Return-Path: X-Original-To: archive-asf-public-internal@cust-asf2.ponee.io Delivered-To: archive-asf-public-internal@cust-asf2.ponee.io Received: from cust-asf.ponee.io (cust-asf.ponee.io [163.172.22.183]) by cust-asf2.ponee.io (Postfix) with ESMTP id A3F6B200B95 for ; Tue, 27 Sep 2016 22:22:00 +0200 (CEST) Received: by cust-asf.ponee.io (Postfix) id A26C9160AD2; Tue, 27 Sep 2016 20:22:00 +0000 (UTC) Delivered-To: archive-asf-public@cust-asf.ponee.io Received: from mail.apache.org (hermes.apache.org [140.211.11.3]) by cust-asf.ponee.io (Postfix) with SMTP id 8D7DE160AB9 for ; Tue, 27 Sep 2016 22:21:58 +0200 (CEST) Received: (qmail 82080 invoked by uid 500); 27 Sep 2016 20:21:57 -0000 Mailing-List: contact user-help@ctakes.apache.org; run by ezmlm Precedence: bulk List-Help: List-Unsubscribe: List-Post: List-Id: Reply-To: user@ctakes.apache.org Delivered-To: mailing list user@ctakes.apache.org Received: (qmail 82070 invoked by uid 99); 27 Sep 2016 20:21:57 -0000 Received: from pnap-us-west-generic-nat.apache.org (HELO spamd2-us-west.apache.org) (209.188.14.142) by apache.org (qpsmtpd/0.29) with ESMTP; Tue, 27 Sep 2016 20:21:57 +0000 Received: from localhost (localhost [127.0.0.1]) by spamd2-us-west.apache.org (ASF Mail Server at spamd2-us-west.apache.org) with ESMTP id 131701A0221 for ; Tue, 27 Sep 2016 20:21:57 +0000 (UTC) X-Virus-Scanned: Debian amavisd-new at spamd2-us-west.apache.org X-Spam-Flag: NO X-Spam-Score: 1.279 X-Spam-Level: * X-Spam-Status: No, score=1.279 tagged_above=-999 required=6.31 tests=[DKIM_SIGNED=0.1, DKIM_VALID=-0.1, HTML_MESSAGE=2, RCVD_IN_DNSWL_LOW=-0.7, RCVD_IN_MSPIKE_H3=-0.01, RCVD_IN_MSPIKE_WL=-0.01, SPF_PASS=-0.001] autolearn=disabled Authentication-Results: spamd2-us-west.apache.org (amavisd-new); dkim=pass (2048-bit key) header.d=phemi-com.20150623.gappssmtp.com Received: from mx2-lw-us.apache.org ([10.40.0.8]) by localhost (spamd2-us-west.apache.org [10.40.0.9]) (amavisd-new, port 10024) with ESMTP id De1YIUTuFMfo for ; Tue, 27 Sep 2016 20:21:54 +0000 (UTC) Received: from mail-it0-f53.google.com (mail-it0-f53.google.com [209.85.214.53]) by mx2-lw-us.apache.org (ASF Mail Server at mx2-lw-us.apache.org) with ESMTPS id 99B945FAF1 for ; Tue, 27 Sep 2016 20:21:54 +0000 (UTC) Received: by mail-it0-f53.google.com with SMTP id j69so25538309itb.0 for ; Tue, 27 Sep 2016 13:21:54 -0700 (PDT) DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=phemi-com.20150623.gappssmtp.com; s=20150623; h=mime-version:in-reply-to:references:from:date:message-id:subject:to; bh=QfwJnGi/b/2KnKNSQ439Y3hcDnEkRjaR4zwIJr9EayQ=; b=jfQa9jSH4EHj6OMGNHPIeMi9Fkf5MBksr7M9y+qsrmTuXKlEATb6LScjHolOH8rdEs 4zUxC0ZU4LmeQHpNjanCdffA44jvI1pwBrnsSnLigSFAhx7UMFxjue4zUD/2OBD5DMXT ANOUFQ/YSOhaPyhXJeBRsZYuAqT6TefIvaKl7qyL3jxKg/2KSbkbV6WBmrnmIFKxnPLA XLelwjnm4itUIWU/ffrUUP7IFzMHIFhy7KHx+CM2hjqwTrZlbC56difSKRMa0c/r0/ol FM0/5JLJUUYHAGHezdKiq0eemtG4tkP43HGSK47d8ZGr1YzWVA1fdVqhGIf0qdhKlK/y sixg== X-Google-DKIM-Signature: v=1; a=rsa-sha256; c=relaxed/relaxed; d=1e100.net; s=20130820; h=x-gm-message-state:mime-version:in-reply-to:references:from:date :message-id:subject:to; bh=QfwJnGi/b/2KnKNSQ439Y3hcDnEkRjaR4zwIJr9EayQ=; b=cvTBmwT726b4JkQ3EJjBC9BgufkyAaA7VxwMDoz8uTbVsJOgnp7jCZfzgADZOc95M/ yovkbgykhoMN+Gb/styWW4wpM4f/Q2y972crHG9YVmBcCtdwadyC6SCHJ7YjMDx61SNO 4Vfxw80XYzxdGDey8O2wik0AcExcCbvuYXDULHuEnQZWMy1oKqkSJrp1nfZSFEvBCgdT wCTibJw6VA0pXPgVHdZUODU/Pz3CaThFDU9mrLQQBM+5byIB7MavNkXAm0x33p+61R8Q qT17a7D3UL9KoR535riVimvVtzw765GFdgmO9Kgm9un6rX006dGmn9ymm+qMgysMPho5 sQWw== X-Gm-Message-State: AA6/9RkaSYFgEVeUttsiQLLVflz/s2a/nHzD+/ERJdxiPQ6sVFBQ+9uVdXNkOfccsTttrz1cKWbpL9rcxvtUqC3u X-Received: by 10.36.225.11 with SMTP id n11mr7117173ith.90.1475007713898; Tue, 27 Sep 2016 13:21:53 -0700 (PDT) MIME-Version: 1.0 Received: by 10.64.106.69 with HTTP; Tue, 27 Sep 2016 13:21:53 -0700 (PDT) In-Reply-To: References: From: Bandeep Singh Date: Tue, 27 Sep 2016 13:21:53 -0700 Message-ID: Subject: Re: Trouble loading AE To: user@ctakes.apache.org Content-Type: multipart/alternative; boundary=94eb2c19e438d41959053d82fe55 archived-at: Tue, 27 Sep 2016 20:22:00 -0000 --94eb2c19e438d41959053d82fe55 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: quoted-printable If you are trying to run the AggregatePlaintextFastUMLSProcessor.xml as described by the User guide , my best guess is that you are missing the folder */apache-ctakes-3.2.2/resources/org/apache/ctakes/dictionary/fast * On Tue, Sep 27, 2016 at 1:09 PM, Bandeep Singh wrote: > Can you share the complete stack trace (error logs). And may be we will > know what is going on. > > > On