--- a
+++ b/test-resources/integration/parse.txt
@@ -0,0 +1,445 @@
+John Smith was diagnosed with liver disease while in Chicago.
+    John:
+        children=[] (list)
+        context_similarity=-1
+        cui=-1
+        cui_=-<N>-
+        definition_=-<N>-
+        dep=7037928807040764755 (int)
+        dep_=compound (str)
+        detected_name_=-<N>-
+        ent=380 (int)
+        ent_=PERSON (str)
+        ent_iob=3 (int)
+        ent_iob_=B (str)
+        i=0 (int)
+        i_sent=0 (int)
+        idx=0 (int)
+        is_concept=False
+        is_contraction=False (bool)
+        is_ent=True (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=False (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=John (str)
+        lexspan=(0, 4) (object)
+        norm=John (str)
+        norm_len=4 (int)
+        pos_=PROPN (str)
+        pref_name_=-<N>-
+        sent_i=0 (int)
+        shape=10887629174180191697 (int)
+        shape_=Xxxx (str)
+        sub_names=[]
+        tag=15794550382381185553 (int)
+        tag_=NNP (str)
+        tui_descs_=
+        tuis=frozenset()
+        tuis_=
+    Smith:
+        children=[0] (list)
+        context_similarity=1
+        cui=86418
+        cui_=C0086418
+        definition_=-<N>-
+        dep=430 (int)
+        dep_=nsubjpass (str)
+        detected_name_=smith
+        ent=380 (int)
+        ent_=PERSON (str)
+        ent_iob=1 (int)
+        ent_iob_=I (str)
+        i=1 (int)
+        i_sent=1 (int)
+        idx=5 (int)
+        is_concept=True
+        is_contraction=False (bool)
+        is_ent=True (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=False (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=Smith (str)
+        lexspan=(5, 10) (object)
+        norm=Smith (str)
+        norm_len=5 (int)
+        pos_=PROPN (str)
+        pref_name_=Homo sapiens
+        sent_i=0 (int)
+        shape=16072095006890171862 (int)
+        shape_=Xxxxx (str)
+        sub_names=('allen~james~wilcox', 'allen~j~.~wilcox', 'amar~angela~f', 'baity', 'bandoh', 'bostroem', 'carlos~arvelo', 'cotard', 'danlos', 'dr~parkes~weber', 'ehlers', 'foucauldian', 'francisco~herrera~luque', 'george~bernard~shaw', 'giuseppe~paravicini', 'hahn', 'harris', 'hilsenroth', 'homo~sapien', 'homo~sapiens', 'human', 'humanized~version', 'humans', 'human~being', 'human~beings', 'human~origin', 'human~population', 'jose~luis~vethencourt', 'jose~solane', 'jose~solanes', 'jules~cotard', 'knowles', 'lisandro~alvarado', 'max~clara', 'mmy', 'mmy~s', 'parkes~weber', 'pinel~s', 'schwartz', 'sekula~l~kathleen', 'seligman~and~maier', 'shimokawa', 'single~human~host', 'single~human~hosts', 'smith', 'stiles', 'tchernabogov', 'trump', 'trump~s')
+        tag=15794550382381185553 (int)
+        tag_=NNP (str)
+        tui_descs_=Human
+        tuis=('T016',)
+        tuis_=T016
+    was:
+        children=[] (list)
+        context_similarity=-1
+        cui=-1
+        cui_=-<N>-
+        definition_=-<N>-
+        dep=406 (int)
+        dep_=auxpass (str)
+        detected_name_=-<N>-
+        ent=0 (int)
+        ent_=-<N>- (str)
+        ent_iob=0 (int)
+        ent_iob_=O (str)
+        i=2 (int)
+        i_sent=2 (int)
+        idx=11 (int)
+        is_concept=False
+        is_contraction=False (bool)
+        is_ent=False (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=True (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=be (str)
+        lexspan=(11, 14) (object)
+        norm=was (str)
+        norm_len=3 (int)
+        pos_=AUX (str)
+        pref_name_=-<N>-
+        sent_i=0 (int)
+        shape=4088098365541558500 (int)
+        shape_=xxx (str)
+        sub_names=[]
+        tag=17109001835818727656 (int)
+        tag_=VBD (str)
+        tui_descs_=
+        tuis=frozenset()
+        tuis_=
+    diagnosed:
+        children=[1, 2, 4, 7, 10] (list)
+        context_similarity=-1
+        cui=-1
+        cui_=-<N>-
+        definition_=-<N>-
