BaseX-Talk July 2014

basex-talk@mailman.uni-konstanz.de

24 participants
38 discussions

Highlight missing when getting the results using {{@link Item#toJava()}
by Javier Couto 10 Jul '14

10 Jul '14

Hi, I have a problem with ft:mark()that seems to be a bug. Given the following query: for $sentence in //sentence where $sentence[text() contains text "biological"] return ft:mark($sentence[text() contains text "biological"], 'b') And the following document structure: <article> <articleInfo> <date>27-06-14</date> <author>Author</author> </articleInfo> <section id="1"> <title id="1.1">Title Section here</title> <paragraph id="1.1.1"> <sentence id="1.1.1.1.1">Induction of NF-KB during monocyte differentiation by HIV type 1 infection.</sentence> <sentence id="1.1.1.1.2">Electrophoretic mobility shift assays and Southwestern blotting experiments were used to detect the binding of cellular transactivation factor NF-KB to the double repeat-KB enhancer sequence located in the long terminal repeat.</sentence> </paragraph> ... In Java, if I use the methods query(String query), process(String query) or serialize(String query) from https://github.com/BaseXdb/basex/blob/master/basex-examples/src/main/java/o…, I get the desired results (i.e. the term “biological” is highlighted): <sentence id="445">A novel fluorescent silica tracer for <b>biological</b> silicification studies</sentence> <sentence id="319125">Cell <b>biological</b> basis of biomineralization</sentence> ... But when I try to access the Java object, using the method iterate(String query), the highlight is missing: QueryProcessor proc = new QueryProcessor(query, context); Iter iter = proc.iter(); ArrayList<BXElem> results = new ArrayList<BXElem>(); for(Item item; (item = iter.next()) != null;) results.add((BXElem) item.toJava()); proc.close(); // print results for(BXElem elem: results) System.out.println(elem.getTextContent()); Output: A novel fluorescent silica tracer for biological silicification studies Cell biological basis of biomineralization ... Is this a known bug or I am doing something wrong? Thank you in advance. Javier

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generate-id() is not unique in loop
by Sergey Alekhin 10 Jul '14

10 Jul '14

Hello, this seems to be critical bug in [BaseX7.8.2]. The following code let $a := <element></element> for $i in (1 to 5) return copy $b := $a modify ( insert node attribute id { generate-id() } into $b ) return $b will return elements with the same IDs, i.e.: <element id="id31442"/> <element id="id31442"/> <element id="id31442"/> <element id="id31442"/> <element id="id31442"/>

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Status of multipart
by Marco Lettere 08 Jul '14

08 Jul '14

Hello all, I would like to know what the status of multipart HTTP request currently is. I read from the docs that it's experimental but to me it feels like there's currently a regression (is there any working example?). I have some requests that were working correctly up to 7.6.1 AFAIR. From 7.8 on (including latest) I always get this error message when posting multipart requests: <html> <head> <meta http-equiv="Content-Type" content="text/html; charset=ISO-8859-1"/> <title>Error 400 Stopped at .../restxq.xqm, 106/10: [experr:HC0004] Invalid request element: No body specified for http:part.</title> </head> <body> <h2>HTTP ERROR 400</h2> <p>Problem accessing /multipart. Reason: <pre> Stopped at /home/lettere/Desktop/basex80/webapp/restxq.xqm, 106/10: [experr:HC0004] Invalid request element: No body specified for http:part.</pre> </p> <hr /> <i> <small>Powered by Jetty://</small> </i> <br/> [...] <br/> </body> </html> This is the entry point: declare %restxq:path("multipart/") %restxq:POST("{$message}") %restxq:consumes("multipart/form-data") %output:method('xml') function page:hello2($message) { <response> <title>Hello!</title> content <info>It seems you posted a message: { $message }</info> </response> }; and finally this is the HTTP request: POST /multipart HTTP/1.1 Host: localhost:9000 Connection: keep-alive Content-Length: 162 Cache-Control: no-cache Origin: chrome-extension://fdmmgilgnpjigdojojpjoooidkmcomcm User-Agent: Mozilla/5.0 (X11; Linux x86_64) AppleWebKit/537.36 (KHTML, like Gecko) Chrome/35.0.1916.153 Safari/537.36 Content-Type: multipart/form-data; boundary='bounds' Accept: */* Accept-Encoding: gzip,deflate,sdch Accept-Language: en-US,en;q=0.8,it;q=0.6 --bounds Content-Disposition: content Content-Type: application/xml <a/> --bounds Content-Disposition: metadata Content-Type: application/xml <b/> --bounds Thanks a lot, Marco.