Tue, Sep 27, 2016 at 12:47 PM, Gianfrancesco, Milena < > Milena.Gianfrancesco@ucsf.edu> wrote: > >> Thanks, yes, so I am getting this error message in response to loading >> the AE even though resources have been downloaded as specified in the Us= er >> Manuel. Any other thoughts as to why this may be occurring? Do any of th= e >> files within the resources folder need to be modified before loading? >> >> >> From: Bandeep Singh >> Reply-To: "user@ctakes.apache.org" >> Date: Tuesday, September 27, 2016 at 11:55 AM >> >> To: "user@ctakes.apache.org" >> Subject: Re: Trouble loading AE >> >> Hi Milena, >> >> I am referring to the same resources mentioned in the User Install Guide >> doc. >> >> >> -Bandeep >> >> On Tue, Sep 27, 2016 at 11:05 AM, Gianfrancesco, Milena < >> Milena.Gianfrancesco@ucsf.edu> wrote: >> >>> Hi Bandeep, >>> >>> I downloaded resources as instructed in the User Install Guide and >>> copied them into the resources folder. Is that what you are referring t= o? >>> Or it there another set of UMLS resources to be downloaded? There didn= =E2=80=99t >>> appear to be so in the link. >>> >>> Thanks >>> >>> From: Bandeep Singh >>> Reply-To: "user@ctakes.apache.org" >>> Date: Wednesday, September 21, 2016 at 3:54 PM >>> To: "user@ctakes.apache.org" >>> >>> Subject: Re: Trouble loading AE >>> >>> Hi, >>> Glad that it worked ! >>> >>> I think resources are missing in your cTakes installation. >>> Did you download the UMLS resources separately from >>> https://sourceforge.net/projects/ctakesresources/files/?source=3Dnavbar >>> And You have to put these resources under >>> *org/apache/ctakes/dictionary/* >>> >>> Hope that Helps ! >>> >>> Bandeep >>> >>> On Wed, Sep 21, 2016 at 3:45 PM, Gianfrancesco, Milena < >>> Milena.Gianfrancesco@ucsf.edu> wrote: >>> >>>> Thanks, Bandeep. That seems to have solved that issue, but now when I >>>> try to load AE I get an error message popup that states: >>>> "org.apache.uima.resource.ResourceInitializationException". I'm not >>>> sure what this means? It only happens when I try to load the AEs that >>>> utilize UMLS. >>>> >>>> Thanks in advance. >>>> >>>> >>>> >>>> ------------------------------ >>>> *From:* Bandeep Singh [bsingh@phemi.com] >>>> *Sent:* Tuesday, September 13, 2016 5:24 PM >>>> *To:* user@ctakes.apache.org >>>> *Subject:* Re: Trouble loading AE >>>> >>>> Hi Milena, >>>> >>>> It looks like a classic example of Java version mismatch. One of the >>>> dependencies of cTakes is Java 8 >>>> Please make sure you have JAVA SDK installed and not JRE. I have >>>> OpenJDK 8 running on my system and cTakes runs fine on my system. >>>> >>>> -Bandeep >>>> >>>> On Tue, Sep 13, 2016 at 2:32 PM, Gianfrancesco, Milena < >>>> Milena.Gianfrancesco@ucsf.edu> wrote: >>>> >>>>> Hello, >>>>> >>>>> I have just installed cTakes and followed instructions in the 3.2 Use= r >>>>> Install Guide. However, I am unable to load an AE. I have a UMLS user= name >>>>> and password, and have updated the appropriate scripts as outlined in= the >>>>> User Guide, yet I get this error when trying to load any AE (even the >>>>> non-UMLS ones): >>>>> >>>>> Exception in thread "AWT-EventQueue-0" java.lang.UnsupportedClassVers= ionError: >>>>> org/apache/ctakes/dependency/parser/ae/ClearNLPDependencyParserAE : >>>>> Unsupported major.minor version 51.0 >>>>> >>>>> at java.lang.ClassLoader.defineClass1(Native Method) >>>>> >>>>> at java.lang.ClassLoader.defineClassCond(ClassLoader.java:637) >>>>> >>>>> at java.lang.ClassLoader.defineClass(ClassLoader.java:621) >>>>> >>>>> at java.security.SecureClassLoader.defineClass(SecureClassLoade >>>>> r.java:141) >>>>> >>>>> at java.net.URLClassLoader.defineClass(URLClassLoader.java:283) >>>>> >>>>> at java.net.URLClassLoader.access$000(URLClassLoader.java:58) >>>>> >>>>> at java.net.URLClassLoader$1.run(URLClassLoader.java:197) >>>>> >>>>> at java.security.AccessController.doPrivileged(Native Method) >>>>> >>>>> at java.net.URLClassLoader.findClass(URLClassLoader.java:190) >>>>> =E2=80=A6=E2=80=A6 + more >>>>> >>>>> I have double checked that I have the latest Java software. Any idea >>>>> what could be causing this error? >>>>> >>>>> Thank you! >>>>> >>>>> Milena >>>>> >>>> >>>> >>> >> > --94eb2c19e438d41959053d82fe55 Content-Type: text/html; charset=UTF-8 Content-Transfer-Encoding: quoted-printable
If you are trying to run the=C2=A0AggregatePlaintextFastUMLSProcessor.xml as described by the User = guide , my best guess is that you are missing the folder=C2=A0/apache-ctakes-3.2.2/resources/org/apache/ctakes/dictionary/= fast=C2=A0



