- BaseX-Talk - mailman.uni-konstanz.de

maven repo
by Christophe Doniat 19 Apr '12

19 Apr '12

Hello, I would like to make a tryout of your techstuff. So I added your maven repo in my nexus server as proxy (http://files.basex.org/maven/). But when I wanted to browse the repo index I didn't see any version that I can see through a browser way. Therefore I pointed out that the archetype-catalog.xml file (in the root of your repo) is empty. Would you mind to generate this file and the link could be done? Command: mvn archetype:crawl, see there for more information: http://www.sonatype.com/books/mvnref-book/reference/archetype-sect-publishi… Thanks in advance, Regards, C. Doniat

3 2

tabs
by jidanni＠jidanni.org 18 Apr '12

18 Apr '12

Is this the state of the art for making tab aligned columns? concat($members,"	",$id,"	",$name... basex 7.1.1.

3 3

newlines in basex 7.1.1
by jidanni＠jidanni.org 18 Apr '12

18 Apr '12

OK, I have found a way that works every time: ... return concat($members," ",$id," ",$name,"\n") $ make -n basex g.xq|perl -pwle 's/\\n ?/\n/g'

1 0

newlines in basex 7.1.1
by jidanni＠jidanni.org 18 Apr '12

18 Apr '12

All I want is a b c a b c a b c a b c No trailing blanks. No leading blanks. Please advise. $ cat e.xq for $m in (1,2,3,4) return "a b c 
" $ basex e.xq|cat -e a b c $ a b c $ a b c $ a b c $ $ basex --version BaseX 7.1.1 [Standalone] The 
 wad at the end is as far as I got, from reading the previous discussion.

1 0

Writing out <?xml
by Erol Akarsu 17 Apr '12

17 Apr '12

I would like to write this line into the beginning of an xml file I am generating. This is a must because I am generating csv file in xml form that should be opened Microsoft Excell. <?xml version="1.0"?> I tried to use "processing-instruction" like this processing-instruction {"xml"} {'version="1.0"'} But I am getting Error: [XQDY0064] Processing instruction has illegal name: 'xml'. Erol Akarsu On Mon, Apr 9, 2012 at 8:41 PM, Charles Duffy <charles(a)dyfis.net> wrote: > Howdy -- > > The following is arguably a bug in my REST bindings rather than the > server, but it worked as of the 7.2 release but fails as of the current > 7.2.1 snapshot. > > A request akin to the following: > > POST /rest HTTP/1.1 > Host: 127.0.0.1:8984 > Content-Length: 86 > Authorization: Basic cmVhZG9ubHk6cmVhZG9ubHk= > Content-Type: application/x-www-form-urlencoded > Accept-Encoding: identity, deflate, compress, gzip > Accept: */* > User-Agent: python-requests/0.10.6 > > <rest:query xmlns:rest="http://basex.org/rest > "><rest:text>1+1</rest:text></rest:query> > > Yields the following response: > > HTTP/1.1 400 Bad Request > Content-Length: 40 > Server: Jetty(6.1.26) > > Unknown option '<REST:QUERY XMLNS:REST'. > > ...but did not do so previously. > _______________________________________________ > BaseX-Talk mailing list > BaseX-Talk(a)mailman.uni-konstanz.de > https://mailman.uni-konstanz.de/mailman/listinfo/basex-talk > >

4 6

Backing up database
by Sony Vijay 16 Apr '12

16 Apr '12

Hi, I am trying to maintain a daily backup of all the XML files stored in the database. When I run CREATE BACKUP *, zipped backups of all the databases are created. I unzipped these archives and noticed that the files inside are stored in an internal basex format. Please see an example archive attached. Will I be able to restore these archives to original state if I upgrade to a newer version of BaseX? Will the files in the internal format be compatible with newer versions? If not, is there an alternative way of creating backups? Or, do you suggest I write an XQuery to create timestamped versions of files? Thanks, Sony

