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add HFRI solve sql syntax error #1421

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add HFRI solve sql syntax error #1421

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33 changes: 31 additions & 2 deletions ...dnetlib/iis/wf/referenceextraction/project/main_sqlite/oozie_app/lib/scripts/projects.sql
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Original file line number Diff line number Diff line change
Expand Up @@ -12,6 +12,7 @@ hidden var 'nihposshort' from select jmergeregexp(jgroup(word)) from (select * f
hidden var 'nihposfull' from select jmergeregexp(jgroup(word)) from (select * from nihposnamesfull order by length(word) desc);
hidden var 'nihpositives' from select jmergeregexp(jgroup(word)) from (select * from nihpositives order by length(word) desc);
hidden var 'nihnegatives' from select jmergeregexp(jgroup(word)) from (select * from nihnegatives order by length(word) desc);
hidden var 'hfripos' from select "(?:innovation project)|(?:multigold numbered)|(?:fellowship number)|(?:grant fellowship)|(?:innovation grant)|(?:scholarship code)|(?:technology gsrt)|(?:project number)|(?:faculty grant)|(?:hfri project)|(?:elidek grant)|(?:agreement no)|(?:funded grant)|(?:project no)|(?:hfri grant)|(?:gsrt grant)|(?:hfri fm17)|(?:hfri code)|(?:grant no)|(?:grant ga)|(?:ga hfri)";
hidden var 'miur_unidentified' from select id from grants where fundingclass1="MIUR" and grantid="unidentified" limit 1;
hidden var 'wt_unidentified' from select id from grants where fundingclass1="WT" and grantid="unidentified" limit 1;
hidden var 'gsri_unidentified' from select id from grants where fundingclass1="GSRI" and grantid="unidentified" limit 1;
Expand All @@ -20,6 +21,7 @@ hidden var 'nserc_unidentified' from (select id from grants where fundingclass1=
hidden var 'sshrc_unidentified' from (select id from grants where fundingclass1="SSHRC" and grantid="unidentified" limit 1);
hidden var 'nrc_unidentified' from (select id from grants where fundingclass1="NRC" and grantid="unidentified" limit 1);
hidden var 'inca_unidentified' from (select id from grants where fundingclass1="INCa" and grantid="unidentified" limit 1);
hidden var 'hfri_unidentified' from (select id from grants where fundingclass1="HFRI" and grantid="unidentified" limit 1);

create temp table pubs as setschema 'c1,c2' select jsonpath(c1, '$.id', '$.text') from stdinput();

Expand All @@ -29,14 +31,33 @@ select id, grantid, gid, jmergeregexp(terms) as terms, jlen(terms) as lt from
(select id, grantid, regexpr("(\D+)",grantid) as terms, regexpr("\D([\d|\s]+)$",grantid) as gid from grants
where fundingclass1 = "INCa" and gid is not null));


create temp table hfri_unidentified_only as select docid, var('hfri_unidentified') as id, prev, middle, next from (setschema 'docid,prev,middle,next'
select c1 as docid, textwindow2s(c2, 10,2,10, "\bHFRI\b|Hellenic Foundation|Greek Foundation|ΕΛΙΔΕΚ|Ελληνικό Ίδρυμα") from ((setschema 'c1,c2' select * from pubs where c2 is not null)))
where var('miur_unidentified') and lower(j2s(prev,middle,next)) not like "%himalayan%" and regexprmatches("gsrt|greek|hellenic|innovation|research|grant|greece",lower(j2s(prev,middle,next))) group by id;


