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5269 discussions

USPTO XML format causes BaseX GUI errors
by Jose Rey 29 May '14

29 May '14

Hi, I am new to BaseX and will attempt to use it to analyze xml datasets from R at some point in the near future. I am using a BaseX GUI under Windows-7 operating system and had an error while trying to create a database using the GUI by using an XML file as input. The file comes from the US Patents and Trademarks Office (USPTO), and the larger XML datasets they provide have the same problem. The error text is: Command: CREATE DB ipgb20110104Sample C:/Users/admin/Downloads/ipgb20110104Sample.xmlError:"C:/Users/admin/Downloads/ipgb20110104Sample.xml" (Line 306): The processing instruction target matching "[xX][mM][lL]" is not allowed. The XML document I am trying to open is contained in this zip file: http://www.uspto.gov/products/ipgb110104-sample.zip The link to the document is in this page: http://www.uspto.gov/products/xml-resources.jsp under the "Patent Grant Data / XML ST. 36 (ICE) v4.2 (a.k.a. Red Book) (2007 - 2012)" section of the page, under the "Sample Documents (Bibliographic)" bulletpoint >From searching online, I found that the error is because of poor formatting in the file. However, larger datasets of the same kind (USPTO bulk download @ Google) have the same problem. In the specific case of the file I mention, it has a carriage return in the first line, and then has several concatenated XML files, which is the case of the larger XML files from the USPTO. My question is: Is there a work around to this error/problem? Can I somehow tell BaseX to ignore or somehow acknowledge that mistake and load the file(s). Thank you so much, Jose -- Jose I. Rey onlyrey(a)gmail.com

2 2

How to change processor to Saxon
by emchateau＠laposte.net 28 May '14

28 May '14

Using based to publish TEI-XML files, allows to take benefits from the Java's environment using XSLT 2.0. But we didn't cope with putting Saxon in the Classpath for BaseX. Is there any simple steps doing it ? On a mac, we were able to do it by putting the Saxon's jar files into `/Library/Java/Extensions/` Running basexhttp, the expression `xslt:processor()` returns "Saxon" and `xslt:version()` returns "2.0". On an ubuntu machine, there is no such directory for Java. We've first tried to set the CLASSPATH with `export CLASSPATH=/usr/share/java/saxon9he.jar` (and various other things) unhopely without success. Your help would be very welcome ! Emmanuel Chateau and Philippe Pons

4 3

[FORG0006] Unknown method:
by Erol Akarsu 28 May '14

28 May '14

I am getting this error when I call a java method from inside xquery script. I am using basex 7.8.2 Java constructor initialization (aBlob:new) went fine. Even I can call close method w/o any issue. but when I call insertImage3 in xquery script, I am getting error [FORG0006] Unknown method I compiled the class into jar file and put it into libs folder of basex installation folder. I am using basexgui.bat to open basex gui that will load all jars in libs folder. Is there anything I could not see here? I appreciate your help Stopped at D:/StepToDAR/DARImport.xq, 90/35: [FORG0006] Unknown method: AddBlob.insertImage2(AddBlob, xs:integer, xs:string). declare namespace aBlob ="com.ferguson.blobmanager.AddBlob"; let $bm := aBlob:new($connUrl,$username,$passwd) let $r1 := aBlob:insertImage2($bm,xs:integer(3333),xs:string("eeeee")) public class AddBlob { public AddBlob (String connUrl,String username,String passwd) throws SQLException { } public void insertImage3( String fileName, int id) { System.out.println ("test message here"); } public void close () throws SQLException { connection.commit(); connection.close(); } }

3 3

May 26th snapshot and very slow batch processing
by France Baril 27 May '14

27 May '14

Hi, I updated to the May 26th snapshot and one batch process that used to take 45 seconds now takes more than 25 minutes to run. A couple of months ago we had that issue, we were asked if we were updating files that use namespaces... and then that lead to a new snapshot. I never got the details of the issue, but this has a very familiar feel. Could the namespace processing issue be back? -- France Baril Architecte documentaire / Documentation architect france.baril(a)architextus.com (514) 572-0341

2 3

apply variable bindings to command scripts
by Fabrice Etanchaud 25 May '14

25 May '14

Dear all, Currently, in order to obtain tailored command scripts, I found the following solution : A template test.bxs file : <commands> <open name='${DBNAME}'/> <xquery> <![CDATA[ (/document)[1] ]]> </xquery> <close/> </commands> A bash script test.sh: #!/bin/bash DBNAME=de-dpma-u-meta eval "cat <<EOF $(<$1) EOF " | basex -c- And then call : ./test.sh test.bxs Could it be possible for the variable bindings to be applied also to script commands, So basex -bDBNAME=de-dpma-u-meta test.bxs does the whole job ? that would work also for commands' sequences like : <set option='bindings'>..... <execute> or <run> Merci ! Best regards, Fabrice

2 5

Error handling
by Marco Lettere 25 May '14

25 May '14

Hello all, the error interception functions are pretty useful. My "feature request" here is whether it could be possible to overcome: "XQuery runtime errors can be processed via /error annotations/. A single argument must be supplied, which represents the QName of the error to be caught. A wildcard |*| may be specified to catch all possible errors. A function can only have a single error annotation:" It could be useful to have at least a second level of wildcards on the QName prefix in order to be able to differentiate behaviours according to categories of errors. |%rest:error||(||"ns1:*"||)| A more fine grained filtering (i.e. comma separated list of exception codes) could also be useful but since I don't understand the difficulty of building this into the code I won't ask too much. The only alternative I see at the moment is a single function with a switch or a lot of replicated functions. What is your opinion on this? Thanks and regards, Marco.

