Search Mailing List Archives


Limit search to: Subject & Body Subject Author
Sort by: Reverse Sort
Limit to: All This Week Last Week This Month Last Month
Select Date Range     through    

[bioontology-support] Annotator help request

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


Hi Alf,

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

Trish


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 http://bioportal.bioontology.org/annotator 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
> _______________________________________________
> bioontology-support mailing list
> bioontology-support at lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/bioontology-support




More information about the bioontology-support mailing list