There are a number of incomplete definitions

[matentzn]

Check for example:

[Term]
id: MONDO:0014044
name: dysmorphism-conductive hearing loss-heart defect syndrome
def: "#64258;at nares, Cupid's bow upper lip vermilion, and small, low-set, posteriorly rotated ears), in addition to cleft palate, conductive hearing loss, heart defects (atrial or ventricular septal defect) and mild developmental delay/intellectual disability." [Orphanet:289553]

[Term]
id: MONDO:0016015
name: phenobarbital embryopathy
def: "#64257;nger hypoplasia, brachydactyly and hypospadias have been reported in rare cases." [Orphanet:1919]

[Term]
id: MONDO:0017810
name: variant ABeta2M amyloidosis
def: "#946;2M) leading to progressive gastrointestinal dysfunction, SjC6gren syndrome (see this term) and autonomic neuropathy." [Orphanet:314652]
subset: ordo_disease {source="Orphanet:314652"}

[Term]
id: MONDO:0018495
name: X-linked intellectual disability-limb spasticity-retinal dystrophy-diabetes insipidus syndrome
def: "#945;-fetoprotein and intrauterine growth restriction is observed in routine pregnancy examination." [Orphanet:423479]
subset: ordo_disease {source="Orphanet:423479"}

[Term]
id: MONDO:0018956
name: idiopathic bronchiectasis
def: "#160;(IB) is a progressive lung disease characterized by chronic dilation of the bronchi and destruction of the bronchial walls in the absence of any underlying cause (such as post infectious disease, aspiration, immunodeficiency, congenital abnormalities and ciliary anomalies)." [Orphanet:60033]
subset: ordo_disease {source="Orphanet:60033"}

[Term]
id: MONDO:0019450
name: lissencephaly with cerebellar hypoplasia
def: "-3 SD). LCH is characterized by cerebellar underdevelopment ranging from vermian hypoplasia to total aplasia with classical or cobblestone lissencephaly. The phenotypic features of LCH include small head circumference (between -2 and -3 standard deviations (SD) forage) at birth and postnatally, moderate to severe intellectual disability, hypotonia and spasticity. Seizures are often observed and infantile spasms have been reported in some rare cases. LCH has been classified into six subgroups according to neuroradiographic properties and are classified LCH type A to F." [Orphanet:86823]
subset: ordo_group_of_disorders {source="Orphanet:86823"}

[Term]
id: MONDO:0011045
name: MMEP syndrome
def: "; 6q21) has been shown to play a causative role in MMEP, although this was not confirmed in recent studies." [Orphanet:3434]
subset: ordo_malformation_syndrome {source="Orphanet:3434"}

There are a few more but we can start with these.

[matentzn]

My suspicion is that during the ingest of ORDO, some definitions are cut off at weird characters.. (@cmungall)

[nicolevasilevsky]

yes - that is what I just commented on your PR :)

[nicolevasilevsky]

should I manually fix these, or can we automate this?

[matentzn]

Some things could also just be a bit easier... grrrr.. ;) I cant work on automating this. Just close the PR and we will work on this later this year.

[nicolevasilevsky]

I can work on this - I'll manually fix them, it won't take me too long.

[matentzn]

Lets not do that better.. There are way too many. 300...

[matentzn]

Or more! I will try to figure out how to build a pipeline that replaces ordo definitions with their up-to-date non broken counterparts.

[nicolevasilevsky]

Ok! I won't try to fix it manually then :)

[nicolevasilevsky]

marking as blocked, so I know this isn't something I need to do right now

[matentzn]

I actually unassigned you know

[nicolevasilevsky]

Ah, okay! I removed the label :)