Workflow Type: Galaxy
Work-in-progress

An example workflow to allow users to run the Specimen Data Refinery tools on data provided in an input CSV file.

Inputs

ID Name Description Type
DLA Region - Training Model DLA Region - Training Model n/a n/a
DLA Text - Training Model DLA Text - Training Model n/a n/a

Steps

ID Name Description
0 DLA Region - Training Model
1 DLA Text - Training Model
2 Input dataset
3 Remove header Remove beginning1
4 Split file toolshed.g2.bx.psu.edu/repos/bgruening/split_file_to_collection/split_file_to_collection/0.5.0
5 Create specimen data object from csv sdr_create_sdo_from_csv
6 Filter failed datasets __FILTER_FAILED_DATASETS__
7 Extract file name toolshed.g2.bx.psu.edu/repos/iuc/jq/jq/1.0
8 DLA - detect regions sdr_teklia_worker_dla
9 DLA - detect text lines sdr_teklia_worker_dla
10 SDR Teklia worker-htr sdr_teklia_worker_htr
11 SDR Teklia worker-ner sdr_teklia_worker_ner
12 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
output output n/a
output output n/a
output output n/a
html_file html_file n/a

Version History

Version 2 (latest) Created 14th Dec 2022 at 16:05 by Oliver Woolland

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Version 1 (earliest) Created 8th Jul 2022 at 14:00 by Oliver Woolland

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Created: 8th Jul 2022 at 14:00

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