Workflow Entry: DOI Files

Created at: 05/06/09 @ 13:51:57

Version 1 (of 1)

Version created on: 05/06/09 @ 13:51:58 by: Andrea Wiggins | Revision comments Expand

Title: DOI Files

Type: Taverna 1

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Description

This workflow generates additional files required for handling DOI creation: the DOI URL mapping required for the DOI deposit, and a set of sql update statements to insert the DOIs into an eprints database.

Note that it is extremely important for this workflow to use the same CSV file as was used with the DOI record generator, as well as the same seed number.

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Option 1:

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Note: you need to have both the WHIP Launcher and the Taverna myExperiment/WHIP plugin installed on your machine for this to work. See here for information.

Option 2:

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http://www.myexperiment.org/workflows/779/download?version=1
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Workflow Components

Inputs (1)

Name	Description
seed	Seed number for generating unique DOIs.

Processors (13)

Name	Type	Description
file_location	stringconstant	Location of the source CSV with data for creating records.
read_input	local	Shim to read in the file, location provided by a string constant.
split_rows	local	Takes a flat CSV input file and splits it into a list.
split_numbers_to_list	local	Takes a single string output and converts it to a list.
split_more	local	Takes the list input and creates a 2-deep list.
make_number_sequence	beanshell	Creates a sequential integer series for assignment to DOIs.
format_months	beanshell	Ensures two-digit month values.
aggregate_doi_urls	beanshell	Aggregates the individual URL mappings into a single file to send to the registry agency.
generate_doi	beanshell	Creates a unique DOI string following the format <DOI.base>/<source>.<year>-<month>.<sequential number>.
generate_doi_url_mapping	beanshell	Generates a pairlist of DOIs and associated URLs for the files.
split_fields	beanshell	Reads the 2-deep input list and splits out the values into separate variables.
make_sql_doi_updates	beanshell	Creates sql update statements for each new DOI.
aggregate_sql_updates	beanshell	Aggregates the individual sql update statements into a single file.

Beanshells (8)

Name	Description	Inputs	Outputs
make_number_sequence	Creates a sequential integer series for assignment to DOIs.	seed trigger	number_sequence
format_months	Ensures two-digit month values.	month	formatted_month
aggregate_doi_urls	Aggregates the individual URL mappings into a single file to send to the registry agency.	doi	import_file
generate_doi	Creates a unique DOI string following the format <DOI.base>/<source>.<year>-<month>.<sequential number>.	source year month seed	doi
generate_doi_url_mapping	Generates a pairlist of DOIs and associated URLs for the files.	doi url	doi_records
split_fields	Reads the 2-deep input list and splits out the values into separate variables.	file	eprintid year month url source
make_sql_doi_updates	Creates sql update statements for each new DOI.	doi eprintid	sql_insert
aggregate_sql_updates	Aggregates the individual sql update statements into a single file.	sql	update_statements

Outputs (2)

Name	Description
sqlUpdateStatements	Update statements to insert DOIs into an existing eprints database.
DOIURLs

Links (20)

Source	Sink
aggregate_doi_urls:import_file	DOIURLs
aggregate_sql_updates:update_statements	sqlUpdateStatements
file_location:value	read_input:fileurl
format_months:formatted_month	generate_doi:month
generate_doi:doi	make_sql_doi_updates:doi
generate_doi_url_mapping:doi_records	aggregate_doi_urls:doi
make_sql_doi_updates:sql_insert	aggregate_sql_updates:sql
read_input:filecontents	split_rows:string
seed	make_number_sequence:seed
generate_doi:doi	generate_doi_url_mapping:doi
make_number_sequence:number_sequence	split_numbers_to_list:string
split_fields:eprintid	make_number_sequence:trigger
split_fields:eprintid	make_sql_doi_updates:eprintid
split_fields:month	format_months:month
split_fields:source	generate_doi:source
split_fields:url	generate_doi_url_mapping:url
split_fields:year	generate_doi:year
split_more:split	split_fields:file
split_numbers_to_list:split	generate_doi:seed
split_rows:split	split_more:string