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only QueryPlan
by Marc 07 Jul '14

07 Jul '14

Hi, I'm trying to obtain de QueryPlan without executing the query. I try the -x -R flags on the basexclient, but with the -R flag I only receive the optimized query, not the plan. With the GUI I can stop before the end and I have the QP, but I don't know how to do that with the client. Thank's for help Marc

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Re: [basex-talk] UTF-8 charcaters
by Christian Grün 07 Jul '14

07 Jul '14

Hi Erol, thanks for the script. Do you think you could provide us with a minimized example? Christian _____________________________________ On Fri, Jul 4, 2014 at 11:43 PM, Erol Akarsu <eakarsu(a)gmail.com> wrote: > Christian, > > My xquery script and result are attached. > You will see incorrect encoded elements as? > > > On Fri, Jul 4, 2014 at 3:44 PM, Christian Grün <christian.gruen(a)gmail.com> > wrote: >> >> Hi Erol, >> >> > I am trying to fetch an url page >> > http://www.ruya-tabirleri.com/ruyada-adam-gormek.html that has Turkish >> > characters in it. When I pull it in basex, the pages returns in >> > charset=windows-1254 but as you see it doesn't render Turkish characters >> > like here: >> >> Please give us more details on how you are trying to retrieve the web >> page. >> >> One solution could look as follows: >> >> >> html:parse(fetch:text('http://www.ruya-tabirleri.com/ruyada-adam-gormek.html', >> 'windows-1254'), map { 'encoding': 'UTF-8' }) >> >> Cheers, >> Christian >> >> >> >> > >> > content="r?a tabirleri, r?a yorumlar? r?a tabiri, r?a, r?atabirleri, >> > haberci >> > r?a, r?a t?leri, r?a nedir, aksenov, forsa, atat?k, evliya ?lebi, >> > bur?ar, >> > astroloji"/> >> > >> > >> > <html lang="tr-TR"> >> > <head profile="http://gmpg.org/xfn/11"> >> > <title>R?a Tabirleri, R?a Tabiri, R?a Yorumlar? R?a, r?atabirleri, >> > ruya >> > tabirleri</title> >> > <meta name="keywords" content="r?a tabirleri, r?a yorumlar? r?a >> > tabiri, >> > r?a, r?atabirleri, haberci r?a, r?a t?leri, r?a nedir, aksenov, forsa, >> > atat?k, evliya ?lebi, bur?ar, astroloji"/> >> > <meta name="description" content="r?a tabirleri, r?a tabiri, r?a >> > yorumlar? r?a, ruya tabirleri, r?atabirleri, r?alar?? bu sitede anlam >> > kazanacak."/> >> > <meta http-equiv="Content-Language" content="tr"/> >> > <meta http-equiv="Content-Type" content="text/html; >> > charset=windows-1254"/> >> > <meta name="Author" content="Ruya-tabirleri.com"/> >> > <meta name="robots" content="index, follow"/> >> > <meta name="ROBOTS" content="ALL"/> >> > <meta name="googlebot" content="index, follow"/> >> > <meta name="Revisit-After" content="1 Days"/> >> > <meta name="RATING" content="General"/> >> > <meta name="copyright" content="r?a tabirleri"/> >> > <link rel="stylesheet" >> > href="http://www.ruya-tabirleri.com/img/ruya1.css" type="text/css"/> >> > <script type="text/javascript" >> > src="http://apis.google.com/js/plusone.js"/> >> > </head> >> > > >

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UTF-8 charcaters
by Erol Akarsu 04 Jul '14

04 Jul '14

I am trying to fetch an url page http://www.ruya-tabirleri.com/ruyada-adam-gormek.html that has Turkish characters in it. When I pull it in basex, the pages returns in charset=windows-1254 but as you see it doesn't render Turkish characters like here: content="r?a tabirleri, r?a yorumlar? r?a tabiri, r?a, r?atabirleri, haberci r?a, r?a t?leri, r?a nedir, aksenov, forsa, atat?k, evliya ?lebi, bur?ar, astroloji"/> <html lang="tr-TR"> <head profile="http://gmpg.org/xfn/11"> <title>R?a Tabirleri, R?a Tabiri, R?a Yorumlar? R?a, r?atabirleri, ruya tabirleri</title> <meta name="keywords" content="r?a tabirleri, r?a yorumlar? r?a tabiri, r?a, r?atabirleri, haberci r?a, r?a t?leri, r?a nedir, aksenov, forsa, atat?k, evliya ?lebi, bur?ar, astroloji"/> <meta name="description" content="r?a tabirleri, r?a tabiri, r?a yorumlar? r?a, ruya tabirleri, r?atabirleri, r?alar?? bu sitede anlam kazanacak."/> <meta http-equiv="Content-Language" content="tr"/> <meta http-equiv="Content-Type" content="text/html; charset=windows-1254"/> <meta name="Author" content="Ruya-tabirleri.com"/> <meta name="robots" content="index, follow"/> <meta name="ROBOTS" content="ALL"/> <meta name="googlebot" content="index, follow"/> <meta name="Revisit-After" content="1 Days"/> <meta name="RATING" content="General"/> <meta name="copyright" content="r?a tabirleri"/> <link rel="stylesheet" href="http://www.ruya-tabirleri.com/img/ruya1.css" type="text/css"/> <script type="text/javascript" src="http://apis.google.com/js/plusone.js "/> </head>