2 1

time out
by Cerstin Mahlow 16 Apr '12

16 Apr '12

Hi, I have a Web interface (cgi-bin) that allows users to search a collection and store specific results. Although each user has to log in with a personal account, they all use the same interface and thus create a session with: my $session = Session->new("localhost", 1984, "admin", "admin"); It is possible that several users access the collection at the same time and run different queries. From time to time (I cannot see a specific pattern), they report a time-out. It is not because they try to cancel a query by clicking the back-button. If they try the same query a few minutes later, it runs without a time-out. These queries need between 200 and 14000 ms in the GUI and have around 2000 to 4000 results. I wonder whether this time-out is due to overload of the server as such (I have a virtual server only with 2GB RAM and don't know who else is using it for what) because it needs so much time to compute the results, or due to concurrent access to the collection all run with the "admin" user? The result for a query is a HTML code with checkboxes, the rendering of each element is done within XQuery. Perhaps this makes the whole process too slow and the browser times out waiting for the results? Best regards Cerstin -- Dr. phil. Cerstin Mahlow Universität Basel Departement Sprach- und Literaturwissenschaften Fachbereich Deutsche Sprach- und Literaturwissenschaft Nadelberg 4 4051 Basel Schweiz Tel: +41 61 267 07 65 Fax: +41 61 267 34 40 Mail: cerstin.mahlow(a)unibas.ch Web: http://www.oldphras.net ---------------------------------------------------------------- This message was sent using IMP, the Internet Messaging Program.

2 1

Cloning the git
by Seenivasan Gunabalan 16 Apr '12

16 Apr '12

I am getting "fatal: reference is not a tree: c136fd9513677fad862a337ea895b5f8be0fafe9 Unable to checkout 'c136fd9513677fad862a337ea895b5f8be0fafe9' in submodule path 'basex'" while trying to clone the project "basex-meta" along with submodules. Any suggestion on how to solve?. Thanks, Seeni

3 2

Did REST interface just start enforcing Content-Type?
by Charles Duffy 11 Apr '12

11 Apr '12

Howdy -- The following is arguably a bug in my REST bindings rather than the server, but it worked as of the 7.2 release but fails as of the current 7.2.1 snapshot. A request akin to the following: POST /rest HTTP/1.1 Host: 127.0.0.1:8984 Content-Length: 86 Authorization: Basic cmVhZG9ubHk6cmVhZG9ubHk= Content-Type: application/x-www-form-urlencoded Accept-Encoding: identity, deflate, compress, gzip Accept: */* User-Agent: python-requests/0.10.6 <rest:query xmlns:rest="http://basex.org/rest "><rest:text>1+1</rest:text></rest:query> Yields the following response: HTTP/1.1 400 Bad Request Content-Length: 40 Server: Jetty(6.1.26) Unknown option '<REST:QUERY XMLNS:REST'. ...but did not do so previously.

2 3

Current snapshots including 7.2 release jar in addition to 7.2.1-SNAPSHOT jar?
by Charles Duffy 11 Apr '12

11 Apr '12

$ unzip -l BaseX721-20120409.202005.zip | grep 'basex-' 171433 2012-04-09 20:19 basex/lib/basex-api.jar 2531724 2012-04-09 20:19 basex/lib/basex-7.2.1-SNAPSHOT.jar 2473241 2012-03-24 19:04 basex/lib/basex-7.2.jar

2 1

GUI no longer pretty-printing?
by Charles Duffy 11 Apr '12

11 Apr '12

Howdy -- I'm accustomed to the GUI providing XML output in easy-to-read, pretty-printed form. I just upgraded to 7.2.1-pre-20120410.144517, and that behavior no longer appears to be the case -- documents (as displayed in the GUI) have no whitespace they weren't originally created with. Is this an intentional change? Is a toggle available?

