Workflow Type: Galaxy
Open
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
Inputs
ID | Name | Description | Type |
---|---|---|---|
BDD_Kakila_v2_2021021_observateur.tsv | BDD_Kakila_v2_2021021_observateur.tsv | n/a |
|
BDD_Kakila_v2_20210221_observation.tsv | BDD_Kakila_v2_20210221_observation.tsv | n/a |
|
BDD_Kakila_v2_20210221_organisme.tsv | BDD_Kakila_v2_20210221_organisme.tsv | n/a |
|
BDD_Kakila_v2_20210221_secteur_geog.tsv | BDD_Kakila_v2_20210221_secteur_geog.tsv | n/a |
|
BDD_Kakila_v2_20210221_sortie.tsv | BDD_Kakila_v2_20210221_sortie.tsv | n/a |
|
BDD_Kakila_v2_20210221_taxon.tsv | BDD_Kakila_v2_20210221_taxon.tsv | n/a |
|
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 |
|
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 |
|
_anonymous_output_2 | _anonymous_output_2 | n/a |
|
_anonymous_output_3 | _anonymous_output_3 | n/a |
|
_anonymous_output_4 | _anonymous_output_4 | n/a |
|
_anonymous_output_5 | _anonymous_output_5 | n/a |
|
_anonymous_output_6 | _anonymous_output_6 | n/a |
|
_anonymous_output_7 | _anonymous_output_7 | n/a |
|
_anonymous_output_8 | _anonymous_output_8 | n/a |
|
_anonymous_output_9 | _anonymous_output_9 | n/a |
|
_anonymous_output_10 | _anonymous_output_10 | n/a |
|
_anonymous_output_11 | _anonymous_output_11 | n/a |
|
_anonymous_output_12 | _anonymous_output_12 | n/a |
|
_anonymous_output_13 | _anonymous_output_13 | n/a |
|
_anonymous_output_14 | _anonymous_output_14 | n/a |
|
_anonymous_output_15 | _anonymous_output_15 | n/a |
|
_anonymous_output_16 | _anonymous_output_16 | n/a |
|
_anonymous_output_17 | _anonymous_output_17 | n/a |
|
_anonymous_output_18 | _anonymous_output_18 | n/a |
|
_anonymous_output_19 | _anonymous_output_19 | n/a |
|
_anonymous_output_20 | _anonymous_output_20 | n/a |
|
_anonymous_output_21 | _anonymous_output_21 | n/a |
|
Version History
Version 1 (earliest) Created 9th Apr 2021 at 16:45 by Yvan Le Bras
Added/updated 1 files
Open
master
7dbdd02
Creators and Submitter
Creator
Submitter
License
Activity
Views: 3654 Downloads: 277 Runs: 0
Created: 9th Apr 2021 at 16:45
Tags
Attributions
None