BaseX-Talk

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9 participants
5241 discussions

Problem with using XInclude in BaseX
by Virgile Reignier 03 Apr '23

03 Apr '23

Bonjour, Je me permets de vous contacter dans le cadre de mon doctorat en histoire médiévale. Je souhaiterai en effet organiser le dépouillement de mes archives à l'aide d'une base de données en XML en utilisant le logiciel BaseX, mais je suis face à une difficulté que je n'arrive pas à surmonter dans son utilisation. Cette difficulté est liée à l'utilisation de la balise <xi:include>. J'ai tenté de produire un exemple minimaliste avec deux fichiers dans un même répertoire pour voir ce qui ne marche pas : file music.xml : <musique xmlns:xi="http://www.w3.org/2001/XInclude"> <titre>Smoke on the water</titre> <artiste>Deep Purple</artiste> <xi:include href="label.xml"/> </musique> file label.xml : <label>Purple Records</label> Alors que ces deux fichiers sont décrits comme valides par Oxygen, l'importation du fichier music.xml avec BaseX (que ce soit avec l'interface DBA ou l'interface GUI) génère systématiquement l'erreur suivante : "An include with href 'label.xml'failed, and no fallback element was found". Je peux en revanche importer le fichier dans la base de données via Oxygen et l'utilisation du WebDAV de BaseX, mais le fichier est alors indiqué comme étant de type "binary" et est absolument inemployable pour réaliser des requêtes. J'ai pourtant tenté de réaliser la requête suivante au sein de ma DB dans BaseX GUI, ce qui n'a pas renvoyé d'erreurs : declare namespace xi = "http://www.w3.org/2001/XInclude"; xi:include J'ai également tenté de charger ces mêmes fichiers dans eXist DB, et l'inclusion s'est réalisée sans problèmes. Je ne comprends donc pas ce qui ne va pas avec l'utilisation de XInclude dans BaseX. Est-ce qu'il y a un problème avec la résolution des URI ? Je travaille sous Windows 10 (j'ai aussi fait des tests sur Ubuntu et obtenu le même résultat), BaseX 10.4 et Java 1.8.0_361. Est-ce que c'est quelque chose qui vous est déjà arrivé ? J'ai essayé de chercher dans les archives mail de basex-talk et trouvé quelques problèmes similaires, mais qui ont été résolus par l'emploi de BaseX GUI. Or chez moi cela marche aussi mal avec GUI qu'avec DBA. Je peux transférer mon travail sur eXist DB, mais j'avoue m'être assez familiarisé avec BaseX et souhaiterai rester sur ce logiciel tant que possible. Je suis donc preneur de toutes vos propositions. En vous remerciant par avance pour vos réponses, Bien cordialement, Virgile Reignier Hello, I am contacting you as part of my PhD in medieval history. I would like to organise the analysis of my archives with the help of an XML database using the BaseX software, but I am encountering a difficulty that I cannot overcome in its use. This difficulty is related to the use of the <xi:include> tag. I tried to produce a minimalist example with two files in the same directory to see what goes wrong: file music.xml : <musique xmlns:xi="http://www.w3.org/2001/XInclude"> <titre>Smoke on the water</titre> <artiste>Deep Purple</artiste> <xi:include href="label.xml"/> </musique> file label.xml : <label>Purple Records</label> While both files are described as valid by Oxygen, importing the music.xml file with BaseX (either with the DBA interface or the GUI interface) consistently generates the following error: "An include with href 'label.xml'failed, and no fallback element was found". I can import the file into the database via Oxygen and the use of BaseX WebDAV, but the file is then indicated as being of type "binary" and is absolutely unusable for queries. However, I tried to perform the following query within my DB in BaseX GUI, which did not return any errors: declare namespace xi = "http://www.w3.org/2001/XInclude"; xi:include I also tried to load these same files into eXist DB, and the inclusion was successful. So I don't understand what is wrong with using XInclude in BaseX. Is there a problem with URI resolution? I'm working on Windows 10 (I also tested on Ubuntu and got the same result), BaseX 10.4 and Java 1.8.0_361. Is this something that has happened to you before? I tried to search the basex-talk mail archives and found some similar problems, but they were solved by using BaseX GUI. However, in my case it works just as badly with GUI as with DBA. I can transfer my work to eXist DB, but I have become quite familiar with BaseX and would like to stay with it as long as possible. I am therefore interested in any suggestions you may have. Thank you in advance for your answers, Virgile Reignier

