Skip to content

Altered demo #5

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Draft
wants to merge 1 commit into
base: main
Choose a base branch
from
Draft
Show file tree
Hide file tree
Changes from all commits
Commits
File filter

Filter by extension

Filter by extension

Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
1 change: 1 addition & 0 deletions demo/data/ex1.json
Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
{"documents":{"110505565":{"sentences":[{"words":["Trichoderma","harzianum",":","A","biocontrol","agent","effective","against","Sclerotium","rolfsii","and","Rhizoctonia","solani","."],"startOffsets":[0,12,22,24,26,37,43,53,61,72,80,84,96,103],"endOffsets":[11,21,23,25,36,42,52,60,71,79,83,95,102,104],"raw":["Trichoderma","harzianum",":","A","biocontrol","agent","effective","against","Sclerotium","rolfsii","and","Rhizoctonia","solani","."],"tags":["NNP","NN",":","DT","JJ","NN","JJ","IN","NN","NN","CC","NNP","NNP","."],"lemmas":["trichoderma","harzianum",":","a","biocontrol","agent","effective","against","sclerotium","rolfsius","and","rhizoctonium","solanus","."],"entities":["B-Species","I-Species","O","O","O","O","O","O","B-FungalStressor","I-FungalStressor","O","B-FungalStressor","I-FungalStressor","O"],"chunks":["B-NP","I-NP","O","B-NP","I-NP","I-NP","I-NP","B-PP","B-NP","I-NP","O","B-NP","I-NP","O"],"graphs":{"universal-enhanced":{"edges":[{"source":1,"destination":13,"relation":"punct"},{"source":1,"destination":2,"relation":"punct"},{"source":1,"destination":5,"relation":"appos"},{"source":1,"destination":0,"relation":"compound"},{"source":5,"destination":6,"relation":"amod"},{"source":5,"destination":3,"relation":"det"},{"source":5,"destination":4,"relation":"amod"},{"source":6,"destination":9,"relation":"nmod_against"},{"source":9,"destination":10,"relation":"cc"},{"source":9,"destination":7,"relation":"case"},{"source":9,"destination":8,"relation":"compound"},{"source":9,"destination":12,"relation":"conj"},{"source":12,"destination":11,"relation":"compound"}],"roots":[1]},"universal-basic":{"edges":[{"source":1,"destination":0,"relation":"compound"},{"source":1,"destination":13,"relation":"punct"},{"source":1,"destination":2,"relation":"punct"},{"source":1,"destination":5,"relation":"appos"},{"source":5,"destination":6,"relation":"amod"},{"source":6,"destination":9,"relation":"nmod"},{"source":9,"destination":12,"relation":"conj"},{"source":5,"destination":3,"relation":"det"},{"source":5,"destination":4,"relation":"amod"},{"source":9,"destination":8,"relation":"compound"},{"source":9,"destination":10,"relation":"cc"},{"source":9,"destination":7,"relation":"case"},{"source":12,"destination":11,"relation":"compound"}],"roots":[1]}}}]}},"mentions":[{"type":"EventMention","id":"E:-276665595","text":"Trichoderma harzianum : A biocontrol agent effective against Sclerotium rolfsii","labels":["Decrease","Causal","Event"],"trigger":{"type":"TextBoundMention","id":"T:1319975054","text":"biocontrol agent","labels":["Decrease","Causal","Event"],"tokenInterval":{"start":4,"end":6},"characterStartOffset":26,"characterEndOffset":42,"sentence":0,"document":"110505565","keep":true,"foundBy":"biocontrol-syntax-1"},"arguments":{"cause":[{"type":"TextBoundMention","id":"T:250533445","text":"Trichoderma harzianum","labels":["Species","Concept","Entity"],"tokenInterval":{"start":0,"end":2},"characterStartOffset":0,"characterEndOffset":21,"sentence":0,"document":"110505565","keep":true,"foundBy":"species"}],"effect":[{"type":"TextBoundMention","id":"T:-680879075","text":"Sclerotium rolfsii","labels":["FungalStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":8,"end":10},"characterStartOffset":61,"characterEndOffset":79,"sentence":0,"document":"110505565","keep":true,"foundBy":"fungal-stressor"}]},"paths":{"cause":{"T:250533445":[{"source":1,"destination":5,"relation":"appos"}]},"effect":{"T:-680879075":[{"source":5,"destination":6,"relation":"amod"},{"source":6,"destination":9,"relation":"nmod_against"}],"T:-2107541811":[{"source":5,"destination":6,"relation":"amod"},{"source":6,"destination":9,"relation":"nmod_against"},{"source":9,"destination":12,"relation":"conj"}]}},"tokenInterval":{"start":0,"end":10},"characterStartOffset":0,"characterEndOffset":79,"sentence":0,"document":"110505565","keep":true,"foundBy":"biocontrol-syntax-1"},{"type":"EventMention","id":"E:1483940635","text":"Trichoderma