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Re: [basex-talk] BaseX server
by Dirk Kirsten 02 Jul '14

02 Jul '14

Hi Paul, please make sure to reply to the list, so all of our users can benefit :) I think I got your question correctly. It doesn't matter whether you use your personal computer or a server. Assuming you run linux, you can simply run the bin/basexserver script and the BaseX server starts up. There is no need to install it. The different language bindings we provide (see https://docs.basex.org/wiki/Clients) use our Client/Server protocol (see https://docs.basex.org/wiki/Server_Protocol), implementing the Client in the specific language. So in all these cases, you need a running BaseX server (which you can run as said above, some more documentation is available at https://docs.basex.org/wiki/Database_Server). On your web server, you need the permission to simply run a program. Based on what you write (correct me if I am wrong) I get the feeling you are running on one of the many cheap web domain hosts, where you basically connect with FTP to upload files and use PHP/MySQL to run your webpage. Am I correct? You will need a bit more to run BaseX, because you need the right to execute a program by yourself (i.e. ssh access). PHP files are only interpreted, because your provider is running a web server with PHP integration already for you. As they most likely will not already run BaseX for you (what a shame!), you will have to run it yourself - Which means you have to be able to execute programs. Please note, this is not a problem applying to BaseX, it would be the same for every other program you would like to run. Cheers, Dirk On 02/07/14 14:40, Paul Swennenhuis wrote: > Hi Dirk, > > Thanks for your (fast) reply. > I am not sure if you understood me though. Or maybe I phrased the > question incorrectly. > What I want is to install BaseX on a web server, not on my own computer. > I want this to be able to access BaseX from anywhere. There must be some > way to achieve this, since I see all kinds of web-implementations for > BaseX like PHP, Ruby, etc. > > Surely you can not FTP the BaseX files to a webserver and then just run it? > > Paul >> Hi Paul, >> >> a while ago I played around with JET (http://www.excelsiorjet.com/), >> which can compile Java applications into standalone programms. Due to >> licencing issues we can not distribute this, but if you obtain a licence >> you could compile it for yourself and use BaseX without any JVM. The >> results were quite satisfying, it did work really well. >> >> However, it is certainly simpler to run BaseX using a JVM. You do not >> have to install BaseX, you can simply run it. So if you have a JVM on >> the machine, it normally shouldn't be a permission issue to run BaseX. >> >> Cheers, >> Dirk >> >> On 02/07/14 14:01, Paul Swennenhuis wrote: >>> Hi there, >>> >>> Based on the locally installed versionit seems that BaseX is a great >>> tool and I would like to use it as a webservice. >>> However, the servers I have access to do not support Java - or if they >>> do, I do not have the rights to install BaseX. >>> Do I need to find a hosting party that supports Java apps? Or maybe >>> there are public BaseX servers that can be accessed? >>> How to proceed? >>> >>> Regards, >>> >>> Paul > Hi Dirk -- Dirk Kirsten, BaseX GmbH, http://basex.org |-- Firmensitz: Blarerstrasse 56, 78462 Konstanz |-- Registergericht Freiburg, HRB: 708285, Geschäftsführer: | Dr. Christian Grün, Dr. Alexander Holupirek, Michael Seiferle `-- Phone: 0049 7531 28 28 676, Fax: 0049 7531 20 05 22

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BaseX server
by Paul Swennenhuis 02 Jul '14

02 Jul '14

Hi there, Based on the locally installed versionit seems that BaseX is a great tool and I would like to use it as a webservice. However, the servers I have access to do not support Java - or if they do, I do not have the rights to install BaseX. Do I need to find a hosting party that supports Java apps? Or maybe there are public BaseX servers that can be accessed? How to proceed? Regards, Paul

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BaseX-Talk July 2014