HAMR: Human/Authority Metadata Reconciliation

HAMR: Human/Authority Metadata Reconciliation

Sean Chen, Tim Donohue, Joshua Gomez, Ranti Junus, Ryan Scherle

A tool for a curator to determine whether the various fields of a metadata record are correct. Takes a metadata record, locates any identifiers (e.g., DOI, PMID). Retrieves a copy of the metadata record from an authoritative source (e.g., CrossRef, PubMed). Displays a human-readable page that compares fields in the initial record with fields in the authoritative record. Each field is color-coded based on how well it matches, so the curator can quickly identify discrepancies.

Narrowing the focus for today:

• Dublin core (maybe qualified)
• framework that allows multiple authority sources
• NOT focusing on author names (ORCID is already working on this), except the fact that they are strings, and we'll do basic string matching
• 1 to 1 matching. Even if you want to eventually match with multiple authorities, you'd only do one at a time

Possible authority sources:

• PubMed
  • Sample pubmed query (in Java): DSpace PubMedPrefillStep.java (From Populate Metadata from PubMed)
    • See 'retrievePubmedXML()' in above java code for actual call to PubMed
    • Mapping happens here: See pmid-to-dim.xsl for a sample XSLT crosswalk to translate PubMed format to a qualified dublin core (internal DSpace metadata format)
  • More examples of querying PubMed: http://www.my-whiteboard.com/how-to-automate-pubmed-search-using-perl-php-or-java/
• CrossRef
  • simply send the DOI to crossref, and get JSON/XML back
    • http://api.labs.crossref.org/10.1111/j.1558-5646.2009.00626.x.json
    • http://api.labs.crossref.org/10.2307/1935157.xml
    • java code that includes a lookup
  • Metadata Search -- send a text query, receive a list of matching records
  • OpenURL search
• google scholar - does it have an API?
• mendeley - Mendeley API
• vivo
• bibapp

Thoughts / Questions:

• Is there a way to do most/all of this via Javascript/AJAX/JQuery? Could it be a simple Javascript framework you could "drop" into any metadata editing interface?
  • Unfortunately, it seems this wouldn't work out. In order to perform querying of external authorities, they'd all need to support JSONP or similar (and they don't)

Code

• quick reference for Git
• Ryan's really stupid scratch implementation

Output Spec

• We will use a simple XML output consisting of paired (and possibly unpaired) values.
• The root element will contain an attribute signifying the source of the authority metadata.
• The <match> element will be used to pair values, with a strength attribute to signify the string distance.
• Within each match element will be exactly 2 metadata elements with attributes signifying the source of each value: either the local input or the remote authority data.
• An <nonmatch> element will be used for unpaired values.

Sample Output

<hamr authority="PubMed">
    <match strength="100%">
        <creator src="input">Trojan, Tommy</creator>
        <creator src="authority">Trojan, Tommy</creator>
    </match>
    <match strength="90%">
        <title src="input">Great American Article</title>
        <title src="authority">Great American Article, The</title>
    </match>
    <nonmatch>
        <subject src="input">Medical Stuff</subject>
    </nonmatch>
    <nonmatch>
        <type src="authority">text</type>
    </nonmatch>
</hamr>

Need to do

1. Implement metadata retrieval from authority (done for crossref in ryan's code)
2. Design structure of plugins
   1. crosswalk from authority format to simple dc
3. Design matching algorithm