harzianum : A biocontrol agent effective against Sclerotium rolfsii and Rhizoctonia solani","labels":["Decrease","Causal","Event"],"trigger":{"type":"TextBoundMention","id":"T:1319975054","text":"biocontrol agent","labels":["Decrease","Causal","Event"],"tokenInterval":{"start":4,"end":6},"characterStartOffset":26,"characterEndOffset":42,"sentence":0,"document":"110505565","keep":true,"foundBy":"biocontrol-syntax-1"},"arguments":{"cause":[{"type":"TextBoundMention","id":"T:250533445","text":"Trichoderma harzianum","labels":["Species","Concept","Entity"],"tokenInterval":{"start":0,"end":2},"characterStartOffset":0,"characterEndOffset":21,"sentence":0,"document":"110505565","keep":true,"foundBy":"species"}],"effect":[{"type":"TextBoundMention","id":"T:-2107541811","text":"Rhizoctonia solani","labels":["FungalStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":11,"end":13},"characterStartOffset":84,"characterEndOffset":102,"sentence":0,"document":"110505565","keep":true,"foundBy":"fungal-stressor"}]},"paths":{"cause":{"T:250533445":[{"source":1,"destination":5,"relation":"appos"}]},"effect":{"T:-680879075":[{"source":5,"destination":6,"relation":"amod"},{"source":6,"destination":9,"relation":"nmod_against"}],"T:-2107541811":[{"source":5,"destination":6,"relation":"amod"},{"source":6,"destination":9,"relation":"nmod_against"},{"source":9,"destination":12,"relation":"conj"}]}},"tokenInterval":{"start":0,"end":13},"characterStartOffset":0,"characterEndOffset":102,"sentence":0,"document":"110505565","keep":true,"foundBy":"biocontrol-syntax-1"},{"type":"TextBoundMention","id":"T:250533445","text":"Trichoderma harzianum","labels":["Species","Concept","Entity"],"tokenInterval":{"start":0,"end":2},"characterStartOffset":0,"characterEndOffset":21,"sentence":0,"document":"110505565","keep":true,"foundBy":"species"},{"type":"TextBoundMention","id":"T:-680879075","text":"Sclerotium rolfsii","labels":["FungalStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":8,"end":10},"characterStartOffset":61,"characterEndOffset":79,"sentence":0,"document":"110505565","keep":true,"foundBy":"fungal-stressor"},{"type":"TextBoundMention","id":"T:-2107541811","text":"Rhizoctonia solani","labels":["FungalStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":11,"end":13},"characterStartOffset":84,"characterEndOffset":102,"sentence":0,"document":"110505565","keep":true,"foundBy":"fungal-stressor"}]}
1 change: 1 addition & 0 deletions demo/data/ex2.json
Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
{"documents":{"-1495101865":{"sentences":[{"words":["Trichoderma","harzianum","suppressed","reproduction","of","M.","incognita","and","M.","arenaria"],"startOffsets":[0,12,22,33,46,49,52,62,66,69],"endOffsets":[11,21,32,45,48,51,61,65,68,77],"raw":["Trichoderma","harzianum","suppressed","reproduction","of","M.","incognita","and","M.","arenaria"],"tags":["NNP","NN","VBD","NN","IN","NNP","NNP","CC","NNP","NNP"],"lemmas":["trichoderma","harzianum","suppress","reproduction","of","m","incognita","and","m","arenarium"],"entities":["B-Species","I-Species","O","O","O","B-NematodeStressor","I-NematodeStressor","O","B-NematodeStressor","I-NematodeStressor"],"chunks":["B-NP","I-NP","B-VP","B-NP","B-PP","B-NP","I-NP","O","B-NP","I-NP"],"graphs":{"universal-enhanced":{"edges":[{"source":1,"destination":0,"relation":"compound"},{"source":2,"destination":1,"relation":"nsubj"},{"source":2,"destination":3,"relation":"dobj"},{"source":3,"destination":6,"relation":"nmod_of"},{"source":6,"destination":4,"relation":"case"},{"source":6,"destination":9,"relation":"conj"},{"source":6,"destination":7,"relation":"cc"},{"source":6,"destination":5,"relation":"compound"},{"source":9,"destination":8,"relation":"compound"}],"roots":[2]},"universal-basic":{"edges":[{"source":2,"destination":1,"relation":"nsubj"},{"source":2,"destination":3,"relation":"dobj"},{"source":1,"destination":0,"relation":"compound"},{"source":3,"destination":6,"relation":"nmod"},{"source":6,"destination":9,"relation":"conj"},{"source":6,"destination":4,"relation":"case"},{"source":6,"destination":7,"relation":"cc"},{"source":6,"destination":5,"relation":"compound"},{"source":9,"destination":8,"relation":"compound"}],"roots":[2]}}}]}},"mentions":[{"type":"EventMention","id":"E:1270737613","text":"Trichoderma