2 1

glob syntax
by David Leigh 11 Apr '12

11 Apr '12

I'm trying to use the CREATEFILTER directive to: . Include all files WITHOUT an extension . Exclude all files WITH an extension . Exclude the specific file "_cache" (note, it has NO extension) . Do all this for a whole directory tree I notice that CREATEFILTER uses "glob syntax" (http://docs.basex.org/wiki/Commands#Glob_Syntax) Questions: 1. Since this is a java program, does that mean that: http://docs.oracle.com/javase/tutorial/essential/io/fileOps.html#glob and http://docs.oracle.com/javase/7/docs/api/java/nio/file/FileSystem.html#getPa thMatcher%28java.lang.String%29 provide the exact full description of "glob syntax" for BaseX? 2. If so, can I do what I want to do with some sort of a "!" (negation) pattern? 3. Should this work with version 6.3.5 of BaseX? Thanks! David <mailto:david@leighweb.com> DavidEmailSig

2 2

Database opened by another process while using REST interface
by Seenivasan Gunabalan 11 Apr '12

11 Apr '12

Hi All, I am getting "[BASX0020] Database 'db' is opened by another process." whenever I am trying to PUT / Store new record in to the database using the REST. I havn't kept the database open from anyother client. May I know what is the issue here? Thanks.

3 5

Javadoc for XML:DB BaseX implementation
by Isidre Guixà 11 Apr '12

11 Apr '12

Hi Where can I found the Javadoc for XML:DB BaseX implementation? I see BaseX - XML:DB provides services that are not defined in official XML: DB and I would like to have the documentation. Thanks! Isidre Guixà

2 1

fn:collection
by Róbert Kohányi 09 Apr '12

09 Apr '12

BaseX's documentation and the following (an excerpt from an email on the mailing list[1]) says this on the fn:collection function: fn:collection() either returns documents of a database or of the specified > location >From this it seems that it can return the documents of a specified location (without ever creating a database), however the following query: collection("<xml-dir>") reports the following error (using both the GUI and the command-line): [FODC0004] File or directory "File or directory "<basex>" not found." not > found. (Using Windows 7) I passed several kind of path to the collection function ("c:/xml-dir", "file:///c:/xml-dir", ...), but none of them works. Also, the actual path of "<basex>" in the error depends on whether I start the GUI (<basex>/BaseX.jar) or the command-line (<basex>/bin/basex.bat); the respective paths in these two cases are "<basex>" and "<basex>/bin". (Issuing something like doc("<xml-dir>/<xml-file>") works.) Is this the expected behavior? If yes, is that means that using BaseX one can only query multiple XML files after creating a database for them? If not, ... is this a bug? (I highly doubt.) (On a side note: something like DataDirect - supposedly - can do[2] would be awesome in BaseX. Was this ever considered to include in BaseX?) My reason for doing a query like this is: I've just tried to ran it and it didn't work, so I'm here. Thanks! Regards, Kohányi Róbert [1]: https://mailman.uni-konstanz.de/pipermail/basex-talk/2011-November/002213.h… [2]: http://www.xquery.com/tips_and_tricks/querying_multiple_documents.html

2 6

Detecting abandoned locks
by Charles Duffy 09 Apr '12

09 Apr '12

Howdy -- I have a BaseX database with a pin-* file in its directory, reporting as locked and unavailable. However, OS-level tools such as fuser report that no programs have open file handles for any processes in this directory. What mechanism does BaseX use for detecting abandoned locks? It would be nice to use OS-level advisory locking where available, such that the lock is automatically released whenever the program holding it exits (or otherwise ceases to hold a handle on the file).