4 16

Potential bug in GUI, Unit Tests
by Zimmel, Daniel 01 Apr '23

01 Apr '23

Hi, while I am trying to find my way around the Unit Module, I noticed the following unexpected behavior. 0. Using the test example from https://docs.basex.org/wiki/Unit_Module#Query in the GUI 1. changes that are not saved to disk do not get respected - as opposed to other queries 2. pressing the default button for running queries executes the most recent query which is open in another tab While 1 might not be a bug , 2 feels like one (a query fires that is not displayed on the current tab) BaseX 10.3 Bye, Daniel

2 3

Automated testing for XML databases
by Shuxin Li 30 Mar '23

30 Mar '23

Greetings! I'm Shuxin, an undergraduate CS student, who is currently an intern at NUS Test lab. I’ve been working on an automated testing tool for XML processors and databases. My goal is to find bugs in important systems, in order to improve these systems’ reliability. In the past few days, I submitted a few bug reports on Github (Github id: Twilight-Shuxin). Thanks for having already fixed these! I would like to ask whether you find these reports useful and would also appreciate future reports if I find more bugs? Any feedback for us is highly appreciated. We also plan to open-source this tool for public usage after it's fully realized, and truly hope that it might be of help to the community. Thanks! Best Regards, Shuxin Li

5 6

Database Query in RESTXQ function
by Alexander Krasnogolowy 29 Mar '23

29 Mar '23

Hi, given the following RESTXQ function: declare %rest:path("/myrest/{$db}") %rest:GET %output:method("xhtml") %output:omit-xml-declaration("no") %output:doctype-public("-//W3C//DTD XHTML 1.0 Transitional//EN") %output:doctype-system("http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd") function page:html($db as xs:string) { <html xmlns="http://www.w3.org/1999/xhtml"> <body> Database creation date: {db:info("NB")/databaseproperties/timestamp/text()}<br/> </body> </html> }; The website returns "Database creation date: " (without a timestamp) If I put that into a function: declare function page:getDBTimestamp($db as xs:string) { db:info($db)/databaseproperties/timestamp/text() }; and call it in the page: <body> Database creation date: {page:getDBTimestamp($db)}<br/> </body> then I can see the timestamp. Can somebody explain to my why it makes a difference and why I cannot query the database directly from the RESTXQ function? Alex

4 6

collection('i_do_not_exist')/users/user[@name=()] is () even if i_do_not_exist does not exit
by Omar Siam 23 Mar '23

23 Mar '23

Hi, Either I found an interesting new XQuery feature or a bug: collection('i_do_not_exist')/some/path[@attr=()] retruns the empty sequence whereas collection('i_do_not_exist')/some/path throws an error err:FODC0002 so does collection('i_do_not_exist')/some/path[@attr="i_am_an_attr"] Am I missing something? Best regards, -- Mag. Ing. Omar Siam Austrian Center for Digital Humanities and Cultural Heritage Österreichische Akademie der Wissenschaften | Austrian Academy of Sciences Stellvertretende Behindertenvertrauensperson | Deputy representative for disabled persons Bäckerstraße 13, 1010 Wien, Österreich | Vienna, Austria T: +43 1 51581-7295 omar.siam(a)oeaw.ac.at | www.oeaw.ac.at/acdh

2 3

Issue with the Java 11 XML Catalog API and xsl:import/xsl:include
by Imsieke, Gerrit, le-tex 22 Mar '23

22 Mar '23

Hi, We experience an issue with the new catalog resolver when importing or including XSLT from another, possibly already catalog-resolved, XSLT file. If you unzip attached catalog_test.zip and set the catalog location by a pragma around xsl.xq or by set BASEX_JVM="-Dorg.basex.catalog=../catalog_test/xmlcatalog/catalog.xml" prior to invoking basexgui.bat or bin\basex.bat ..\catalog_test\xsl.xq, you will get an exception Improper use? Potential bug? Your feedback is welcome: Contact: basex-talk(a)mailman.uni-konstanz.de Version: BaseX 10.4 Java: Eclipse Adoptium, 17.0.4.1 OS: Windows 11, amd64 Stack Trace: javax.xml.catalog.CatalogException: JAXP09040002: No match found for href 'other.xsl' and base 'file:/C:/Users/gerrit/Dev/catalog_test/xsl/imported.xsl'. … If I use Norm’s resolver by putting xmlresolver-5.1.1.jar and xmlresolver-5.1.1-data.jar into lib/custom, I get the expected result <result status="ok"><doc>other.xsl was imported!</doc></result> Therefore the issue isn’t urgent. We just use Norm’s resolver. Should I file an issue on Github? Gerrit -- Gerrit Imsieke Geschäftsführer / Managing Director le-tex publishing services GmbH Weissenfelser Str. 84, 04229 Leipzig, Germany Phone +49 341 355356 110, Fax +49 341 355356 510 gerrit.imsieke(a)le-tex.de, http://www.le-tex.de Registergericht / Commercial Register: Amtsgericht Leipzig Registernummer / Registration Number: HRB 24930 Geschäftsführer / Managing Directors: Gerrit Imsieke, Svea Jelonek, Thomas Schmidt