2 2

ArrayOutofBound exception on snapshot
by Marco Lettere 25 May '14

25 May '14

Hello all, we are investigating on the latest snapshot in order to check how our code cleans up itself when reducing the overhead of the "updating" code by using MIXED UPDATES. We started experiencing the Index out of bound Exception on a particular insert of a complex XML document. I worked heavily on reducing the document to the smallest example that causes the exception getting to this: <a b="1" c="2" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"> <b> <item x="1" w="2"/> </b> <n value="1" xsi:type="xs:string"/> <n value="2" xsi:type="xs:string"/> </a> Any change that reduces the XML causes the db:add to work. When inserting directly with db:add it works. When putting the same db:add in a restxq it still works. When passing the XML as postbody and putting the $postbody parameter in the db:add the exception occurs. declare %rest:path("test1") %rest:POST("{$postbody}") %rest:consumes("application/xml") function page:upd($postbody) { db:add("accountingrlus", document { $postbody } , "coll1/coll2/doc1.xml") }; The error is not very explanatory since the -d output looks just like this: MIXUPDATES: true Improper use? Potential bug? Your feedback is welcome: Contact: basex-talk(a)mailman.uni-konstanz.de Version: BaseX 8.0 beta 06146e9 Java: Oracle Corporation, 1.7.0_51 OS: Linux, i386 Stack Trace: java.lang.ArrayIndexOutOfBoundsException _ REQUEST _________________________________ [POST /test1]@8945989 org.eclipse.jetty.server.Request@888145 - DNT: 1 - Host: localhost:8984 - Accept: text/html,application/xhtml+xml,application/xml;q=0.9,*/*;q=0.8 - Content-Length: 200 - Content-Type: application/xml; charset=UTF-8 - Accept-Language: en-US,en;q=0.5 - Pragma: no-cache - Connection: keep-alive - User-Agent: Mozilla/5.0 (X11; Linux i686; rv:28.0) Gecko/20100101 Firefox/28.0 - Cache-Control: no-cache - Accept-Encoding: gzip, deflate _ RESPONSE ________________________________ HTTP/1.1 500 Unexpected error: Improper use? Potential bug? Your feedback is welcome: Contact: basex-talk(a)mailman.uni-konstanz.de Version: BaseX 8.0 beta 06146e9 Java: Oracle Corporation, 1.7.0_51 OS: Linux, i386 Stack Trace: java.lang.ArrayIndexOutOfBoundsException Content-Type: text/html;charset=ISO-8859-1 Cache-Control: must-revalidate,no-cache,no-store Content-Length: 1860 Thanks for the support, Marco.

5 7

Words beginning with diacritics sorted oddly
by Chris Yocum 22 May '14

22 May '14

-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Hi Everyone, Thank your help last time. I was hoping you might be able to answer another question for me. I have a database with many words where the first letter has a diacritic. When I apply "order by" on these, the diacritic led words are sorted at the bottom instead of in their non-diacritic letter place. I could use fn:normalize-unicode but I was wondering what a "normal" sort order would be. All the best, Chris -----BEGIN PGP SIGNATURE----- Version: GnuPG v1 iF4EAREIAAYFAlN+Ey4ACgkQDjE+CSbP7Hrg6QD+JFvOIGYmvJ5BgIBlWNXWiFdo bryGT4xnP2amYekt9rQA/i+b7l9muugadRIvGYe0Kdie1pMwFT39n0kufC0oDueO =oe2J -----END PGP SIGNATURE-----

2 1

multi-core performance of BaseX
by the joj 22 May '14

22 May '14

Greetings all, I was wondering if anyone has some information about BaseX multi-core performance. Does BaseX utilize multi-core architecture to parallel-process the Xqueries? Cheers, R

3 5

Set DBPATH
by ChandraSekhar 22 May '14

22 May '14

Dear Team How to change or set the dbpath while creating the collection.Earlier we are able set in 6.7 versions now in latest version we are not able to set.This is in java.Setting the dbpath is recommended in my requirement.Please do the needfull. Thanks&Regards Chandra Sekhar -- This message is for the intended recipient only. If you are not the intended recipient you are notified that disclosing, copying, distributing or taking any action in reliance on the contents of the information is strictly prohibited. __

2 1

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