Re: [proteowizard-support] Term location and naming issues in mzML

[Matt C. <mat...@gm...>]

Hi Chris,

I just committed the fix for this. Thanks for persevering. :)

I wish you OpenMS guys would wrap up your semantic validator in a statically linked executable 
either for Linux or Windows and then we could automatically run it with our continuous integration 
tests on TeamCity. Last I checked the validator wasn't easy to separate from the rest of OpenMS... 
but I admit that was a while ago.

Thanks,
-Matt


On 10/23/2013 8:07 AM, Chris Bielow wrote:
>
> Dear PWiz team,
>
> I recently bugged you with a constant neutral loss issue, which was solved very quickly. Thanks again!
>
> Now that I’m fixing some loose ends on the pipeline which uses this data I came across an 
> inconsistency which I thought you should be aware of:
>
> [Term]
>
> id: MS:1000803
>
> name: analyzer scan offset
>
> def: "Offset between two analyzers in a constant neutral loss or neutral gain scan. The value 
> corresponds to the neutral loss or neutral gain value." [PSI:MS]
>
> xref: value-type:xsd\:float "The allowed value-type for this CV term."
>
> is_a: MS:1000503 ! scan attribute
>
> relationship: has_units MS:1000040 ! m/z
>
> Is currently written by msconvert as child of “<spectrum>”, not “<scan>”.
>
> This currently prevents OpenMS from reading the value correctly, so that I have to maintain a 
> local workaround.
>
> Can this be fixed?!
>
> Cheers
>
> Chris
>