2 3

erreur librairies Saxon 11 avac BaseX 10.4
by Maud Ingarao (IHRIM - ENS de Lyon) 20 Mar '23

20 Mar '23

Bonjour à tous et toutes, En passant de BaseX 10.3 à BaseX 10.4, nous avons l'erreur ci-dessous. Quelque chose ne va pas avec les librairies XSLT Saxon.... Si nous mettons les anciennes librairies Saxon 9 à la place des librairies Saxon 11, l'erreur disparaît. Nous aimerions pouvoir utiliser les librairies les plus récentes. Merci de vos conseils :-) Amitiés, Maud HTTP ERROR 500 javax.xml.transform.TransformerFactoryConfigurationError: Provider net.sf.saxon.TransformerFactoryImpl could not be instantiated: java.lang.reflect.InvocationTargetException URI: /accueil STATUS: 500 MESSAGE: javax.xml.transform.TransformerFactoryConfigurationError: Provider net.sf.saxon.TransformerFactoryImpl could not be instantiated: java.lang.reflect.InvocationTargetException SERVLET: RESTXQ CAUSED BY: javax.xml.transform.TransformerFactoryConfigurationError: Provider net.sf.saxon.TransformerFactoryImpl could not be instantiated: java.lang.reflect.InvocationTargetException CAUSED BY: java.lang.reflect.InvocationTargetException CAUSED BY: java.lang.NoClassDefFoundError: org/xmlresolver/Resolver Caused by: javax.xml.transform.TransformerFactoryConfigurationError: Provider net.sf.saxon.TransformerFactoryImpl could not be instantiated: java.lang.reflect.InvocationTargetException at java.xml/javax.xml.transform.FactoryFinder.newInstance(FactoryFinder.java:181) at java.xml/javax.xml.transform.FactoryFinder.find(FactoryFinder.java:212) at java.xml/javax.xml.transform.TransformerFactory.newInstance(TransformerFactory.java:126) at org.basex.query.func.xslt.XsltTransform.transform(XsltTransform.java:70) at org.basex.query.func.xslt.XsltTransform.item(XsltTransform.java:36) at org.basex.query.expr.If.item(If.java:165) at org.basex.query.expr.DualMap.value(DualMap.java:82) at org.basex.query.expr.If.value(If.java:160) at org.basex.query.expr.If.value(If.java:160) at org.basex.query.expr.gflwor.GFLWOR.value(GFLWOR.java:92) at org.basex.query.func.StaticFunc.invokeInternal(StaticFunc.java:162) at org.basex.query.func.XQFunction.invoke(XQFunction.java:33) at org.basex.query.func.FuncCall.value(FuncCall.java:54) at org.basex.query.expr.ParseExpr.iter(ParseExpr.java:46) at org.basex.query.expr.constr.Constr.add(Constr.java:72) at org.basex.query.up.expr.Replace.item(Replace.java:49) at org.basex.query.expr.ParseExpr.value(ParseExpr.java:51) at org.basex.query.expr.If.value(If.java:160) at org.basex.query.expr.gflwor.GFLWOR.value(GFLWOR.java:92) at org.basex.query.expr.ParseExpr.item(ParseExpr.java:56) at org.basex.query.expr.If.item(If.java:165) at org.basex.query.expr.ItemMap.item(ItemMap.java:37) at org.basex.query.expr.ParseExpr.value(ParseExpr.java:51) at org.basex.query.expr.gflwor.GFLWOR.value(GFLWOR.java:92) at org.basex.query.expr.List.value(List.java:228) at org.basex.query.up.expr.TransformWith.value(TransformWith.java:74) at org.basex.query.expr.IterMap.value(IterMap.java:106) at org.basex.query.expr.gflwor.GFLWOR.value(GFLWOR.java:92) at org.basex.query.func.StaticFunc.invokeInternal(StaticFunc.java:162) at org.basex.query.func.XQFunction.invoke(XQFunction.java:33) at org.basex.query.func.FuncCall.value(FuncCall.java:54) at org.basex.query.expr.gflwor.Let$LetEval.next(Let.java:146) at org.basex.query.expr.gflwor.GFLWOR.value(GFLWOR.java:92) at org.basex.query.expr.List.value(List.java:228) at org.basex.query.up.expr.TransformWith.value(TransformWith.java:74) at org.basex.query.expr.IterMap.value(IterMap.java:106) at org.basex.query.expr.gflwor.GFLWOR.value(GFLWOR.java:92) at org.basex.query.func.StaticFunc.invokeInternal(StaticFunc.java:162) at org.basex.query.func.XQFunction.invoke(XQFunction.java:33) at org.basex.query.func.FuncCall.value(FuncCall.java:54) at org.basex.query.expr.gflwor.GFLWOR.value(GFLWOR.java:92) at org.basex.query.expr.Try.value(Try.java:93) at org.basex.query.expr.TypeCheck.value(TypeCheck.java:167) at org.basex.query.func.StaticFunc.invokeInternal(StaticFunc.java:162) at org.basex.query.func.XQFunction.invoke(XQFunction.java:33) at org.basex.query.func.FuncCall.value(FuncCall.java:54) at org.basex.query.expr.ParseExpr.iter(ParseExpr.java:46) at org.basex.query.scope.MainModule.iter(MainModule.java:48) at