harzianum suppressed reproduction of M. incognita","labels":["Decrease","Causal","Event"],"trigger":{"type":"TextBoundMention","id":"T:51203399","text":"suppressed","labels":["Decrease","Causal","Event"],"tokenInterval":{"start":2,"end":3},"characterStartOffset":22,"characterEndOffset":32,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"suppress-syntax-1"},"arguments":{"cause":[{"type":"TextBoundMention","id":"T:-922382911","text":"Trichoderma harzianum","labels":["Species","Concept","Entity"],"tokenInterval":{"start":0,"end":2},"characterStartOffset":0,"characterEndOffset":21,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"species"}],"effect":[{"type":"TextBoundMention","id":"T:544916056","text":"M. incognita","labels":["NematodeStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":5,"end":7},"characterStartOffset":49,"characterEndOffset":61,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"nematode-stressor"}]},"paths":{"cause":{"T:-922382911":[{"source":2,"destination":1,"relation":"nsubj"}]},"effect":{"T:544916056":[{"source":2,"destination":3,"relation":"dobj"},{"source":3,"destination":6,"relation":"nmod_of"}],"T:539149708":[{"source":2,"destination":3,"relation":"dobj"},{"source":3,"destination":6,"relation":"nmod_of"},{"source":6,"destination":9,"relation":"conj"}]}},"tokenInterval":{"start":0,"end":7},"characterStartOffset":0,"characterEndOffset":61,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"suppress-syntax-1"},{"type":"EventMention","id":"E:-2044463616","text":"Trichoderma harzianum suppressed reproduction of M. incognita and M. arenaria","labels":["Decrease","Causal","Event"],"trigger":{"type":"TextBoundMention","id":"T:51203399","text":"suppressed","labels":["Decrease","Causal","Event"],"tokenInterval":{"start":2,"end":3},"characterStartOffset":22,"characterEndOffset":32,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"suppress-syntax-1"},"arguments":{"cause":[{"type":"TextBoundMention","id":"T:-922382911","text":"Trichoderma harzianum","labels":["Species","Concept","Entity"],"tokenInterval":{"start":0,"end":2},"characterStartOffset":0,"characterEndOffset":21,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"species"}],"effect":[{"type":"TextBoundMention","id":"T:539149708","text":"M. arenaria","labels":["NematodeStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":8,"end":10},"characterStartOffset":66,"characterEndOffset":77,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"nematode-stressor"}]},"paths":{"cause":{"T:-922382911":[{"source":2,"destination":1,"relation":"nsubj"}]},"effect":{"T:544916056":[{"source":2,"destination":3,"relation":"dobj"},{"source":3,"destination":6,"relation":"nmod_of"}],"T:539149708":[{"source":2,"destination":3,"relation":"dobj"},{"source":3,"destination":6,"relation":"nmod_of"},{"source":6,"destination":9,"relation":"conj"}]}},"tokenInterval":{"start":0,"end":10},"characterStartOffset":0,"characterEndOffset":77,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"suppress-syntax-1"},{"type":"TextBoundMention","id":"T:-922382911","text":"Trichoderma harzianum","labels":["Species","Concept","Entity"],"tokenInterval":{"start":0,"end":2},"characterStartOffset":0,"characterEndOffset":21,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"species"},{"type":"TextBoundMention","id":"T:539149708","text":"M. arenaria","labels":["NematodeStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":8,"end":10},"characterStartOffset":66,"characterEndOffset":77,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"nematode-stressor"},{"type":"TextBoundMention","id":"T:544916056","text":"M. incognita","labels":["NematodeStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":5,"end":7},"characterStartOffset":49,"characterEndOffset":61,"sentence":0,"document":"-1495101865","keep":true,"foundBy":"nematode-stressor"}]}
1 change: 1 addition & 0 deletions demo/data/ex3.json
Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