3 5

Re: [basex-talk] basex 7.2.1 html5 serialization
by Andy Bunce 09 Apr '12

09 Apr '12

Ahh, yes it works for me too when I remember to deploy the code. Thanks /Andy On Mon, Apr 9, 2012 at 5:19 PM, Christian Grün <christian.gruen(a)gmail.com>wrote: > > My use is really with RESTXQ and following[1] I tried > > declare %rest:path("snipsnapx") %output:method("html") > > %output:doctype-system("about:legacy-compat") > > Thanks for the helpful link. With the following RESTXQ module.. > > module namespace rest = 'http://exquery.org/ns/restxq'; > declare %rest:path("") %output:method("html") > %output:doctype-system("about:legacy-compat") > function rest:start() { <html/> }; > > ..and the following request.. > > curl "http://admin:admin@localhost:8984/restxq" > > ..I get the following result.. > > <!DOCTYPE html SYSTEM "about:legacy-compat"> > <html></html> > > ..so all serializations options should also be supported by RESTXQ. > Which result would you expect? > Christian > > > > > > On Mon, Apr 9, 2012 at 1:52 PM, Christian Grün < > christian.gruen(a)gmail.com> > > wrote: > >> > >> Hi Andy, > >> > >> > The html5 serialization adds a doctype <!DOCTYPE html> but unlike > >> > method > >> > "html" it outputs empty tags for script. > >> > >> our announcement for announcing HTML5 was probably a little bit bold. > >> The sections for HTML5 support in the W3 XQuery Serialization > >> Specification [1] are still work in progress and not online yet, which > >> is why it may take a while until we will support all details of the > >> specification. > >> > >> > Also I cant get the REST eval to work. This url , for example, > >> > http://localhost:8984/rest/listman/add.xq always downloads rather > than > >> > executes, even though http://localhost:8984/rest/listman > >> > >> As there were numerous open issues related to the evaluation of XQuery > >> files located in database (such as the correct path resolution of > >> modules to be imported, and the fact that the evaluation of queries is > >> not very RESTful), we decided to get rid of this feature. Instead, > >> we'll soon be adding a richer framework (basex-web) to evaluate > >> queries server-side. In the meanwhile, you can use the RUN command to > >> evaluated queries located in the HTTP directory. > >> > >> Hope this helps, > >> Christian > >> > >> [1] http://www.w3.org/TR/xslt-xquery-serialization-30/ > >> ___________________________ > >> > >> On Mon, Apr 9, 2012 at 1:15 AM, Andy Bunce <bunce.andy(a)gmail.com> > wrote: > >> > Hi, > >> > Looks wrong to me. example below > >> > > >> > gives.. > >> > <rest:database name="listman" resources="1"><rest:resource type="raw" > >> > content-type="application/xquery" > >> > size="22">add.xq</rest:resource></rest:database> > >> > > >> > /Andy > >> > > >> > (: test html serialization :) > >> > declare option output:method "html5"; > >> > <html> > >> > <head> > >> > <script src="jquery-1.7.1.min.js" type="text/javascript"/> > >> > </head> > >> > </html> > >> > > >> > _______________________________________________ > >> > BaseX-Talk mailing list > >> > BaseX-Talk(a)mailman.uni-konstanz.de > >> > https://mailman.uni-konstanz.de/mailman/listinfo/basex-talk > >> > > > > > >

2 1

basex 7.2.1 html5 serialization
by Andy Bunce 09 Apr '12

09 Apr '12

Hi, The html5 serialization adds a doctype <!DOCTYPE html> but unlike method "html" it outputs empty tags for script. Looks wrong to me. example below Also I cant get the REST eval to work. This url , for example, http://localhost:8984/rest/listman/add.xq always downloads rather than executes, even though http://localhost:8984/rest/listman gives.. <rest:database name="listman" resources="1"><rest:resource type="raw" content-type="application/xquery" size="22">add.xq</rest:resource></rest:database> /Andy (: test html serialization :) declare option output:method "html5"; <html> <head> <script src="jquery-1.7.1.min.js" type="text/javascript"/> </head> </html>

2 1

Module versioning for new packaging system
by Charles Duffy 08 Apr '12

08 Apr '12

Howdy -- For the most part, I'm glad to have the non-EXPath packaging mechanism introduced for 7.2.1 -- particularly given how the EXPath implementation in BaseX has some unintended side effects (ie. loading all modules when only one is referenced). However, I wonder if perhaps the current implementation could stand to be fleshed out a bit: - No mechanism for atomically upgrading a module exists; it must be uninstalled, then installed again, leaving an intermediate period in which the module is unavailable. - No mechanism for attaching a version to a module exists, making it impossible to determine whether an upgrade is necessary. The combination of these two factors is particularly unfortunate -- meaning that uninstallation/reinstallation is necessary when there is any conceivable possibility that a module may have changed (given the lack of a version registry), but not providing any means of performing such reinstallation without possible service disruption. With respect to versioning mechanism -- perhaps an optional pragma embedded in the module text, or an optional argument to 'REPO INSTALL'?

