BaseX-Talk

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4 participants
5268 discussions

Stemming in BaseX Full-Text
by Tim Thompson 27 Apr '22

27 Apr '22

I'm currently involved in a project that's using MarkLogic, and I noticed that its implementation of English-language stemming differs from that of BaseX: e.g., "mouse" and "mice" both stem to "mouse." In BaseX, those words are stemmed separately. Is this a known limitation of the internal English syntax parser? Example: db:create("stem-test", <data> <x>mouse</x> <y>mice</y> </data> , "data", map {"ftindex": true(), "stemming": true(), "language": "en"} ) , update:output( ft:search("stem-test", "mice") ) Thanks, Tim -- Tim A. Thompson (he, him) Librarian for Applied Metadata Research Yale University Library

3 7

Using error and catch for error paths in REST API endpoint code
by Omar Siam 27 Apr '22

27 Apr '22

Way too often I saw myself and my colleagues write huge, very hard to understand deeply nested if () then else code to handle any control path but the complete success one in RestXQ code. [1] is an example of such code even though it uses the module I want to introduce here. It seems I didn’t have time to refactor it yet. To add insult to injury the code producing a 500, 404, 403, 401, 302 or maybe even 201 response code was * neither short nor very uniform and * would respond to the browser with XML/XHTML or JSON or text but in most situations the format the browser side had the hardest time to handle For example [2] delivers an XHTML message no matter what the Accept header says and although it is an accurate message to a user, very similar XML snippets are found throughout that unit and maybe need to be adapted each separately if the HTML needs to updated. My XML snippets CRUD API started as a port of an apigility (now laminas api-tools [3]) API working with a relational backend to store XML snippets to something that does the same but just uses BaseX for any data storage and is much better at querying using sophisticated XPaths. So from that previous API I learned about RFC 7807. [4] RFC 7807 “Problem Details for HTTP APIs” [5] is one of several specification now available for reporting errors from REST APIs. This specification explicitly states how the errors should look like in XML as well as in JSON. Maybe this is a bit bold, but I used the URL of that very RFC 7807 as the resolved URI for my module. [6] Please note: I have to admit my modules have something unusual in common: I use the namespace prefix “_” within the module and only use a more talking prefix when I use a module elsewhere. So, the “_” prefix can map to numerous URIs in my code. I am not 100% sure if there are down sides to this style but I use it for a while now and no problems come to mind. I really dislike to get an error, especially during development of some service, without any indication of where that actually occurred. That is to say: I like stack traces in my errors. It also would be great if any runtime error in my code would be reported as XML or JSON, depending on the format the browser asked for, just as errors I explicitly raise. A few parts provided by BaseX greatly help in getting all of this packaged in some xqm-file. * A stack trace is always available in “$err:additional” when catching errors [7] * One catch-all error handler can be installed (“declare %rest:error('*') function”, although there are minor downsides to this catch-all handler) [8] * The XML based direct format BaseX uses to store JSON by default makes it very easy to transform RFC 7807 XML to JSON [9] * It is easy to query the request header anywhere in RestXQ XQuery code running on BaseX [10] I tried to have easy to remember function names that make the code readable as if it was a sentence. Therefore for example, I created a function wrapping the users code that says “return api-problem:or-result(user_function#x, [params, …])”[11]. Another example would be “return api-problem:result(<problem>[…]</problem>)”. I also wanted to come up with an “intuitive way” to send standard HTTP response codes. What I came up with is a special namespace and a mapping of status codes to standard messages that is part of my module. So for example a status code 404 can be returned like this: “error(xs:QName('response-codes:_404'), $api-problem:codes_to_message(404), 'A custom message')” [12]. Something similar is probably possible with “web:response-header()” but with the error function something like if let $check_file_exists := if (not(file:exists($path))) then