org.basex.query.QueryContext.lambda$4(QueryContext.java:354) at org.basex.query.QueryContext.run(QueryContext.java:763) at org.basex.query.QueryContext.iter(QueryContext.java:354) at org.basex.http.restxq.RestXqResponse.serialize(RestXqResponse.java:78) at org.basex.http.web.WebResponse.create(WebResponse.java:58) at org.basex.http.restxq.RestXqServlet.run(RestXqServlet.java:72) at org.basex.http.BaseXServlet.service(BaseXServlet.java:69) at javax.servlet.http.HttpServlet.service(HttpServlet.java:790) at org.eclipse.jetty.servlet.ServletHolder$NotAsync.service(ServletHolder.java:1450) at org.eclipse.jetty.servlet.ServletHolder.handle(ServletHolder.java:799) at org.eclipse.jetty.servlet.ServletHandler.doHandle(ServletHandler.java:554) at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:143) at org.eclipse.jetty.security.SecurityHandler.handle(SecurityHandler.java:600) at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127) at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:235) at org.eclipse.jetty.server.session.SessionHandler.doHandle(SessionHandler.java:1624) at org.eclipse.jetty.server.handler.ScopedHandler.nextHandle(ScopedHandler.java:233) at org.eclipse.jetty.server.handler.ContextHandler.doHandle(ContextHandler.java:1440) at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:188) at org.eclipse.jetty.servlet.ServletHandler.doScope(ServletHandler.java:505) at org.eclipse.jetty.server.session.SessionHandler.doScope(SessionHandler.java:1594) at org.eclipse.jetty.server.handler.ScopedHandler.nextScope(ScopedHandler.java:186) at org.eclipse.jetty.server.handler.ContextHandler.doScope(ContextHandler.java:1355) at org.eclipse.jetty.server.handler.ScopedHandler.handle(ScopedHandler.java:141) at org.eclipse.jetty.server.handler.HandlerWrapper.handle(HandlerWrapper.java:127) at org.eclipse.jetty.server.Server.handle(Server.java:516) at org.eclipse.jetty.server.HttpChannel.lambda$handle$1(HttpChannel.java:487) at org.eclipse.jetty.server.HttpChannel.dispatch(HttpChannel.java:732) at org.eclipse.jetty.server.HttpChannel.handle(HttpChannel.java:479) at org.eclipse.jetty.server.HttpConnection.onFillable(HttpConnection.java:277) at org.eclipse.jetty.io.AbstractConnection$ReadCallback.succeeded(AbstractConnection.java:311) at org.eclipse.jetty.io.FillInterest.fillable(FillInterest.java:105) at org.eclipse.jetty.io.ChannelEndPoint$1.run(ChannelEndPoint.java:104) at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.runTask(EatWhatYouKill.java:338) at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.doProduce(EatWhatYouKill.java:315) at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.tryProduce(EatWhatYouKill.java:173) at org.eclipse.jetty.util.thread.strategy.EatWhatYouKill.run(EatWhatYouKill.java:131) at org.eclipse.jetty.util.thread.ReservedThreadExecutor$ReservedThread.run(ReservedThreadExecutor.java:409) at org.eclipse.jetty.util.thread.QueuedThreadPool.runJob(QueuedThreadPool.java:883) at org.eclipse.jetty.util.thread.QueuedThreadPool$Runner.run(QueuedThreadPool.java:1034) at java.base/java.lang.Thread.run(Thread.java:829) Caused by: java.lang.reflect.InvocationTargetException at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62) at java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) at java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:490) at java.xml/javax.xml.transform.FactoryFinder.newInstance(FactoryFinder.java:169) ... 88 more Caused by: java.lang.NoClassDefFoundError: org/xmlresolver/Resolver at net.sf.saxon.lib.CatalogResourceResolver.<init>(CatalogResourceResolver.java:46) at net.sf.saxon.Configuration.init(Configuration.java:366) at net.sf.saxon.Configuration.<init>(Configuration.java:229) at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method) at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62) at java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45) at java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:490) at java.base/java.lang.Class.newInstance(Class.java:584) at net.sf.saxon.Configuration.newConfiguration(Configuration.java:245) at net.sf.saxon.s9api.Processor.<init>(Processor.java:69) at net.sf.saxon.jaxp.SaxonTransformerFactory.<init>(SaxonTransformerFactory.java:59) at net.sf.saxon.TransformerFactoryImpl.<init>(TransformerFactoryImpl.java:42)