3 4

Error: Improper use? Potential bug?
by Yves Roos 06 Apr '12

06 Apr '12

Query: for $n in //items/* let $p := $n/@publisher let $a := $n/@edition | $n/@label return if ($p) then delete nodes $a else if ($a) then ( rename node $a[1] as "publisher" , delete node $a[2]) else () Error: Improper use? Potential bug? Your feedback is welcome: Contact: basex-talk(a)mailman.uni-konstanz.de Version: BaseX 7.2 Java: Apple Inc., 1.6.0_31 OS: Mac OS X, x86_64 Stack Trace: java.lang.ArrayIndexOutOfBoundsException: 2147483647 org.basex.io.random.TableDiskAccess.cursor(TableDiskAccess.java:401) org.basex.io.random.TableDiskAccess.read1(TableDiskAccess.java:115) org.basex.data.Data.kind(Data.java:309) org.basex.data.Data.delete(Data.java:659) org.basex.query.up.primitives.DeleteNode.apply(DeleteNode.java:35) org.basex.query.up.NodeUpdates.makePrimitivesEffective(NodeUpdates.java:216) org.basex.query.up.DatabaseUpdates.apply(DatabaseUpdates.java:148) org.basex.query.up.ContextModifier.applyUpdates(ContextModifier.java:58) org.basex.query.up.Updates.apply(Updates.java:188) org.basex.query.QueryContext.value(QueryContext.java:259) org.basex.query.QueryContext.iter(QueryContext.java:243) org.basex.query.QueryContext.execute(QueryContext.java:432) org.basex.query.QueryProcessor.execute(QueryProcessor.java:97) org.basex.core.cmd.AQuery.query(AQuery.java:91) org.basex.core.cmd.XQuery.run(XQuery.java:20) org.basex.core.Command.run(Command.java:345) org.basex.core.Command.exec(Command.java:324) org.basex.core.Command.execute(Command.java:76) org.basex.gui.GUI.exec(GUI.java:404) org.basex.gui.GUI$6.run(GUI.java:355) -- Yves Roos www.lifl.fr/~yroos

2 1

Concurrency, maximum number of concurrent users / queries
by Peter Oostwoud-Sibiryak 05 Apr '12

05 Apr '12

Dear readers, I have a question about concurrency. In the documentation I read that the default amount of concurrent reads is 8. But as it seems quite low, is this "just a number", or is BaseX limited on this aspect? How many concurrent readers / writers does BaseX support? Would it be possible to use BaseX as a search system for a high visitor website, for example like Amazon? I read the documentation for a commercial supplier of XML database solutions EMC, and they have a nice document on this for their solution. http://www.emc.com/collateral/software/white-papers/h4662-xdb-performance-w… Thanks in advance for your answers. Best regards, Peter

2 1

Exhausting PermGen space when using xar extensions w/ Java modules?
by Charles Duffy 05 Apr '12

05 Apr '12

Howdy -- I'm occasionally getting the following after a BaseX instance has been up and accepting queries for some time: [XPST0017] Class cannot be initialized: PermGen space. As I understand it, PermGen space is used during classloading. I'm using a Java extension (packaged in a xar); as BaseX has a fair bit of custom code around classloading, this seems the obvious first place to start looking. That said -- has anyone already seen this? (By the way -- without looking at the code, I would expect new classloading to only happen if the repo holding this plugin is being uninstalled and reinstalled; is this expectation accurate, or are plugins reloaded within a running instance more frequently?)

