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[bioontology-support] Annotator help request

Trish Whetzel whetzel at
Tue Aug 17 15:09:11 PDT 2010

Hi Alf,

Thanks for pointing this out. A bug report has been entered for this  


On Aug 17, 2010, at 3:41 AM, Alf Eaton wrote:

> I've been testing the NCBO Annotator web service, and have been
> finding that the offsets it returns for annotation positions are
> incorrect: it seems to be returning offsets in characters rather than
> bytes, so the "from" and "to" positions are wrong.
> This can be seen at when
> annotating using ontology 42878 (ChEBI) and the following text:
> "an acid selected from the group consisting of hydrogen bromide,
> hydrogen chloride, sulfuric acid, phosphoric acid, nitric acid, formic
> acid, acetic acid, propionic acid, succinic acid, glycolic acid,
> lactic acid, malic acid, tartaric acid, citric acid, ascorbic acid,
> α-ketoglutaric acid, glutamic acid, aspartic acid, maleic acid,
> hydroxymaleic acid, pyruvic acid, phenylacetic acid, benzoic acid,
> p-aminobenzoic acid, anthranilic acid, p-hydroxybenzoic acid,
> salicyclic acid, hydroxyethanesulfonic acid, ethylenesulfonic acid,
> halobenzenesulfonic acid, toluenesulfonic acid, naphthalenesulfonic
> acid, methanesulfonic acid and sulfanilic acid"
> (after the α of α-ketoglutaric acid, annotations are offset to the
> right because the α character is two bytes long).
> If this could be fixed, that would be great - at the moment the
> annotator's not really usable for anything containing Unicode
> characters (which are very common in scientific documents).
> Thanks,
> alf
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