error(xs:QName('response-codes:_404'), $api-problem:codes_to_message(404), 'A custom message') at the top of a more complex RestXQ function is possible. There is no need to wrap custom code in one or several “if () then else” blocks. This helps readability in my opinion very much, especially if you have to check quite a few things before, say, writing something to the database. The idea also works great with permission checks that use %perm:check annotations. My first use of my api-problem module predates the addition of these helpful annotations. [13] A while before we had a HTTP header parameter that gave us the execution time, I wanted to measure execution time. So the functions take an xs:integer that should be obtained using “prof:current-ns()” [14] as the very first variable in a RestXQ function and I try to execute a second “prof:current-ns()” as late as I can imagine in my module [15]. That way I think I get a reasonably accurate timing result in my outputs as long as the respective error does not come from the catch-all handler. I also incorporated a quick and dirty HTML page rendering function that displays an error in detail if someone needs that [16]. As a small addition this error page can link to error descriptions in the W3C standards. [17] By the way: developing this started on BaseX but then we had similar needs in another open-source XML database existing today so I tried to port the code. Not only worked that rather well (probably also because I know the XQuery needed there rather well too), I also had a few new ideas and added them back to the BaseX version. May be there is some left over code in the module at the moment that reimplements some helpful, non-standard XQuery functions for this reason. The code is somewhat portable. A few thoughts: * Some say that it is necessary for security purposes to disable any stack traces in production environments. I am not really believing this does much good. But if one does not want to hard code a Boolean switch in the modules source code: What would be the fastest external source one could use in terms of compile, optimizing and execution time? Are stack traces not available as “$err:additional” when RESTXQERRORS are switched off? * Is there any sane way to get a QName with an unknown prefix of an error as a string like in the catch all handler and resolve it against all prefix-URI mappings known in some XQuery program? [1] https://github.com/acdh-oeaw/vleserver_basex/blob/main/vleserver/users.xqm#… [2] https://github.com/acdh-oeaw/vicav-app/blob/master/http.xqm#L24-L55 [3] https://api-tools.getlaminas.org/ [4] https://api-tools.getlaminas.org/documentation/modules/api-tools-api-problem [5] https://datatracker.ietf.org/doc/html/rfc7807 [6] https://github.com/acdh-oeaw/api-problem4restxq/blob/master/api-problem/api… [7] https://docs.basex.org/wiki/XQuery_3.0#Try.2FCatch [8] https://docs.basex.org/wiki/RESTXQ#Catch_XQuery_Errors [9] https://docs.basex.org/wiki/JSON_Module#Direct [10] https://docs.basex.org/wiki/Request_Module#request:header [11] https://github.com/acdh-oeaw/api-problem4restxq/blob/master/tests/api-probl… [12] https://github.com/acdh-oeaw/api-problem4restxq/blob/master/tests/http.xqm#… [13] https://github.com/acdh-oeaw/api-problem4restxq/blob/master/tests/http.xqm#… [14] https://github.com/acdh-oeaw/vleserver_basex/blob/main/vleserver/dicts.xqm#… [15] https://github.com/acdh-oeaw/api-problem4restxq/blob/master/api-problem/api… [16] https://github.com/acdh-oeaw/api-problem4restxq/blob/master/tests/api-probl… [17] https://github.com/acdh-oeaw/api-problem4restxq/blob/master/api-problem/api… 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 Wohllebengasse 12-14, 1040 Wien, Österreich | Vienna, Austria T: +43 1 51581-7295 omar.siam(a)oeaw.ac.at | www.oeaw.ac.at/acdh

3 9

Integers as attribute values
by Giuseppe G. A. Celano 27 Apr '22

27 Apr '22

Hi Everyone, I have an xml document with elements such as <div n=“21”>. If I run the query doc(“file.xml")//div[@subtype="chapter"]//*/parent::div[@n=21], I get the relevant div element, even if 21 is passed as an integer. On the other hand, if I type doc(“file.xmll")//div[@n=21], I get the error "Cannot convert to xs:double”, which can be solved by writing doc(“myfile.xmll")//div[@n=“21”]. Is this due to the fact that BaseX tries to convert the values of @n of all div elements into a number and, if it happens that the @n values returned are all numbers, then an error is not raised (the comparison is then possible), otherwise it is? Is this BaseX specific? Thanks. Best, Giuseppe