create temp table output_hfri as
select jdict('documentId', docid, 'projectId', id, 'confidenceLevel', 0.8, 'textsnippet', textsnippet_) as C1, docid, id from (
select docid, id, textsnippet_ from
(setschema 'docid,textsnippet_,textwin1,textwin2,textwin3, proj_id, id' select docid, textsnippet_, textwindow2s(textsnippet_,2,1,1,"(?:\b|fm17)"||proj_id||"\b") as textwin, proj_id, id from (
select docid,t2.Project_id as proj_id, t2.id, t1.textsnippet_ from
( setschema 'docid, textsnippet_, res' select distinct docid, textsnippet_, jsplitv(regexprfindall('(?:\b|fm17)(\d{2,4})\b',textsnippet_)) as res
from ( select docid, filterstopwords(lower(keywords(j2s(prev,middle,next)))) as textsnippet_ from (setschema 'docid, id, prev, middle, next' select * from hfri_unidentified_only)) ) as t1,
(select id, grantid as project_id from grants where fundingclass1 = "HFRI") as t2 where res = t2.project_id and t2.project_id is not null
)
) where (regexprmatches(var('hfripos'),textwin1) or textwin2 like "%"||"fm17"||proj_id||"%" or textwin2 = "."||proj_id) and textwin1 is not null and textwin2 is not null
and textwin3 is not "hellenic" group by docid, id);



create temp table matched_undefined_miur_only as select distinct docid, var('miur_unidentified') as id, prev,middle,next from (setschema 'docid,prev,middle,next'
select c1 as docid, textwindow2s(c2,10,1,10, '\b(?:RBSI\d{2}\w{4})\b') from (setschema 'c1,c2' select * from pubs where c2 is not null))
where var('miur_unidentified') and (regexprmatches('\b(?:RBSI\d{2}\w{4})\b', middle));





create temp table matched_undefined_inca_only as select distinct docid, var('inca_unidentified') as id, prev,middle,next from (setschema 'docid,prev,middle,next'
select c1 as docid, textwindow2s(c2,15,4,10, '\bINCa|French National Cancer Institute') from (setschema 'c1,c2' select * from pubs where c2 is not null))
where var('inca_unidentified')
Expand Down Expand Up @@ -318,6 +339,7 @@ delete from output_table where fundingClass1="CHIST-ERA" and grantid="unidentifi
delete from matched_undefined_miur_only where docid in (select docid from output_table where fundingClass1="MIUR");
delete from matched_undefined_wt_only where docid in (select docid from output_table where fundingClass1="WT");
delete from matched_undefined_gsri where docid in (select docid from output_table where fundingClass1="GSRI");
delete from matched_undefined_hfri where docid in (select docid from output_hfri);

delete from output_table where j2s(docid,id) in (select j2s(T.docid, T.id) from output_table S, output_table T where S.docid = T.docid and S.id in (select id from grants where grantid in (select * from gold)) and T.id in (select id from grants where grantid in ("246686", "283595","643410")));
delete from output_table where fundingclass1 = "EC" and j2s(docid, grantid) in (select j2s(docid, grantid) from output_table where fundingclass1 = "RCN");
Expand All @@ -339,10 +361,17 @@ select C1 from output_table
union all
select C1 from secondary_output_table
union all
select C1 from output_hfri
union all
select jdict('documentId', docid, 'projectId', id, 'confidenceLevel', 0.8, 'textsnippet', prev||" "||middle||" "||next) from matched_undefined_miur_only
union all
select jdict('documentId', docid, 'projectId', id, 'confidenceLevel', 0.8, 'textsnippet', prev||" "||middle||" "||next) from matched_undefined_wt_only
union all
select jdict('documentId', docid, 'projectId', id, 'confidenceLevel', 0.8, 'textsnippet', prev||" "||middle||" "||next) from matched_undefined_inca_only
union all
select jdict('documentId', docid, 'projectId', id, 'confidenceLevel', 0.8, 'textsnippet', prev||" "||middle||" "||next) from matched_undefined_gsri;
select jdict('documentId', docid, 'projectId', id, 'confidenceLevel', 0.8, 'textsnippet', prev||" "||middle||" "||next) from matched_undefined_gsri
union all
select jdict('documentId', docid, 'projectId', id, 'confidenceLevel', 0.8, 'textsnippet', prev||" "||middle||" "||next) from matched_undefined_hfri;