+        dep=8206900633647566924 (int)
+        dep_=ROOT (str)
+        detected_name_=-<N>-
+        ent=0 (int)
+        ent_=-<N>- (str)
+        ent_iob=0 (int)
+        ent_iob_=O (str)
+        i=3 (int)
+        i_sent=3 (int)
+        idx=15 (int)
+        is_concept=False
+        is_contraction=False (bool)
+        is_ent=False (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=False (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=diagnose (str)
+        lexspan=(15, 24) (object)
+        norm=diagnosed (str)
+        norm_len=9 (int)
+        pos_=VERB (str)
+        pref_name_=-<N>-
+        sent_i=0 (int)
+        shape=13110060611322374290 (int)
+        shape_=xxxx (str)
+        sub_names=[]
+        tag=3822385049556375858 (int)
+        tag_=VBN (str)
+        tui_descs_=
+        tuis=frozenset()
+        tuis_=
+    with:
+        children=[6] (list)
+        context_similarity=-1
+        cui=-1
+        cui_=-<N>-
+        definition_=-<N>-
+        dep=443 (int)
+        dep_=prep (str)
+        detected_name_=-<N>-
+        ent=0 (int)
+        ent_=-<N>- (str)
+        ent_iob=0 (int)
+        ent_iob_=O (str)
+        i=4 (int)
+        i_sent=4 (int)
+        idx=25 (int)
+        is_concept=False
+        is_contraction=False (bool)
+        is_ent=False (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=True (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=with (str)
+        lexspan=(25, 29) (object)
+        norm=with (str)
+        norm_len=4 (int)
+        pos_=ADP (str)
+        pref_name_=-<N>-
+        sent_i=0 (int)
+        shape=13110060611322374290 (int)
+        shape_=xxxx (str)
+        sub_names=[]
+        tag=1292078113972184607 (int)
+        tag_=IN (str)
+        tui_descs_=
+        tuis=frozenset()
+        tuis_=
+    liver:
+        children=[] (list)
+        context_similarity=-1
+        cui=-1
+        cui_=-<N>-
+        definition_=-<N>-
+        dep=7037928807040764755 (int)
+        dep_=compound (str)
+        detected_name_=-<N>-
+        ent=0 (int)
+        ent_=-<N>- (str)
+        ent_iob=0 (int)
+        ent_iob_=O (str)
+        i=5 (int)
+        i_sent=5 (int)
+        idx=30 (int)
+        is_concept=False
+        is_contraction=False (bool)
+        is_ent=False (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=False (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=liver (str)
+        lexspan=(30, 35) (object)
+        norm=liver (str)
+        norm_len=5 (int)
+        pos_=NOUN (str)
+        pref_name_=-<N>-
+        sent_i=0 (int)
+        shape=13110060611322374290 (int)
+        shape_=xxxx (str)
+        sub_names=[]
+        tag=15308085513773655218 (int)
+        tag_=NN (str)
+        tui_descs_=
+        tuis=frozenset()
+        tuis_=
+    disease:
+        children=[5] (list)
+        context_similarity=-1
+        cui=-1
+        cui_=-<N>-
+        definition_=-<N>-
+        dep=439 (int)
+        dep_=pobj (str)
+        detected_name_=-<N>-
+        ent=0 (int)
+        ent_=-<N>- (str)
+        ent_iob=0 (int)
+        ent_iob_=O (str)
+        i=6 (int)
+        i_sent=6 (int)
+        idx=36 (int)
+        is_concept=False
+        is_contraction=False (bool)
+        is_ent=False (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=False (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=disease (str)
+        lexspan=(36, 43) (object)
+        norm=disease (str)
+        norm_len=7 (int)
+        pos_=NOUN (str)
+        pref_name_=-<N>-
+        sent_i=0 (int)
+        shape=13110060611322374290 (int)
+        shape_=xxxx (str)
+        sub_names=[]
+        tag=15308085513773655218 (int)
+        tag_=NN (str)
+        tui_descs_=
+        tuis=frozenset()
+        tuis_=
+    while:
+        children=[8] (list)
+        context_similarity=-1
+        cui=-1
+        cui_=-<N>-
+        definition_=-<N>-
+        dep=443 (int)
