EML Congruency Checker

A tool to assess and report on the qualityof EML-based data packages

Software Stack

ECC

Data ManagerWeb-service

Data Manager Library (Java Library)

PostgreSQL

LTERNIS

(Quality Checks & Reports)

A Brief History

Data Manager Library (2006)Costa, Jones, Leinfelder, Servilla, and Tao

LTER All Scientist Meeting (2009)eml-dev, NCEAS Econinformatics group, LTER Developers, LTER Information managers

Data Manager Web-service (2011)Costa, Earl, Gastil, O’Brien, Ramsey, Servilla, and Stephenson

EML Congruency Checker (2011)Gastil and O’Brien

Error-free Metadata-data congruence

Complete Metadata

Error-free data

PASTA ready

?2014 PASTA

production system

2012 PASTA functional prototype

2011 First checks of congruence

<=2011 Any EML data package

Synthesis: QA/QC, Std Attributes, Units

Evaluation: Abstract, Methods

Discovery: Keywords, Coverage

First: StructuralSecond: Scientific

Checks must be defined case-by-case

IMC Annual Meeting 2011, EIMC

ECC v0.1

Error-free Metadata-

data congruence

Error-free data

ECCV0.1

google_doc_quality_checksgoogle_doc_quality_checks

Collected Quality Checks

IMC Annual Meeting 2011, EIMC

EML Congruency Checker

Version 0.1 Checks:

1.Data URL is valid

2.Display data from the URL

3.Database table can be generated

4.Data can be loaded into the database table

5.Compare number of rows loaded to number specified in metadata

ECC v0.1 – Current Capability

IMC Annual Meeting 2011, EIMC

Quality Check Field:   System    KNB: any package        LTER: apply only to LTER Type:    Data     Metadata    Congruence    Status:    Valid, Info, Warn, Error

<?xml version="1.0" encoding="UTF-8"?><qualityReport> <creationDate>2011-08-14T17:22:59</creationDate> <packageId>knb-lter-sbc.25.7</packageId> <entityReport> <entityName>Detritus_Biomass_All_Years.csv</entityName> <qualityCheck qualityType="congruency" system="knb" status="valid" > <name>Online URLs are live</name> <description>Check that online URLs return something</description> <expected>true</expected> <found>true</found> <explanation>Succeeded in accessing URL: <![CDATA[http://sbc.lternet.edu/external/Reef/Data/Long_Term_Experiment_Kelp_Removal/Detritus_Biomass_All_Years.csv]]></explanation> <suggestion></suggestion> <reference></reference> </qualityCheck> <qualityCheck qualityType="metadata" system="knb" status="valid" > <name>Create database table</name> <description>Status of creating a database table</description> <expected>A database table is expected to be generated from the EML attributes.</expected> <found>A database table was generated from the attributes description</found> <explanation>CREATE TABLE Detritus_Biomass_All_Years_csv(YEAR TIMESTAMP,MONTH TIMESTAMP,DATE TIMESTAMP,SITE TEXT,TRANSECT TEXT,TREATMENT TEXT,QUAD TEXT,SIDE TEXT,SP_CODE TEXT,WET_WT FLOAT,AREA INTEGER,NOTES TEXT,GENUS TEXT,SPECIES TEXT,SIZE TEXT,functional_GROUP TEXT,SURVEY TEXT,KINGDOM TEXT,PHYLUM TEXT,CLASS TEXT,taxon_ORDER TEXT,FAMILY TEXT,GENUS1 TEXT,SPECIES1 TEXT,COMMON_NAME TEXT,Substrate_type TEXT,Mobility TEXT,Growth_morph TEXT);</explanation> <suggestion></suggestion> <reference></reference> </qualityCheck> <qualityCheck qualityType="data" system="knb" status="info" > <name>Display some data</name> <description>Display the first row of data</description> <expected>One row of data should be displayed</expected> <found><![CDATA[2008, 1, 2008-01-30, AQUE, 4, CONTROL, 20, I, CC, 0.33, 20, -99999, Chondracanthus, spp., -99999, ALGAE, DETRITUS, Plantae, Rhodophyta, Rhodophyceae, Gigartinales, Gigartinaceae, Mazzaella, californica, -99999, HARD, SESSILE, SOLITARY]]></found> <explanation></explanation> <suggestion></suggestion> <reference></reference> </qualityCheck> <qualityCheck qualityType="data" system="knb" status="valid" > <name>Data load status</name> <description>Status of loading the data table into a database</description> <expected>No errors expected during data loading or data loading was not attempted for this data entity</expected> <found>The data table loaded successfully into a database</found> <explanation></explanation> <suggestion></suggestion> <reference></reference> </qualityCheck> <qualityCheck qualityType="congruency" system="knb" status="valid" > <name>Number of records check</name> <description>Compare number of records specified in metadata to number of records found in data</description> <expected>1962</expected> <found>1962</found> <explanation>The expected number of records (1962) was found in the data table.</explanation> <suggestion></suggestion> <reference></reference> </qualityCheck> </entityReport></qualityReport>

Future Direction

• Implement full suite of quality checks• Work form current list (Google spreadsheet)• Design/specify Metadata Quality Checks with

LTER Network Information System developers and Tiger Team

• Improve community customization• Separate quality check configuration from

processing logic where possible

• Engage community through collaborative effort

production oriented workshop:

Criteria for “pasta-ready”Involve Pilot sitesUse pasta calendarSynthesis data project calendar

PASTA = provenance automatic synthesis tracking system