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iaa.py
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import argparse
parser = argparse.ArgumentParser()
parser.add_argument("infolder", help="Export from Inception (TSV WebAnno format)")
parser.add_argument('--annotators', help="List of annotators' user names", nargs="+", required=True)
args = parser.parse_args()
do_virgolaDiTroppo = False
do_virgolaSplice = False
do_connettivoProblematico = False
do_remaNonEspanso = False
do_segmentazioneInciso = False
do_strutturaTipo = False
do_disposizioneErrata = False
do_accordoProblematico = True
do_anafora = True
do_contraddizione = True
regexp = r"^SI_[0-9]+"
from webanno_tsv_custom import webanno_tsv_read_file
import os
import re
import statsmodels.api as sm
import statsmodels as sm
import numpy as np
def toArray(d, annotators, pr=False, conversionDict={}):
if len(conversionDict) == 0:
allInts = True
valueList = set()
for k in d:
for a in d[k]:
if type(d[k][a]) != int:
allInts = False
valueList.add(d[k][a])
conversionDict = {}
index = 0
if not allInts:
for v in valueList:
if v not in conversionDict:
conversionDict[v] = index
index += 1
ks = d.keys()
annIndexes = {}
if pr:
print(35 * " ", end='')
for idx, x in enumerate(annotators):
if pr:
print("%20s" % x, end='')
annIndexes[x] = idx
if pr:
print()
print((35 + 20 * len(annotators)) * "-")
mat = np.zeros((len(d.keys()), len(annotators)), dtype=int)
index = 0
for k in sorted(d):
for a in d[k]:
if len(conversionDict) == 0:
mat[index][annIndexes[a]] = d[k][a]
else:
mat[index][annIndexes[a]] = conversionDict[d[k][a]]
index += 1
if pr:
s = sorted(d)
for i in range(len(s)):
k = s[i]
print("%-35s" % k, end='')
for a in mat[i]:
print("%20d" % a, end='')
print()
return mat
input_folder = args.infolder
annotators = args.annotators
webannoTsvs = {}
annotation_folder = os.path.join(input_folder, "annotation")
for folder in os.listdir(annotation_folder):
origName = re.sub(r"\.tsv", "", folder)
if not re.match(regexp, folder):
continue
webannoTsvs[origName] = {}
folder = os.path.join(annotation_folder, folder)
for f in os.listdir(folder):
if not re.match(r"^[a-z0-9_]+\.tsv$", f):
continue
fileName = os.path.join(folder, f)
f = re.sub(r"\.tsv$", "", f)
if f not in annotators:
continue
webannoTsvs[origName][f] = webanno_tsv_read_file(fileName)
if len(webannoTsvs[origName]) != len(annotators):
print("Error! Missing file for folder", folder)
### Spans
if do_virgolaDiTroppo:
print("### Virgola di troppo")
virgolaDiTroppoAlone = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
annotations = webannoTsvs[file][annotator].match_annotations(layer="webanno.custom.SegmentazioneVirgoladitroppo")
for annotation in annotations:
subject = file + "_" + str(annotation.start).zfill(4)
if subject not in virgolaDiTroppoAlone:
virgolaDiTroppoAlone[subject] = {}
virgolaDiTroppoAlone[subject][annotator] = annotation.label
conversionDict = {'true': 1, 'false': 2}
a = toArray(virgolaDiTroppoAlone, annotators, pr=True, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement - alone:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print()
if do_virgolaSplice:
print("### Virgola splice (corretto/non corretto)")
virgoleSplice = {}
virgoleSpliceAlone = {}
virgoleSpliceType = {}
virgoleSpliceTypeAlone = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
annotations = webannoTsvs[file][annotator].match_annotations(layer="webanno.custom.Segmentazione")
for annotation in annotations:
subject = file + "_" + str(annotation.start).zfill(4)
if subject not in virgoleSpliceType:
virgoleSpliceType[subject] = {}
if subject not in virgoleSplice:
virgoleSplice[subject] = {}
virgoleSpliceType[subject][annotator] = annotation.label
if annotation.label != "Corretto":
virgoleSplice[subject][annotator] = 1
for s in virgoleSplice:
valueSum = 0
for a in virgoleSplice[s]:
valueSum += virgoleSplice[s][a]
if valueSum != 0:
virgoleSpliceTypeAlone[s] = virgoleSpliceType[s]
virgoleSpliceAlone[s] = virgoleSplice[s]
a = toArray(virgoleSplice, annotators, pr=False)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement (c/nc):", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