2 3

Shouldn't condition and true be a no-op?
by Meredith Gregory 05 Apr '12

05 Apr '12

Dear BaseXer's, The following query for $xqV1 in collection( 'localex' )//kRecord let $xqV2 := $xqV1/*[1] , $xqV7 := $xqV1/*[2] where ( count($xqV1/*) = 2 ) and ( for $xqV3 in $xqV1/node let $xqV4 := $xqV3/*[1] where ( count($xqV3/*) = 1 ) and ( for $xqV5 in $xqV3/uid let $xqV6 := $xqV5/*[1] where ( count($xqV5/*) = 1 ) and ( ( ( $xqV6 = <string>uid.value</string> ) or ( fn:string( fn:node-name( $xqV6 ) ) = "var" ) ) ) and ( $xqV4 = $xqV5 ) return $xqV5 ) and ( $xqV2 = $xqV3 ) return $xqV3 ) return $xqV1 returns our expected result, while for $xqV1 in collection( 'localex' )//kRecord let $xqV2 := $xqV1/*[1] , $xqV7 := $xqV1/*[2] where ( count($xqV1/*) = 2 ) and ( for $xqV3 in $xqV1/node let $xqV4 := $xqV3/*[1] where ( count($xqV3/*) = 1 ) and ( for $xqV5 in $xqV3/uid let $xqV6 := $xqV5/*[1] where ( count($xqV5/*) = 1 ) and ( ( ( $xqV6 = <string>uid.value</string> ) or ( fn:string( fn:node-name( $xqV6 ) ) = "var" ) ) ) and ( $xqV4 = $xqV5 ) return $xqV5 ) and ( $xqV2 = $xqV3 ) return $xqV3 ) and ( true ) return $xqV1 which is the same query with an 'and ( true )' added to the outer where-clause returns no results. Should we expect that for ... let ... where C return ... == for ... let ... where C and ( true ) return ... ? Best wishes, --greg -- L.G. Meredith Managing Partner Biosimilarity LLC 7329 39th Ave SW Seattle, WA 98136 +1 206.650.3740 http://biosimilarity.blogspot.com

2 3

Problem with BaseX inserting a namespace … how do I stop it
by Mike Hawkes 05 Apr '12

05 Apr '12

Hi I have a weird problem ... I'm running a query via the PHP interface and run the following query: declare variable $DB external; insert node <audit QID='C54B14ED-C748-4DF0-87F2-91F505BE207B' UID='i1' guid='CC9D4D2B-B380-494B-B0F6-4D72471557B0' sessionID='48090b7f0e3a62a42a0457a3e88301ca' mode='active' date='2012-04-02T12:21:05+00:00'/> into doc($DB)/root/auditlog -- BaseX log shows that it gets the query as-is. When I look at the data within the database by running the XQuery /root/auditlog I find that BaseX has inserted a namespace attribute as follows: <audit xmlns="http://www.w3.org/1999/xhtml" QID="C54B14ED-C748-4DF0-87F2-91F505BE207B" UID="i1" guid="CC9D4D2B-B380-494B-B0F6-4D72471557B0" sessionID="48090b7f0e3a62a42a0457a3e88301ca" mode="active" date="2012-04-02T12:21:05+00:00"/> How do I stop this occurring? It only does it on the audit components, not on anything else inserted by the PHP script. So, if I run two insert node queries, the first will run normally, the audit update causes the xmlns attribute to appear, effectively putting it in a different namespace to the other data inserted by the PHP. The PHP script is as follows: $audit = "declare variable \$DB external; " . "insert node <audit QID='$queryID' UID='$userID' " . "guid='$guid' sessionID='" . session_id() . "' " . "mode='active' " . "date='$dateTime'/> into doc(\$DB)/root/auditlog"; $query = $session->query( $audit ); $query->bind( 'DB', $DB); $query->bind( 'SYSDATA', $SYSDATA ); $query->execute(); $query->close(); Thanks in advance for any suggestions. Mike

4 16

Moving to log4j, java.util.logging, Apache Commons Logging, etc?
by Charles Duffy 04 Apr '12

04 Apr '12

Howdy -- Right now, logging in BaseX is managed through org.basex.server.Log, allocated within each BaseXServer instance and passed to classes such as ClientListener with a known need to do logging. Compared to common logging approaches, this is somewhat unfortunate -- any class not passed a reference to the Log instance is unable to perform logging, and functionality common to log4j-derived logging frameworks (such as fine-grained log level and destination control) is unavailable. Is the decision to use an in-house logging framework open to reconsideration? I'd be willing to do a first-draft cut on a transition to log4j, Sun's java.util.logging, or Apache Commons Logging (a thin indirection layer which can use either of those as an underlying backend) if there's agreement to do so.

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