3 4

Free Text - understanding
by Hans-Juergen Rennau 25 Apr '22

25 Apr '22

Dear BaseX people, it would be kind if you could check my understanding of Free Text @ BaseX. (1) Tokenization ignores element borders. If correct, I suggest documentation of the fact, seehttps://www.w3.org/TR/xpath-full-text-10/#TokenizationSec"In the absence of an implementation-definedway to differentiate, element markup (start tags, end tags, andempty-element tags) creates token boundaries." (2) Function ft:search can only find individual text nodes, it is not possible to apply scope "phrase" or "all words" beyond the boundaries of an individual text node. So, for example, given a document<doc> <t1>Stand </t1> <t2>der Information. Siehe unten.</t2></doc> there is no way of searching for "Stand der Information" *and* obtain information about the location of the match (in other words - search via ft:search). (3) The unit "sentence" (as for example used in the qualifier same sentence) is exclusively defined by the occurrences of "." (dot) characters. In particular, it is unrelated to text node boundaries. For example:$doc contains text "Stand der Information siehe" same sentence yields false.$doc contains text "Stand der Information" same sentence yields true. (4) The unit "paragraph" (as for example used in the qualifier "same paragraph") is not delimited - "same paragraph" always applies. A check would be highly appreciated! Kind regards,Hans-Jürgen PS: I think there is a bug concerning "different sentence": basex "'base.x' contains text 'base x' same sentence" false basex "'base.x' contains text 'base x' different sentence" false basex "'base x' contains text 'base x' same sentence" true basex "'base x' contains text 'base x' different sentence" false PPS: Thank you very much for the excellent implementation of Free Text - for several years, it has been in productive use by a mission critical service mapping format markup to semantic markup.

2 3

Interrupted queries - partial results?
by Patrick Durusau 21 Apr '22

21 Apr '22

Greetings! Is it possible to capture partial results from an interrupted query? When I realize a query is taking too long for the data involved, it might be helpful in correcting the mistake. Thanks! 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

3 6

Performing extra data conversion for double values (by XQuery)
by Markus Elfring 21 Apr '22

21 Apr '22

Hello, I would like to perform a sanity check for some input data which represent numbers that are using the comma as the decimal separator. I stumbled on the message “[FORG0001] Cannot convert to xs:double: …” then according to the evaluation of another XQuery script by the software “BaseX 9.7”. https://docs.basex.org/wiki/XQuery_Errors#Functions_Errors Can any functions help with the safe handling of currency values for my use case? https://docs.basex.org/wiki/Conversion_Module Regards, Markus

2 1

Joining a varying number of information sources (with XQuery)?
by Markus Elfring 19 Apr '22

19 Apr '22

Hello, It is supported to specify a fixed number of information sources for a for clause. https://www.w3.org/TR/xquery-31/#id-xquery-for-clause I imagine that the selection of for bindings can occasionally vary so much and might become so big that it would be needed to construct FLWOR expressions by more sophisticated data structures. I guess that the specification of consistent join conditions (and related constraints) would become more challenging. Can any programming interfaces help further to work with such use cases? https://docs.basex.org/wiki/XQuery_Module Regards, Markus

5 32

Improving the understanding for counting of entries in data groups
by Markus Elfring 19 Apr '22

19 Apr '22

Hello, I constructed the following XML file for another test of the software “BaseX 9.7”. <?xml version="1.0" encoding="UTF-8" standalone="yes"?> <test_data> <info> <id>12</id> <topics> <topic>Demo1</topic> <topic>Demo2</topic> </topics> </info> <info> <id>23</id> <topics> <topic>Demo1</topic> <topic>Demo2</topic> </topics> </info> <info> <id>34</id> <topics> <topic>Test1</topic> <topic>Test2</topic> <topic>Test3</topic> </topics> </info> <info> <id>45</id> <topics> <topic>Test1</topic> <topic>Test2</topic> <topic>Test3</topic> </topics> </info> <info> <id>56</id> <topics> <topic>Test1</topic> <topic>Test2</topic> <topic>Test3</topic> </topics> </info> <info> <id>67</id> <topics> <topic>Probe1</topic> </topics> </info> </test_data> I tried the following XQuery script out accordingly. declare option output:method "csv"; declare option output:csv "header=yes, separator=|"; for $x in //test_data/info group by $topics := string-join($x/topics/topic/data(), "*") let $incidence := count($topics) order by $incidence descending return <csv> <record> <topic_combination>{$topics}</topic_combination> <incidence>{$incidence}</incidence> </record> </csv> Corresponding test result: topic_combination|incidence Demo1*Demo2|1 Test1*Test2*Test3|1 Probe1|1 I would like to see the numbers “2” and “3” instead at the end of two rows for such a data analysis approach. I would appreciate further advices for this use case. Regards, Markus