+        dep_=prep (str)
+        detected_name_=-<N>-
+        ent=0 (int)
+        ent_=-<N>- (str)
+        ent_iob=0 (int)
+        ent_iob_=O (str)
+        i=7 (int)
+        i_sent=7 (int)
+        idx=44 (int)
+        is_concept=False
+        is_contraction=False (bool)
+        is_ent=False (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=True (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=while (str)
+        lexspan=(44, 49) (object)
+        norm=while (str)
+        norm_len=5 (int)
+        pos_=SCONJ (str)
+        pref_name_=-<N>-
+        sent_i=0 (int)
+        shape=13110060611322374290 (int)
+        shape_=xxxx (str)
+        sub_names=[]
+        tag=1292078113972184607 (int)
+        tag_=IN (str)
+        tui_descs_=
+        tuis=frozenset()
+        tuis_=
+    in:
+        children=[9] (list)
+        context_similarity=-1
+        cui=-1
+        cui_=-<N>-
+        definition_=-<N>-
+        dep=443 (int)
+        dep_=prep (str)
+        detected_name_=-<N>-
+        ent=0 (int)
+        ent_=-<N>- (str)
+        ent_iob=0 (int)
+        ent_iob_=O (str)
+        i=8 (int)
+        i_sent=8 (int)
+        idx=50 (int)
+        is_concept=False
+        is_contraction=False (bool)
+        is_ent=False (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=True (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=in (str)
+        lexspan=(50, 52) (object)
+        norm=in (str)
+        norm_len=2 (int)
+        pos_=ADP (str)
+        pref_name_=-<N>-
+        sent_i=0 (int)
+        shape=4370460163704169311 (int)
+        shape_=xx (str)
+        sub_names=[]
+        tag=1292078113972184607 (int)
+        tag_=IN (str)
+        tui_descs_=
+        tuis=frozenset()
+        tuis_=
+    Chicago:
+        children=[] (list)
+        context_similarity=1
+        cui=8044
+        cui_=C0008044
+        definition_=-<N>-
+        dep=439 (int)
+        dep_=pobj (str)
+        detected_name_=chicago
+        ent=384 (int)
+        ent_=GPE (str)
+        ent_iob=3 (int)
+        ent_iob_=B (str)
+        i=9 (int)
+        i_sent=9 (int)
+        idx=53 (int)
+        is_concept=True
+        is_contraction=False (bool)
+        is_ent=True (bool)
+        is_pronoun=False (bool)
+        is_punctuation=False (int)
+        is_space=False (bool)
+        is_stop=False (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=Chicago (str)
+        lexspan=(53, 60) (object)
+        norm=Chicago (str)
+        norm_len=7 (int)
+        pos_=PROPN (str)
+        pref_name_=chicago
+        sent_i=0 (int)
+        shape=16072095006890171862 (int)
+        shape_=Xxxxx (str)
+        sub_names=('chicago',)
+        tag=15794550382381185553 (int)
+        tag_=NNP (str)
+        tui_descs_=Geographic Area
+        tuis=('T083',)
+        tuis_=T083
+    .:
+        children=[] (list)
+        context_similarity=-1
+        cui=-1
+        cui_=-<N>-
+        definition_=-<N>-
+        dep=445 (int)
+        dep_=punct (str)
+        detected_name_=-<N>-
+        ent=0 (int)
+        ent_=-<N>- (str)
+        ent_iob=0 (int)
+        ent_iob_=O (str)
+        i=10 (int)
+        i_sent=10 (int)
+        idx=60 (int)
+        is_concept=False
+        is_contraction=False (bool)
+        is_ent=False (bool)
+        is_pronoun=False (bool)
+        is_punctuation=True (int)
+        is_space=False (bool)
+        is_stop=False (bool)
+        is_superlative=False (bool)
+        is_wh=False (bool)
+        lemma_=. (str)
+        lexspan=(60, 61) (object)
+        norm=. (str)
+        norm_len=1 (int)
+        pos_=PUNCT (str)
+        pref_name_=-<N>-
+        sent_i=0 (int)
+        shape=12646065887601541794 (int)
+        shape_=. (str)
+        sub_names=[]
+        tag=12646065887601541794 (int)
+        tag_=. (str)
+        tui_descs_=
+        tuis=frozenset()
+        tuis_=
+entities:
+    John Smith
+    Smith
+    Chicago