Workflow constructed from history 'test dwc from PNDB Data package EML DwC annotations'
Version 1

Workflow Type: Galaxy

Work-in-progress

Workflow to take DataOne data packages (raw datasets + metadata written in Ecological Metadata Standard) as input and create a DwC occurence.csv file almost ready to put in a Dawrin core Archive using eml-annotations at the attribute level

SEEK ID: https://workflowhub.eu/workflows/117?version=1

Inputs

ID	Name	Description	Type
BDD_Kakila_v2_2021021_observateur.tsv	BDD_Kakila_v2_2021021_observateur.tsv	n/a	File
BDD_Kakila_v2_20210221_observation.tsv	BDD_Kakila_v2_20210221_observation.tsv	n/a	File
BDD_Kakila_v2_20210221_organisme.tsv	BDD_Kakila_v2_20210221_organisme.tsv	n/a	File
BDD_Kakila_v2_20210221_secteur_geog.tsv	BDD_Kakila_v2_20210221_secteur_geog.tsv	n/a	File
BDD_Kakila_v2_20210221_sortie.tsv	BDD_Kakila_v2_20210221_sortie.tsv	n/a	File
BDD_Kakila_v2_20210221_taxon.tsv	BDD_Kakila_v2_20210221_taxon.tsv	n/a	File
Kakila_database_of_marine_mammal_observation_data_in_the_AGOA_sanctuary_-_French_Antilles.xml	Kakila_database_of_marine_mammal_observation_data_in_the_AGOA_sanctuary_-_French_Antilles.xml	n/a	File

Steps

ID	Name	Description
7	Join	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2
8	Search in textfiles	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/1.1.1
9	Search in textfiles	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_grep_tool/1.1.1
10	Join	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2
11	Select	Grep1
12	Select	Grep1
13	Join	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2
14	Join	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2
15	Regex Replace	toolshed.g2.bx.psu.edu/repos/kellrott/regex_replace/regex_replace/1.0.0
16	Join	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2
17	Join	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2
18	Column Regex Find And Replace	toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.1
19	Join	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2
20	Join	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2
21	Column Regex Find And Replace	toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regexColumn1/1.0.1
22	Transpose	toolshed.g2.bx.psu.edu/repos/iuc/datamash_transpose/datamash_transpose/1.1.0
23	Filter Tabular	toolshed.g2.bx.psu.edu/repos/iuc/filter_tabular/filter_tabular/2.0.0
24	Join	toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_easyjoin_tool/1.1.2
25	Unique	toolshed.g2.bx.psu.edu/repos/bgruening/unique/bg_uniq/0.3
26	Transpose	toolshed.g2.bx.psu.edu/repos/iuc/datamash_transpose/datamash_transpose/1.1.0
27	Remove beginning	Remove beginning1

Outputs

ID	Name	Description	Type
_anonymous_output_1	_anonymous_output_1	n/a	File
_anonymous_output_2	_anonymous_output_2	n/a	File
_anonymous_output_3	_anonymous_output_3	n/a	File
_anonymous_output_4	_anonymous_output_4	n/a	File
_anonymous_output_5	_anonymous_output_5	n/a	File
_anonymous_output_6	_anonymous_output_6	n/a	File
_anonymous_output_7	_anonymous_output_7	n/a	File
_anonymous_output_8	_anonymous_output_8	n/a	File
_anonymous_output_9	_anonymous_output_9	n/a	File
_anonymous_output_10	_anonymous_output_10	n/a	File
_anonymous_output_11	_anonymous_output_11	n/a	File
_anonymous_output_12	_anonymous_output_12	n/a	File
_anonymous_output_13	_anonymous_output_13	n/a	File
_anonymous_output_14	_anonymous_output_14	n/a	File
_anonymous_output_15	_anonymous_output_15	n/a	File
_anonymous_output_16	_anonymous_output_16	n/a	File
_anonymous_output_17	_anonymous_output_17	n/a	File
_anonymous_output_18	_anonymous_output_18	n/a	File
_anonymous_output_19	_anonymous_output_19	n/a	File
_anonymous_output_20	_anonymous_output_20	n/a	File
_anonymous_output_21	_anonymous_output_21	n/a	File