2 1

CVE-2022-22965: Spring framework 0-day remote code execution vulnerability
by Bülow, Gilles 14 Apr '22

14 Apr '22

Hi all, to exclude issues with BaseX and the topic in this email-subject (CVE-2022-22965: Spring framework 0-day remote code execution vulnerability<https://securityboulevard.com/2022/04/spring4shell-vulnerability-cve-2022-2…>) I would like to know if BaseX could possibly be affected by the problem discussed and if so, when there is an update scheduled which can solve this problem. Thanks in advance for replies Regards Gilles other links: https://www.dfn-cert.de/aktuell/0day-schwachstelle-spring-framework-apache-… https://tanzu.vmware.com/security/cve-2022-22965 -- Dr.-Ing. Gilles Bülow Project Manager Digitalization Production IT DKE German Commission for Electrical, Electronic & Information Technologies Merianstraße 28 63069 Offenbach am Main Phone: +49 69 6308-294 Fax: +49 69 6308-9294 Mobile: +49 170 5769243 gilles.buelow(a)vde.com<mailto:gilles.buelow@vde.com> http://www.dke.de<http://www.dke.de/> [cid:VDE_Email_Abbinder_VDEHiglights2021_aaf1e897-893b-444a-a4a4-f03d3e97ff22.jpg]<https://www.vde.com/highlights> VDE Verband der Elektrotechnik Elektronik Informationstechnik e. V. VDE Association for Electrical, Electronic & Information Technologies Vorstand / Executive Board: Ansgar Hinz (Vorsitzender / CEO); Dr. Beate Mand (stellv. Vorsitzende / CFO) Rechtsform / Legal form: Eingetragener Verein / Registered association Amtsgericht Vereinsregister / Local court register of associations: Frankfurt am Main / Nr. / No: VR 4884 Sitz der Gesellschaft / Association's registered office: Frankfurt am Main, Germany USt-IdNr. / VAT-ID: DE 114 235 367 Datenschutzinformationen<https://www.vde.com/dsh-vde> Data Protection Information<https://www.vde.com/dpn-vde> Der Inhalt dieser E-Mail (sowie der ggf. enthaltenen Anhänge) ist vertraulich und kann darüber hinaus durch besondere Bestimmungen geschützt sein. Sollten Sie nicht der vorgesehene Empfänger sein, bitten wir Sie, den Versender zu informieren und die Nachricht zu löschen. Die Weitergabe sowie Vervielfältigung, Verwertung und Mitteilung seines Inhalts ist nur mit unserer ausdrücklichen Genehmigung gestattet. Alle Rechte vorbehalten, insbesondere für den Fall der Schutzrechtsanmeldung. This e-mail and any attachments are confidential and may also be privileged. If you are not the intended recipient, please immediately notify the sender and delete this message. Its contents are not to be passed on, duplicated, exploited or disclosed without our express permission. All rights reserved, especially the right to apply for protective rights.

2 1

Closing a socketconnection
by Ben Engbers 14 Apr '22

14 Apr '22

Hi, While reading the basexdbc.c code from Alexander Holupirek, I saw that he explicitly sends the 'exit' command to the server before closing the socket. I couldn't find anything on this command in the client server protocol. Is it necessary to send this command to the server? If so what is the effect of sending this command? Ben Engbers

2 1

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