Hi Peter, As yesterday the RUTA 2.5 release was announced (congrats :) ) and the end of the month is near: do you see chances to work on the ticket for feature structure support?
Best, Sebastian ----- Ursprüngliche Mail ----- Von: "Sebastian Schaaf" <sebastian.sch...@scai.fraunhofer.de> An: "user" <user@uima.apache.org> Gesendet: Mittwoch, 14. September 2016 22:08:39 Betreff: Re: RUTA in Java: access object contents Sounds great, thank you in advance! Whatever comes up, don't hesitate to query back to us. Cheers, Sebastian ----- Ursprüngliche Mail ----- Von: "Peter Klügl" <peter.klu...@averbis.com> An: "user" <user@uima.apache.org> Gesendet: Mittwoch, 14. September 2016 18:33:56 Betreff: Re: RUTA in Java: access object contents Hi, I created an issue for it: https://issues.apache.org/jira/browse/UIMA-5108 I won't be able to fix it this week, and maybe not next week because of some deadlines. I guess it will be fixed at least in the trunk before of the end of the month. Best, Peter Am 14.09.2016 um 18:25 schrieb Sebastian Schaaf: > Hi Peter, > > Indeed, I was talking about UIMA objects. > > We tried to hunt down the error in deeper means and understood more of the > codes. Ahead of any details: again yes, we fail on types extending from TOP. > In our case it is "concept", which does not have a covering text. > > In "SimpleFeatureEx", the public method "getFeatures" contains a for loop in > which the different handleable cases are listed in some 'if else' cascade - > this one also contains the support for arrays you wrote about. For our > concept type the else case holds, so that an UIMA method > "getFeatureByBaseName" gets called. This one fails, because it checks if the > extracted feature comes from a type that extends from the type we want to use > the feature content for. In other words: our NormalizedNamedEntity type > (extending from Annotation) is queried for a feature contained in an instance > of type concept. As the latter one extends from TOP (and not from > NormalizedNamedEntity) getFeatureByBaseName throws the error. Although the > desired content is fine (we get the string we want!). > > We also tried to manipulate types, temporarily declaring concept extends > legally, so that this check does not fail. And it is fine. For the moment, > because regarding our environment this is not an option. Testing with ruta > source codes to implement ourselves resulted in many lines of code to be > subject to adaptation. Also, the variable 'result' in the discussed for loop > may be changed in an inadequate way . we don't know about the details of RUTA. > > So, the question is may it be possible for you to implement the handling of > cases where features extend from TOP? Maybe first as a patch, so that it has > not to be integrated into your release. And we could test whether it fails in > our setting. > > So far, > Best, > > Sebastian > > ----- Ursprüngliche Mail ----- > Von: "Peter Klügl" <peter.klu...@averbis.com> > An: "user" <user@uima.apache.org> > Gesendet: Montag, 12. September 2016 13:26:07 > Betreff: Re: RUTA in Java: access object contents > > Hi, > > > first of all: what do you mean exactly by "our objects" and "given Java > objects"? Real Java objects of some arbitrary class or feature > structures (annotations) in UIMA? I assume that you were referring to > UIMA objects and the getters are the getters of features in JCasGen > cover classes. If not, you can skip the answer below ;-) > > > What you describe that should work just fine, if there weren't the > feature structures (the types extending TOP). Plain feature structures > are hardly supported in Ruta mainly for historical reasons. And many > language elements do not make much sense without annotation offsets, > e.g., sequential matching, conditions like contains and partof, ... > > > There is no real technical reason that feature structures are not > completely supported, there was just no reason to support them. I > personally just extended Annotation instead of Feature Structure even if > there was no explicit semantics of the offsets. This is of course not an > option if you already have a type system. > > > I actually have to admit that I do not know right now where feature > structures are and are not supported in Ruta. I added some minimal > support for Arrays lately, and they are also just feature structures. I > have to take a look... > > > Back to your example: > > If you have > > - Type X extends Annotation with feature a with range A > > - Type A extends TOP with feature b with range B > > - Type B extends TOP with feature z with range String > > ... you would normally write: > > X.a.b.z=="z"; > > to match on each annotation of type X, get the value of feature a of > annotation X, get the value of feature b of the feature structure of > type A, get the value of feature z of the feature structure of the type > B, and compare it to the string "z". > > > The short answer is that you can access the getter just with the name of > the feature. > > > If this simple example does not work, then the reason is probably a > simple instanceof comparing the feature structure to AnnotationFS. > Allowing feature structures in feature expression only should not be > much work. > > > Do you want me to add this support in Ruta? However, I cannot promise > that the changes will be part of the upcoming release. > > > Best, > > > Peter > > > Am 12.09.2016 um 09:42 schrieb Sebastian Schaaf: >> Dear all, >> >> As we needed to integrate a rule-based analysis engine into our UIMA >> framework, we ended up using RUTA. The package was encouraging, we >> proceeded well with projecting our ideas into RUTA (thanks to the >> comprehensive documentation). >> >> We also saw that there are efforts to offer RUTA in plain Java code >> for developers, ignoring the delivered workbench. We could integrate >> it well with our modified type system, it is finally running. But, >> and that's the reason for this email, currently we are stuck with >> extracting some information from our objects, which is not >> represented as simple feature. Leaving out the option to introduce >> major changes to our codes and not liking the idea of permanent >> workarounds, we were wondering if (and if not maybe when) there is >> the possibility to generically call methods on given Java objects. >> Precisely, we have objects with attributes being (linked from other) >> objects, plus respective getter methods. So, the information we need >> from our objects is retrievable by calling a getter X.getA, resulting >> in (background) object A which in turn knows a method .getB, >> resulting in the desired B (or more precisely: its string Z): >> >> ### Example ### >> Type X (extends Annotation, has offsets) >> Type A (extends TOP, has no offsets) >> Type B (extends TOP, has no offsets) >> String Z >> >> How to call "X.getA().getB().getZ()"? >> ############## >> >> It appeared that RUTA is capable by some whatever (UIMA-?)magic to >> get e.g. the covered text of a text annotation by "X.coveredText", >> although the object only knows a "getCoveredText" method. Let's call >> it a 'pseudo-feature'. No idea how generic this is, but: if just >> querying "X.A" RUTA seems to do well, ultimately receiving A. While A >> is an object (simple data type expected, like integer and string?) >> everything stops. So no obvious chance to receive our B. >> >> Is there an easy, somewhat 'native' way to deal with object-derived >> data like in the case described above? >> >> Thanks in advance! >> >> Sebastian >> >> >> --- >> Sebastian Schaaf, M.Sc. Bioinformatics >> >> Fraunhofer-Institute for Algorithms and Scientific Computing (SCAI) >> Department of Bioinformatics >> Schloss Birlinghoven >> D-53754 Sankt Augustin >> >> Room: C3-233 >> Tel.: +49 2241 14 2280 >> Email: sebastian.sch...@scai.fraunhofer.de >> Internet: http://www.scai.fraunhofer.de/ >>