{"documents":{"1271005244":{"sentences":[{"words":["Strains","of","two","Pseudomonas","fluorescens","inhibited","galling","by","M.","incognita","in","white","clover"],"startOffsets":[0,8,11,15,27,39,49,57,60,63,73,76,82],"endOffsets":[7,10,14,26,38,48,56,59,62,72,75,81,88],"raw":["Strains","of","two","Pseudomonas","fluorescens","inhibited","galling","by","M.","incognita","in","white","clover"],"tags":["NNS","IN","CD","NNS","NNS","VBD","NN","IN","NNP","NNP","IN","JJ","NN"],"lemmas":["strain","of","two","pseudomona","fluorescen","inhibit","gall","by","m","incognita","in","white","clover"],"entities":["O","O","O","B-Species","I-Species","O","O","O","B-NematodeStressor","I-NematodeStressor","O","B-Crop","I-Crop"],"chunks":["B-NP","B-PP","B-NP","I-NP","I-NP","B-VP","B-NP","B-PP","B-NP","I-NP","B-PP","B-NP","I-NP"],"graphs":{"universal-enhanced":{"edges":[{"source":0,"destination":4,"relation":"nmod_of"},{"source":4,"destination":2,"relation":"nummod"},{"source":4,"destination":1,"relation":"case"},{"source":4,"destination":3,"relation":"compound"},{"source":5,"destination":6,"relation":"dobj"},{"source":5,"destination":0,"relation":"nsubj"},{"source":5,"destination":12,"relation":"nmod_in"},{"source":6,"destination":9,"relation":"nmod_by"},{"source":9,"destination":7,"relation":"case"},{"source":9,"destination":8,"relation":"compound"},{"source":12,"destination":11,"relation":"amod"},{"source":12,"destination":10,"relation":"case"}],"roots":[5]},"universal-basic":{"edges":[{"source":5,"destination":6,"relation":"dobj"},{"source":5,"destination":0,"relation":"nsubj"},{"source":0,"destination":4,"relation":"nmod"},{"source":4,"destination":3,"relation":"compound"},{"source":4,"destination":1,"relation":"case"},{"source":4,"destination":2,"relation":"nummod"},{"source":5,"destination":12,"relation":"nmod"},{"source":12,"destination":10,"relation":"case"},{"source":12,"destination":11,"relation":"amod"},{"source":6,"destination":9,"relation":"nmod"},{"source":9,"destination":8,"relation":"compound"},{"source":9,"destination":7,"relation":"case"}],"roots":[5]}}}]}},"mentions":[{"type":"TextBoundMention","id":"T:-570553234","text":"M. incognita","labels":["NematodeStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":8,"end":10},"characterStartOffset":60,"characterEndOffset":72,"sentence":0,"document":"1271005244","keep":true,"foundBy":"nematode-stressor"},{"type":"RelationMention","id":"R:1011395841","text":"Pseudomonas fluorescens inhibited galling by M. incognita","labels":["Decrease","Causal","Event"],"arguments":{"cause":[{"type":"TextBoundMention","id":"T:1797891026","text":"Pseudomonas fluorescens","labels":["Species","Concept","Entity"],"tokenInterval":{"start":3,"end":5},"characterStartOffset":15,"characterEndOffset":38,"sentence":0,"document":"1271005244","keep":true,"foundBy":"species"}],"symptom":[{"type":"TextBoundMention","id":"T:-1361858618","text":"galling","labels":["Symptom","Concept","Entity"],"tokenInterval":{"start":6,"end":7},"characterStartOffset":49,"characterEndOffset":56,"sentence":0,"document":"1271005244","keep":true,"foundBy":"symptom"}],"effect":[{"type":"TextBoundMention","id":"T:-570553234","text":"M. incognita","labels":["NematodeStressor","BioticStressor","Stressor","Concept","Entity"],"tokenInterval":{"start":8,"end":10},"characterStartOffset":60,"characterEndOffset":72,"sentence":0,"document":"1271005244","keep":true,"foundBy":"nematode-stressor"}]},"tokenInterval":{"start":3,"end":10},"characterStartOffset":15,"characterEndOffset":72,"sentence":0,"document":"1271005244","keep":true,"foundBy":"inhibited-galling-by-surface-1"},{"type":"TextBoundMention","id":"T:1797891026","text":"Pseudomonas fluorescens","labels":["Species","Concept","Entity"],"tokenInterval":{"start":3,"end":5},"characterStartOffset":15,"characterEndOffset":38,"sentence":0,"document":"1271005244","keep":true,"foundBy":"species"},{"type":"TextBoundMention","id":"T:-1730189252","text":"white clover","labels":["Crop","Concept","Entity"],"tokenInterval":{"start":11,"end":13},"characterStartOffset":76,"characterEndOffset":88,"sentence":0,"document":"1271005244","keep":true,"foundBy":"crop"},{"type":"TextBoundMention","id":"T:-1361858618","text":"galling","labels":["Symptom","Concept","Entity"],"tokenInterval":{"start":6,"end":7},"characterStartOffset":49,"characterEndOffset":56,"sentence":0,"document":"1271005244","keep":true,"foundBy":"symptom"}]}
Loading