a = toArray(virgoleSpliceAlone, annotators, pr=True)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement (c/nc) - alone:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
conversionDict = {'Punto e virgola': 1, 'Punto': 1, 'Corretto': 0, 'Due punti': 2}
a = toArray(virgoleSpliceType, annotators, pr=False, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement (type):", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
a = toArray(virgoleSpliceTypeAlone, annotators, pr=True, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement (type) - alone:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print(conversionDict)
print()
if do_connettivoProblematico:
print("### Connettivo problematico")
connettivoProblematico = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
annotations = webannoTsvs[file][annotator].match_annotations(layer="webanno.custom.Connettivoproblematico", field="Problematico")
for annotation in annotations:
subject = file + "_" + str(annotation.start).zfill(4)
if subject not in connettivoProblematico:
connettivoProblematico[subject] = {}
connettivoProblematico[subject][annotator] = annotation.label
conversionDict = {'true': 1, 'false': 2}
a = toArray(connettivoProblematico, annotators, pr=True, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print()
if do_remaNonEspanso:
print("### Rema non espanso")
remaNonEspanso = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
annotations = webannoTsvs[file][annotator].match_annotations(layer="webanno.custom.Remanonespanso")
for annotation in annotations:
for t in annotation.tokens:
subject = file + "_" + str(t.start).zfill(4)
if subject not in remaNonEspanso:
remaNonEspanso[subject] = {}
remaNonEspanso[subject][annotator] = 1
a = toArray(remaNonEspanso, annotators, pr=True)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print()
if do_segmentazioneInciso:
print("### Segmentazione - Inciso")
segmentazioneInciso = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
annotations = webannoTsvs[file][annotator].match_annotations(layer="webanno.custom.SegmentazioneInciso", field="Inciso")
for annotation in annotations:
for t in annotation.tokens:
subject = file + "_" + str(t.start).zfill(4)
if subject not in segmentazioneInciso:
segmentazioneInciso[subject] = {}
segmentazioneInciso[subject][annotator] = annotation.label
conversionDict = {'Correttamente segnalato': 1, 'Manca virgola finale': 2, 'Manca virgola iniziale': 3, 'Non segnalato': 4, '*': 5}
a = toArray(segmentazioneInciso, annotators, pr=True, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print(conversionDict)
print()
if do_strutturaTipo:
print("### Struttura - Tipo")
strutturaTipo = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
annotations = webannoTsvs[file][annotator].match_annotations(layer="webanno.custom.Struttura", field="Tipo")
for annotation in annotations:
for t in annotation.tokens:
subject = file + "_" + str(t.start).zfill(4)
if subject not in strutturaTipo:
strutturaTipo[subject] = {}
strutturaTipo[subject][annotator] = annotation.label
conversionDict = {'Intro': 1, 'Tesi': 2, 'Argopro': 3, 'Argocontro': 4, 'Temp': 5, 'Concessione': 6, 'Confutazione': 7, 'Digr': 8, 'Concl': 9, 'Altro': 10, '*': 11}
a = toArray(strutturaTipo, annotators, pr=True, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print(conversionDict)
print()
if do_disposizioneErrata:
print("### Disposizione errata")
disposizioneErrata = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
annotations = webannoTsvs[file][annotator].match_annotations(layer="webanno.custom.Disposizioneerrata", field="Tipo")
for annotation in annotations:
for t in annotation.tokens:
subject = file + "_" + str(t.start).zfill(4)
if subject not in disposizioneErrata:
disposizioneErrata[subject] = {}
disposizioneErrata[subject][annotator] = annotation.label
conversionDict = {'Spostare': 1, 'Togliere': 2, '*': 3}
a = toArray(disposizioneErrata, annotators, pr=True, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print(conversionDict)
print()
### Relations
if do_accordoProblematico:
print("### Accordo problematico")
accordoProblematico = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
relations = webannoTsvs[file][annotator].match_rel_annotations(layer="webanno.custom.Accordoproblematico")
for relation in relations:
