Bugs

Bugs

Parser interprets text as URL

Parser gets screwed on text content that looks remotely like URL This very simple query let $x := <id>zebi:col2</id> return $x gives syntax error

  line 1:18 mismatched input ':' expecting ENDELM
  line 1:29 no viable alternative at input 'return'

This simplified variant runs without a hitch. let $x := <id>zebi</id> return $x But it's a valid xquery (does not even include xsparql)

XSPARQL generates URIs even if part of it is blank

https://github.com/semantalytics/xsparql/issues/5

If a xsparql triple has a fragment including this URL

 `glei:{$f/clei:Originator/text()}` 

and the clei:Originator element is missing in a paricular XML instance, xsparql creates a URI containing only the prefix glei:.

Rewriter gets confused by attribute named "count", "group"

https://github.com/semantalytics/xsparql/issues/8 https://github.com/semantalytics/xsparql/issues/7

this function:

declare function local:rdf_groups ($url as xs:string, $study) {
  for $i in $study/clinical_results/baseline/group_list/group
  let $gr := fn:concat($url, "/group/", $i/@group_id/substring(.,2))
    # first char of @group_id is B=baseline, O=outcome, P=period, etc.
    # But the description is the same, so we identify them by the remaining numeric index
    construct {
      <{$url}> cto:group <{$gr}>.
      $gr a cto:Group;
        dc:title {$i/title/text()};
        dc:description {$i/description/text()}.      
    }
};

causes this error at the second line:

line 417:9 no viable alternative at input 'in'
line 417:56 no viable alternative at input 'group'
Parse error: java.lang.Exception: Errors for Parser. Translation aborted.
java.lang.Exception: Errors for Parser. Translation aborted.
        at net.sf.xsparql.rewriter.XSPARQLProcessor.process(XSPARQLProcessor.java:232)
        at net.sf.xsparql.Main.rewriteQuery(Main.java:197)
        at net.sf.xsparql.Main.main(Main.java:111)

Workaround: change it to this ugly longhand:

for $i in $study/clinical_results/baseline/group_list/*[name()="group"]

grammar doesn't support embedded XML

https://github.com/semantalytics/xsparql/issues/14

Consider this script:

declare option saxon:output "method=text";
let $xml := 
<LOUFile>
  <DownloadURL>ftp://ftp.gmeiutility.org/20161121T025453.zip</DownloadURL>
  <ContentDate>2016-11-21T02:54:53.885Z</ContentDate>
  <Originator>EVK05KS7XY1DEII3R011</Originator>
  <RecordCount>229212</RecordCount>
  <ManagingLOUCount managingLOU="EVK05KS7XY1DEII3R011">229212</ManagingLOUCount>
  <SchemaValid>true</SchemaValid>
</LOUFile>
return $xml/DownloadURL

If I run it through xquery (saxon "query") it returns ftp://ftp.gmeiutility.org/20161121T025453.zip as expected

If I run it through xsparql, I get this error:

line 4:18 mismatched input ':' expecting ENDELM
line 4:74 no viable alternative at input '\r\n  '
Parse error: java.lang.Exception: Errors for Parser. Translation aborted.
java.lang.Exception: Errors for Parser. Translation aborted.
        at net.sf.xsparql.rewriter.XSPARQLProcessor.process(XSPARQLProcessor.java:232)
        at net.sf.xsparql.Main.rewriteQuery(Main.java:197)
        at net.sf.xsparql.Main.main(Main.java:111)

Even if I remove the first two elements that include :, I still get this error:

line 5:15 extraneous input '229212' expecting ENDELM
line 6:55 extraneous input '229212' expecting ENDELM
line 7:15 extraneous input 'true' expecting ENDELM
Parse error: java.lang.Exception: Errors for Parser. Translation aborted.
java.lang.Exception: Errors for Parser. Translation aborted.
        at net.sf.xsparql.rewriter.XSPARQLProcessor.process(XSPARQLProcessor.java:232)
        at net.sf.xsparql.Main.rewriteQuery(Main.java:197)
        at net.sf.xsparql.Main.main(Main.java:111)

Rewriter doesn't allow union xpaths

https://github.com/semantalytics/xsparql/issues/10

This function causes an error

declare function local:rdf_outcome_small ($url as xs:string, $study) {
  if (not(fn:empty ($study/clinical_results/outcome_list))) then ()
  else for $i at $n in $study/(primary_outcome|secondary_outcome|other_outcome) ###
    let $outcome := fn:concat($url,"/outcome/",$n)
      construct {
        <{$url}> cto:outcome <{$outcome}>.
        <{$outcome}> a cto:Outcome;
          dc:type         {functx:capitalize-first(fn:substring-before($i/name(),"_outcome"))};
          dc:title        {$i/measure/text()};
          cto:timeFrame   {$i/time_frame/text()};
          cto:safetyIssue {func:boolean($i/safety_issue/text())};
          dc:description  {$i/description/text()}.
        }
};

This works ok:

($study/primary_outcome, $study/secondary_outcome, $study/other_outcome)