Wrong regular expression for enzyme in mzid 1.2 export

[julianu]

The regular expression in the mzid export for trypsin right now (v2024.01) is exported as
((?<=[KR]) (?!P))

This though is incorrect, as it contains a blank and thus does not match the cleavage sites (at least not in common regex interpreters in Python, Java, etc on regex101.com and in my code) . Also, the outside parentheses are probably unnecessary. I only tested trypsin right now, but this might also be a problem with other enzymes.

For the more common enzymes listed in the PSI ontology, it would also be great to export the more complete form like:

<Enzyme nTermGain="H" cTermGain="OH" semiSpecific="false" id="enzyme_1_1">
    <SiteRegexp>(?&lt;=[KR])(?!P)</SiteRegexp>
    <EnzymeName>
        <cvParam cvRef="PSI-MS" accession="MS:1001251" name="Trypsin"/>
    </EnzymeName>
</Enzyme>

[jke000]

Julian, thanks for reporting this. I removed the extra blank space with commit 754514f. This will be available on the next Comet maintenance release which I'll likely make in the next few weeks to address this and the other issues that were recently posted. I'll also go add the complete form for the common enzymes before the next release.