2 2

Progress bar (again)
by Zimmel, Daniel 16 Mar '23

16 Mar '23

Hey, I have a task that may take longer to execute (several minutes), so I felt I got to have a fancy progress bar on the command line to entertain me. No progress bar though, found this in the archives: https://mailman.uni-konstanz.de/pipermail/basex-talk/2020-November/015845.h… So this is the closest I got (running BaseX from an Ant task): xquery_update_db: [echo] XQuery Update (Database) wird ausgeführt: xquery/basex.reduce.xquery [apply] EXPORTER: omit-xml-declaration=no [apply] Database 'DEBUGX' was opened in 113.62 ms. [apply] "FORTSCHRITT: 0%" [apply] "FORTSCHRITT: *****5%" [apply] "FORTSCHRITT: **********10%" [apply] "FORTSCHRITT: ***************15%" [apply] "FORTSCHRITT: ********************20%" [apply] "FORTSCHRITT: *************************25%" While I am happy enough with this (it is quite accurate and I like the dramatically mounting effect), can anyone say what might be needed to implement this as a module? Daniel

2 4

"class file versions" discrepancy
by Murray, Gregory 15 Mar '23

15 Mar '23

Hello, I’m new to BaseX. I’m on a Mac with an Apple M1 chip, running macOS 12.6.3. I downloaded the ZIP distribution of BaseX. When I open BaseX.jar I get an error message saying to check the console. When I run basexgui at the command line, I get this error: Exception in thread "main" java.lang.UnsupportedClassVersionError: org/basex/BaseXGUI has been compiled by a more recent version of the Java Runtime (class file version 55.0), this version of the Java Runtime only recognizes class file versions up to 52.0 I updated Java to the latest version, according to the download page at java.com and according to the Update tab in the Java control panel in System Preferences. Running java -version returns this: java version "1.8.0_361" Java(TM) SE Runtime Environment (build 1.8.0_361-b09) Java HotSpot(TM) 64-Bit Server VM (build 25.361-b09, mixed mode) However, I am still getting the same error when running basexgui. Is there a trick or workaround for this? Thanks, Greg

3 5

Formatting attributes as an indented list?
by Patrick Durusau 07 Mar '23

07 Mar '23

Greetings! I've been tasked with using BaseX to produce: ***** <wg class="cl" rule="S-IO" cltype="VerbElided"> <wg rule="NpaNp" role="s"> <wg type="group" appositioncontainer="true" rule="Np-Appos"> <w ref="PHM 1:1!1" after=" " class="noun" gbiType="proper" xml:id="n57001001001" lemma="Παῦλος" normalized="Παῦλος" strong="3972" number="singular" gender="masculine" case="nominative" gloss="Paul" domain="093001" ln="93.294a" morph="N-NSM" unicode="Παῦλος">Παῦλος</w> ***** The indenting is easy enough and I can even make it deeper if required but is there a command for serialization that will properly format the attributes? My personal suspicion is that inserting \n when each attribute is serialized (and not on the last one) is the easier route but I promised to investigate the command line. Have I overlooked something in the very fine manual? Hope everyone is having a great week! Patrick -- Patrick Durusau patrick(a)durusau.net Technical Advisory Board, OASIS (TAB) Editor, OpenDocument Format TC (OASIS), Project Editor ISO/IEC 26300 Co-Editor, ISO/IEC 13250-1, 13250-5 (Topic Maps) Another Word For It (blog): http://tm.durusau.net Homepage: http://www.durusau.net Twitter: patrickDurusau

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