@prefix this: <https://w3id.org/np/RAkOT-Cy6e_A7skPRH-wSgpUk2vSGMjou1Dw-O76MRRnE> .
@prefix sub: <https://w3id.org/np/RAkOT-Cy6e_A7skPRH-wSgpUk2vSGMjou1Dw-O76MRRnE/> .
@prefix np: <http://www.nanopub.org/nschema#> .
@prefix dct: <http://purl.org/dc/terms/> .
@prefix nt: <https://w3id.org/np/o/ntemplate/> .
@prefix npx: <http://purl.org/nanopub/x/> .
@prefix xsd: <http://www.w3.org/2001/XMLSchema#> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .
@prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
@prefix orcid: <https://orcid.org/> .
@prefix prov: <http://www.w3.org/ns/prov#> .

sub:Head {
  this: a np:Nanopublication;
    np:hasAssertion sub:assertion;
    np:hasProvenance sub:provenance;
    np:hasPublicationInfo sub:pubinfo .
}

sub:assertion {
  sub:get-kg-rejected-phenotypes a <https://w3id.org/kpxl/grlc/grlc-query>;
    dct:description "Lists mvikg/r/kg phenotype records whose approval status is 'rejected' (latest admin npx:approvesOf/disapprovesOf verdict from a current mvikg admin decides the status; no verdict means pending). One row per record: its label, who created it and when, and the rejection reason if given.";
    dct:license <https://creativecommons.org/licenses/by/4.0/>;
    rdfs:label "Get mvikg/r/kg rejected phenotypes";
    <https://w3id.org/kpxl/grlc/endpoint> <https://w3id.org/np/l/nanopub-query-1.1/repo/full>;
    <https://w3id.org/kpxl/grlc/sparql> """prefix npa: <http://purl.org/nanopub/admin/>
prefix gen: <https://w3id.org/kpxl/gen/terms/>
prefix npx: <http://purl.org/nanopub/x/>
prefix dct: <http://purl.org/dc/terms/>
prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#>
prefix foaf: <http://xmlns.com/foaf/0.1/>

select distinct ?Name ?ModifiedBy ?ModifiedBy_label ?Modified_noheader ?Reason ?np ?np_label where {
  {
    select distinct ?dnp ?label ?creator ?created where {
      {
        select ?stableThing ?dnp where {
          graph npa:graph {
            ?dnp npx:introduces ?stableThing ; dct:created ?ddateRaw ; npa:hasValidSignatureForPublicKey ?pubkey .
            filter not exists { ?inv npx:invalidates ?dnp ; npa:hasValidSignatureForPublicKey ?pubkey . }
          }
          filter not exists {
            graph npa:graph {
              ?dnp2 npx:introduces ?stableThing ; dct:created ?ddate2Raw ; npa:hasValidSignatureForPublicKey ?pubkey2 .
              filter not exists { ?inv2 npx:invalidates ?dnp2 ; npa:hasValidSignatureForPublicKey ?pubkey2 . }
            }
            filter(?ddate2Raw > ?ddateRaw)
          }
        }
      }
      bind(iri(concat(str(?dnp), '/assertion')) as ?da)
      graph ?da { ?stableThing a <https://w3id.org/biolink/vocab/PhenotypicFeature> ; dct:isPartOf <https://w3id.org/spaces/mvikg/r/kg> . }
      bind(iri(concat(str(?dnp), '/pubinfo')) as ?pi)
      graph ?pi { ?dnp dct:creator ?creator ; dct:created ?createdRaw . }
      bind(replace(str(?createdRaw), '[.]000Z$', 'Z') as ?created)
      optional { graph ?da { ?stableThing rdfs:label ?lblEntity } }
      optional { graph ?pi { ?dnp rdfs:label ?lblPub } }
      bind(coalesce(?lblEntity, ?lblPub, str(?stableThing)) as ?label)
    }
  }
  optional {
    graph ?vda { ?admin ?verdictPred ?dnp . filter(?verdictPred in (npx:approvesOf, npx:disapprovesOf)) }
    filter(exists {
      service <https://w3id.org/np/l/nanopub-query-1.1/repo/spaces> {
        graph npa:graph { <http://purl.org/nanopub/admin/thisRepo> npa:hasCurrentSpaceState ?g . }
        graph ?g { ?ri a gen:RoleInstantiation ; npa:forSpace <https://w3id.org/spaces/mvikg> ; npa:forAgent ?admin ; npa:hasRoleType gen:AdminRole . }
      }
    })
    bind(iri(replace(str(?vda), '/assertion$', '')) as ?vnp)
    graph ?vpi { ?vnp dct:created ?vcreatedRaw . }
    bind(xsd:dateTime(?vcreatedRaw) as ?vcreated)
    filter not exists {
      graph ?vda2 { ?admin2 ?verdictPred2 ?dnp . filter(?verdictPred2 in (npx:approvesOf, npx:disapprovesOf)) }
      filter(exists {
        service <https://w3id.org/np/l/nanopub-query-1.1/repo/spaces> {
          graph npa:graph { <http://purl.org/nanopub/admin/thisRepo> npa:hasCurrentSpaceState ?g2 . }
          graph ?g2 { ?ri2 a gen:RoleInstantiation ; npa:forSpace <https://w3id.org/spaces/mvikg> ; npa:forAgent ?admin2 ; npa:hasRoleType gen:AdminRole . }
        }
      })
      bind(iri(replace(str(?vda2), '/assertion$', '')) as ?vnp2)
      graph ?vpi2 { ?vnp2 dct:created ?vcreated2Raw . }
      filter(xsd:dateTime(?vcreated2Raw) > ?vcreated)
    }
    optional { graph ?vda { ?vda rdfs:comment ?reason } }
  }
  bind(if(bound(?verdictPred), if(?verdictPred = npx:approvesOf, 'approved', 'rejected'), 'pending') as ?finalStatus)
  filter(?finalStatus = 'rejected')
  bind(str(?dnp) as ?np) bind('^' as ?np_label)
  bind(?label as ?Name)
  optional { ?creator foaf:name ?cname }
  bind(?creator as ?ModifiedBy)
  bind(coalesce(?cname, replace(str(?creator), '^.*/', '')) as ?ModifiedBy_label)
  bind(?created as ?Modified_noheader)
  bind(?reason as ?Reason)
  }""" .
}

