collections
The SDR integrate machine learning, Artificial Intelligence, and human approaches to extract, enhance, and annotate data from digital images and records at scale. Many collections-holding institutions still need to digitise the bulk of their collections. Digitisation takes time and resources. One of the major challenges in digitising massive collections is finding ways of ensuring high-quality ...
Space: DISSCo - Distributed System of Scientific Collections
Public web page: https://www.synthesys.info/
Start date: 1st Feb 2019
End date: 31st Dec 2023
An example input file for the Specimen Data Refinery workflow
Creators: None
Submitter: Oliver Woolland
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