if relation.field not in accordoProblematico:
accordoProblematico[relation.field] = {}
subject = ""
o1 = set()
o2 = set()
if relation.governor.tokens[0].start > relation.dependent.tokens[0].start:
subject = file + "_" + str(relation.dependent.tokens[0].start).zfill(4) + "_" + str(relation.governor.tokens[0].start).zfill(4)
l = relation.dependent.tokens[len(relation.dependent.tokens) - 1].end - relation.dependent.tokens[0].start
for index in range(l):
o1.add(relation.dependent.tokens[0].start + index)
l = relation.governor.tokens[len(relation.governor.tokens) - 1].end - relation.governor.tokens[0].start
for index in range(l):
o2.add(relation.governor.tokens[0].start + index)
else:
subject = file + "_" + str(relation.governor.tokens[0].start).zfill(4) + "_" + str(relation.dependent.tokens[0].start).zfill(4)
l = relation.dependent.tokens[len(relation.dependent.tokens) - 1].end - relation.dependent.tokens[0].start
for index in range(l):
o2.add(relation.dependent.tokens[0].start + index)
l = relation.governor.tokens[len(relation.governor.tokens) - 1].end - relation.governor.tokens[0].start
for index in range(l):
o1.add(relation.governor.tokens[0].start + index)
subj = None
for s in accordoProblematico[relation.field]:
x1 = accordoProblematico[relation.field][s]['o1'].intersection(o1)
x2 = accordoProblematico[relation.field][s]['o2'].intersection(o2)
if len(x1) > 0 and len(x2) > 0:
subj = s
if subj is not None:
accordoProblematico[relation.field][subj][annotator] = relation.label
accordoProblematico[relation.field][subj]['o1'] = accordoProblematico[relation.field][subj]['o1'].union(o1)
accordoProblematico[relation.field][subj]['o2'] = accordoProblematico[relation.field][subj]['o2'].union(o2)
else:
if subject not in accordoProblematico[relation.field]:
accordoProblematico[relation.field][subject] = {}
accordoProblematico[relation.field][subject]['o1'] = o1
accordoProblematico[relation.field][subject]['o2'] = o2
accordoProblematico[relation.field][subject][annotator] = relation.label
for field in accordoProblematico:
toSend = accordoProblematico[field]
for s in toSend:
toSend[s].pop("o1")
toSend[s].pop("o2")
print("####", field)
conversionDict = {'true': 1, 'false': 2}
a = toArray(toSend, annotators, pr=True, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print()
# if do_anafora:
# print("### Anafora")
# anafora = {}
# for file in webannoTsvs:
# for annotator in webannoTsvs[file]:
# relations = webannoTsvs[file][annotator].match_rel_annotations(layer="webanno.custom.Anafora")
# for relation in relations:
# subject = ""
# if relation.governor.tokens[0].start > relation.dependent.tokens[0].start:
# subject = file + "_" + str(relation.dependent.tokens[0].start).zfill(4) + "_" + str(relation.governor.tokens[0].start).zfill(4)
# else:
# subject = file + "_" + str(relation.governor.tokens[0].start).zfill(4) + "_" + str(relation.dependent.tokens[0].start).zfill(4)
# if subject not in anafora:
# anafora[subject] = {}
# anafora[subject][annotator] = relation.label
# conversionDict = {'true': 1, 'false': 1, '*': 1}
# a = toArray(anafora, annotators, pr=True, conversionDict=conversionDict)
# ar, _ = sm.stats.inter_rater.aggregate_raters(a)
# print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
# print()
if do_anafora:
print("### Anafora")
anafora = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
relations = webannoTsvs[file][annotator].match_rel_annotations(layer="webanno.custom.Anafora")
for relation in relations:
subject = ""
o1 = set()
o2 = set()
if relation.governor.tokens[0].start > relation.dependent.tokens[0].start:
subject = file + "_" + str(relation.dependent.tokens[0].start).zfill(4) + "_" + str(relation.governor.tokens[0].start).zfill(4)
l = relation.dependent.tokens[len(relation.dependent.tokens) - 1].end - relation.dependent.tokens[0].start
for index in range(l):
o1.add(relation.dependent.tokens[0].start + index)
l = relation.governor.tokens[len(relation.governor.tokens) - 1].end - relation.governor.tokens[0].start
for index in range(l):
o2.add(relation.governor.tokens[0].start + index)
else:
subject = file + "_" + str(relation.governor.tokens[0].start).zfill(4) + "_" + str(relation.dependent.tokens[0].start).zfill(4)