sub:provenance {
  sub:assertion prov:wasAttributedTo orcid:0009-0005-5515-1230 .
}

sub:pubinfo {
  this: dct:created "2026-11-09T18:10:32Z"^^xsd:dateTime;
    dct:creator orcid:0009-0005-5515-1230;
    dct:license <https://creativecommons.org/licenses/by/4.0/>;
    npx:embeds sub:get-kg-rejected-phenotypes;
    npx:supersedes <https://w3id.org/np/RAWGkZK3XkM9Z4TQBXoo56KEaZELlY2jdOr7Q0q1jNr00>,
      <https://w3id.org/np/RAcbPUEUBj5gM5cSr1r0jGX6-iNMuJ07VlKzVZOI-QPE0>, <https://w3id.org/np/RAouCCATCHMIVFIzDSGknf-g9ya22cMLqtZZFIPW7JYPg>;
    rdfs:label "Get mvikg/r/kg rejected phenotypes";
    skos:changeNote "ModifiedBy now carries the creator's ORCID IRI (with ModifiedBy_label as the display-name companion), so it renders as a link back to the creator instead of plain text.",
      "Replaced the supersedes-chain exclusion filter with the project's standard resolution pattern (npa:graph + npx:introduces + npa:hasValidSignatureForPublicKey, excluding npx:invalidates), matching how the real builder picks a resource's current defining nanopub. This requires the content nanopub to re-introduce the SAME stable entity IRI on every version (now fixed for the two phenotype records that had drifted to a fresh IRI per publish). Label now checks both the entity's own label and the nanopub-level label, preferring whichever is present (samples only have the latter, phenotypes only the former).";
    nt:wasCreatedFromProvenanceTemplate <https://w3id.org/np/RA7lSq6MuK_TIC6JMSHvLtee3lpLoZDOqLJCLXevnrPoU>;
    nt:wasCreatedFromPubinfoTemplate <https://w3id.org/np/RACJ58Gvyn91LqCKIO9zu1eijDQIeEff28iyDrJgjSJF8>,
      <https://w3id.org/np/RAukAcWHRDlkqxk7H2XNSegc1WnHI569INvNr-xdptDGI>;
    nt:wasCreatedFromTemplate <https://w3id.org/np/RAEFAt-QcFK0ZhqfvlsmS10BnzGJA0xwOICZXkO-ai87k> .
  
  sub:sig npx:hasAlgorithm "RSA";
    npx:hasPublicKey "MIIBIjANBgkqhkiG9w0BAQEFAAOCAQ8AMIIBCgKCAQEAjO3oH8Lq/l1oZIUY3FlCz5DnndybGvAhBdmEJ/yq7Nv3GZEYPrEro23rCBCp0GiriOXlVbk61pA/7JFE6tqzTresINW6QQMxE9sIhCBlX4cG66JFD8ud6bMvUyzCR8LQA6zfrSbafGE06rvglJd4MDUcTwvUKqtL9UCnOaowVfnZ3sPOe9EqlmJuO3iHGxBSXMPOPEJZUzMXsFDWFuMZTnrR8gY3r5nVF5a8L/MD135ZH8qW5yGXOB28CmVYCAbw2o07QEKzyzFKN+W1gfnprYZvuKzwGexnzcdzc1S8N/M5bzhWQ40EKCEqgUE8c81OzEMm1HUlUKEJ/o5I/FKKAwIDAQAB";
    npx:hasSignature "HWdgvb9eUIE00fN7EVQo5pWdmBsrRVoTj0MgH8M0JevZnCFhootnDJA5+FysCiVZEeUCGM0o3hih/JfpaXTUXuKAEFUSAqaTfbZNwnbrSvyYFl2BLEViF9uRC8gfUDLUs8pGi3pzmNAbnQgOiV2pTnmqtg57HTJnyQ+hOBkrKsjSETqk3AP4XxRgUTJVLURmrd1yOkdKN0WYE4bsTmwD5OPNmIfeOltKhteaMYZqQgMexOlvS4jPKnztUrDgF5179KIfmCqdsy9sL1VLp2stG5tgV1izF4NRS5puZojTnr+h+YeTr3s+6NkOoufIV8kf4SwG0F8pG0uNuqKAsZH19Q==";
    npx:hasSignatureTarget this:;
    npx:signedBy orcid:0009-0005-5515-1230 .
}