Mailing-List: contact user-help@uima.apache.org; run by ezmlm
Precedence: bulk
Reply-To: user@uima.apache.org
Received-SPF: pass (athena.apache.org: domain of heljohns@cisco.com designates
 173.37.86.78 as permitted sender)
From: "Helen Johnson -X (heljohns - Infobahn Softworld Inc at Cisco)"
	<heljohns@cisco.com>
To: "user@uima.apache.org" <user@uima.apache.org>
Subject: RE: SimpleServer, & instantiating CAS with custom typesystem?
Thread-Topic: SimpleServer, & instantiating CAS with custom typesystem?
Thread-Index: Ac4OIBcg9JTXPj5kTLKiX9VF5sauuAAnNsMAAAVh8jAACfsPgA==
Date: Tue, 19 Feb 2013 23:43:32 +0000
Message-ID: <DDBD238412B1A54EBE89AADFCF6D369511050516@xmb-rcd-x03.cisco.com>
References: <DDBD238412B1A54EBE89AADFCF6D3695110503FB@xmb-rcd-x03.cisco.com>
 <kfvjk5$hhq$1@ger.gmane.org>
 <DDBD238412B1A54EBE89AADFCF6D369511050447@xmb-rcd-x03.cisco.com>
In-Reply-To: <DDBD238412B1A54EBE89AADFCF6D369511050447@xmb-rcd-x03.cisco.com>
Accept-Language: en-US
Content-Language: en-US
Content-Type: text/plain; charset="us-ascii"
Content-Transfer-Encoding: quoted-printable
MIME-Version: 1.0

So it turns out I cannot invoke
cas.reset()=20
from inside an annotator, nor can I set anew the text to be processed using
cas.setDocumentText()
once the doc-text has already been set in the SimpleServer Service.java cla=
ss.

What are my options for altering the document text inside an annotator afte=
r the SimpleServer Service.java has already set the document text?
-Helen

-----Original Message-----
From: Helen Johnson -X (heljohns - Infobahn Softworld Inc at Cisco)=20
Sent: Tuesday, February 19, 2013 7:05 AM
To: user@uima.apache.org
Subject: RE: SimpleServer, & instantiating CAS with custom typesystem?

Thanks for your reply, Jens.

I admit I had been avoiding setting the text of the CAS to be the entire XM=
L string I get back from the first REST service because it is a massive str=
ing and I only want a couple nodes from that xml string to be processed thr=
oughout the UIMA pipeline. But I see your point.


So then, in this new AE,  I retrieve the entire XML string from the CAS, do=
 the zone-information processing from the specific nodes of the XML. I assu=
me it is straightforward to then reset the CAS text to be just this text I =
have found in the original XML.  Specifically, I would use CAS.reset() to e=
mpty the CAS of the original (full XML) text, then jCAS.setDocumentText() w=
ith the new string of just the relevant text, as well as load all the doc-z=
one annotations at this point. Is this right?

Cheers,
Helen

-----Original Message-----
From: Jens Grivolla [mailto:j+asf@grivolla.net]=20
Sent: Tuesday, February 19, 2013 3:20 AM
To: user@uima.apache.org
Subject: Re: SimpleServer, & instantiating CAS with custom typesystem?

Hi, SimpleServer itself is in a way your CR, creating a CAS with the docume=
nt text you sent. Why do you want to change SimpleServer, it seems that you=
 only want to add annotations to the CAS, not fundamentally change how the =
CAS is created.

It seems to me that it would be far easier to just create an AE that adds t=
hose annotations. Then you won't have any typesystem issues either, since t=
he AE would have the appropriate typesystem.

HTH,
Jens

On 02/18/2013 10:37 PM, Helen Johnson -X (heljohns - Infobahn Softworld Inc=
 at Cisco) wrote:
> I'm stumped:
>
> I have a UIMA pipeline that starts with a CollectionReader that
>
> -          reads XML input (response from a REST service),
>
> -          identifies a couple of relevant XML nodes
>
> -          makes document-level annotations from the relevant nodes (titl=
e, document body, footnote section)
>  From there, the AnalysisEngine portion of the pipeline has many AEs that=
 I've wrapped into a single AggregateAnalysisEngine.
> The CollectionReader and the AAE all work correctly in this pipeline.
>
> Now I need to transfer this pipeline into a SimpleServer REST service env=
ironment.
> I've created a PEAR of the AAE portion of the pipeline, but I can't inclu=
de the CollectionReader in this PEAR.
> First question:
> It is my understanding the CR cannot be included in the PEAR for the simp=
leServer, am I correct in this?
>
> In order to get those document-zoning annotations of title, body & footno=
te, I have added some methods to the Service.java class in the SimpleServer=
 package that do the XML parsing and then do the adding of these annotation=
s to the JCAS before the AAE is called. The error that is being thrown at t=
his point is this:
>
> "The server encountered an internal error (JCas type "myPackage.DocClass.=
ArticleMainTitle" used in Java code, but was not declared in the XML type d=
escriptor.) that prevented it from fulfilling this request."
>
> Second question:
> Where is Service.java looking for the typesystem xml file to be? I have t=
ried all of the following, with the same error result:
>
> -          put the typesystem descriptor file, myTSD.xml, in SimpleServer=
/lib
>
> -          create a jar containing myTSD.xml, put it into SimpleServer/li=
b and add that to the build path
>
> -          (after the two above attempts), in SimpleServer project proper=
ties, add "lib" to the UIMA CDE Property Page
>
> -          in SimpleServer project properties, in UIMA Type System, point=
 to the myTSD.xml file in lib
>
> -          put myTSD.xml in SimpeServer/WebContent/WEB-INF/lib
>
> -          put the jar containing myTSD.xml in the SimpleServer/WebConten=
t/WEB-INF/lib
>
> -          put myTSD.xml in SimpleServer/WebContent/WEB-INF/resources
>
> Final question:
> When a CAS gets instantiated (or reset, as it does in Service.java), how =
can I tell it to use a custom typesystem, and where will it look for that t=
ypesystem.xml file within the SimpleServer project?
>
> Thank you,
> Helen Johnson
>
>