l = relation.dependent.tokens[len(relation.dependent.tokens) - 1].end - relation.dependent.tokens[0].start
for index in range(l):
o2.add(relation.dependent.tokens[0].start + index)
l = relation.governor.tokens[len(relation.governor.tokens) - 1].end - relation.governor.tokens[0].start
for index in range(l):
o1.add(relation.governor.tokens[0].start + index)
subj = None
for s in anafora:
x1 = anafora[s]['o1'].intersection(o1)
x2 = anafora[s]['o2'].intersection(o2)
if len(x1) > 0 and len(x2) > 0:
subj = s
if subj is not None:
anafora[subj][annotator] = relation.label
anafora[subj]['o1'] = anafora[subj]['o1'].union(o1)
anafora[subj]['o2'] = anafora[subj]['o2'].union(o2)
else:
if subject not in anafora:
anafora[subject] = {}
anafora[subject]['o1'] = o1
anafora[subject]['o2'] = o2
anafora[subject][annotator] = relation.label
toSend = anafora
for s in toSend:
toSend[s].pop("o1")
toSend[s].pop("o2")
conversionDict = {'true': 1, 'false': 1, '*': 1}
a = toArray(toSend, annotators, pr=True, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print()
# if do_contraddizione:
# print("### Contraddizione")
# contraddizione = {}
# for file in webannoTsvs:
# for annotator in webannoTsvs[file]:
# relations = webannoTsvs[file][annotator].match_rel_annotations(layer="webanno.custom.ContraddizioneRelation")
# for relation in relations:
# subject = ""
# if relation.governor.tokens[0].start > relation.dependent.tokens[0].start:
# subject = file + "_" + str(relation.dependent.tokens[0].start).zfill(4) + "_" + str(relation.governor.tokens[0].start).zfill(4)
# else:
# subject = file + "_" + str(relation.governor.tokens[0].start).zfill(4) + "_" + str(relation.dependent.tokens[0].start).zfill(4)
# if subject not in contraddizione:
# contraddizione[subject] = {}
# contraddizione[subject][annotator] = relation.label
# conversionDict = {'*': 1}
# a = toArray(contraddizione, annotators, pr=True, conversionDict=conversionDict)
# ar, _ = sm.stats.inter_rater.aggregate_raters(a)
# print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
# print()
if do_contraddizione:
print("### Contraddizione")
contraddizione = {}
for file in webannoTsvs:
for annotator in webannoTsvs[file]:
relations = webannoTsvs[file][annotator].match_rel_annotations(layer="webanno.custom.ContraddizioneRelation")
for relation in relations:
subject = ""
o1 = set()
o2 = set()
if relation.governor.tokens[0].start > relation.dependent.tokens[0].start:
subject = file + "_" + str(relation.dependent.tokens[0].start).zfill(4) + "_" + str(relation.governor.tokens[0].start).zfill(4)
l = relation.dependent.tokens[len(relation.dependent.tokens) - 1].end - relation.dependent.tokens[0].start
for index in range(l):
o1.add(relation.dependent.tokens[0].start + index)
l = relation.governor.tokens[len(relation.governor.tokens) - 1].end - relation.governor.tokens[0].start
for index in range(l):
o2.add(relation.governor.tokens[0].start + index)
else:
subject = file + "_" + str(relation.governor.tokens[0].start).zfill(4) + "_" + str(relation.dependent.tokens[0].start).zfill(4)
l = relation.dependent.tokens[len(relation.dependent.tokens) - 1].end - relation.dependent.tokens[0].start
for index in range(l):
o2.add(relation.dependent.tokens[0].start + index)
l = relation.governor.tokens[len(relation.governor.tokens) - 1].end - relation.governor.tokens[0].start
for index in range(l):
o1.add(relation.governor.tokens[0].start + index)
subj = None
for s in contraddizione:
x1 = contraddizione[s]['o1'].intersection(o1)
x2 = contraddizione[s]['o2'].intersection(o2)
if len(x1) > 0 and len(x2) > 0:
subj = s
if subj is not None:
contraddizione[subj][annotator] = relation.label
contraddizione[subj]['o1'] = contraddizione[subj]['o1'].union(o1)
contraddizione[subj]['o2'] = contraddizione[subj]['o2'].union(o2)
else:
if subject not in contraddizione:
contraddizione[subject] = {}
contraddizione[subject]['o1'] = o1
contraddizione[subject]['o2'] = o2
contraddizione[subject][annotator] = relation.label
toSend = contraddizione
for s in toSend:
toSend[s].pop("o1")
toSend[s].pop("o2")
conversionDict = {'*': 1}
a = toArray(toSend, annotators, pr=True, conversionDict=conversionDict)
ar, _ = sm.stats.inter_rater.aggregate_raters(a)
print("Agreement:", sm.stats.inter_rater.fleiss_kappa(ar), len(ar))
print()