Get article titles from Europe PMC for single author

Created: 2015-09-07 11:40:48 Last updated: 2015-09-10 12:22:52

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This small workflow demonstrates how to connect to the new (August 2015) version of Europe PMC (http://europepmc.org/RestfulWebService). Changes from previous versions include the addition of a pageSize parameter, allowing the client to request up to 1,000 records at once. If this would still not be sufficient, the offSet paremeter can be used to retrieve data in chunks of 1,000 records and the Flatten List service used to concatenate the results.

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Workflow Components

Authors (1)

Titles (1)

Descriptions (1)

Dependencies (0)

Inputs (1)

Name	Description
author_name	The name of an author

Processors (8)

Name	Type	Description
searchPublications	wsdl	Wsdl http://www.ebi.ac.uk/europepmc/webservices/soap?wsdl Wsdl Operation searchPublications
searchPublications_output	xmlsplitter
extract_titles	xpath	Xpath Expression /return/resultList/result/title
build_query	beanshell	Script queryString = "auth:\"" + author_name + "\" sort_date:y";
resultType	stringconstant	Value lite
searchPublications_input	xmlsplitter
pageSize	stringconstant	Value 1000
offSet	stringconstant	Value 0

Beanshells (1)

Name	Description	Inputs	Outputs
build_query		author_name	queryString

Outputs (1)

Name	Description
titles

Datalinks (9)

Source	Sink
searchPublications_input:output	searchPublications:parameters
searchPublications:parameters	searchPublications_output:input
searchPublications_output:return	extract_titles:xml_text
author_name	build_query:author_name
offSet:value	searchPublications_input:offSet
build_query:queryString	searchPublications_input:queryString
resultType:value	searchPublications_input:resultType
pageSize:value	searchPublications_input:pageSize
extract_titles:nodelist	titles

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Information Workflow Type

Taverna 2

Information Uploader

Magnus Palmblad

Information License

All versions of this Workflow are licensed under:

Information Version 2 (latest) (of 2)

Information Credits (1)

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Magnus Palmblad

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Information Tags (3)

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Information Shared with Groups (1)

Bibliometrics and Scientometrics

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Information Statistics

1385 viewings

813 downloads

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Citations (0)

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Get article titles from Europe PMC for single author

Created by Magnus Palmblad on Monday 07 September 2015 11:40:46 (UTC)
Get article titles from Europe PMC for single author

Created by Magnus Palmblad on Thursday 10 September 2015 12:22:52 (UTC)

Revision comment:

In this minor update, the pageSize assignment is removed from the query string, as it is supplied as a separate parameter to the Web service.

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This small workflow demonstrates how to connect to and use Europe PMC (http://europepmc.org/RestfulWebService) to count the number of publications and citations per year for one author. Two Web service calls are made. First, we searchPublications to retrieve the bibliographic records for all published work of a single author. Then, we getCitations to extract the year of all articles citing the work of this author. A conditional XPath is here used to only look up citing articles for cited work...

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Get article titles from Europe PMC for single author

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Workflow Components

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Xpath Expression

Script

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Other workflows that use similar services (15)