On Tue, Sep 27, 2016 at 1:09 PM, Bandeep Singh <bsingh@phemi.com= > wrote:
C= an you share the complete stack trace (error logs). And may be we will know= what is going on.


On Tue, Sep 2= 7, 2016 at 12:47 PM, Gianfrancesco, Milena <Milena.Gianfrances= co@ucsf.edu> wrote:
Thanks, yes, so I am getting this error message in response to loading= the AE even though resources have been downloaded as specified in the User= Manuel. Any other thoughts as to why this may be occurring? Do any of the = files within the resources folder need to be modified before loading?


From: Bandeep Singh <bsingh@phemi.com>
Reply-To: "user@ctakes.apache.org" &= lt;user@ctakes.= apache.org>
Date: Tuesday, September 27,= 2016 at 11:55 AM

To: "user@ctakes.apache.org" <user@ctakes.apache= .org>
Subject: Re: Trouble loading AE

Hi Milena,

I am referring to the same resources mentioned in the=C2=A0User In= stall Guide doc.


-Bandeep

On Tue, Sep 27, 2016 at 11:05 AM, Gianfrancesco,= Milena <Mile= na.Gianfrancesco@ucsf.edu> wrote:
Hi Bandeep,

I downloaded resources as instructed in the User Install Guide and cop= ied them into the resources folder. Is that what you are referring to? Or i= t there another set of UMLS resources to be downloaded? There didn=E2=80=99= t appear to be so in the link.=C2=A0

Thanks=C2=A0

From: Bandeep Singh <bsingh@phemi.com>
Reply-To: "user@ctakes.apache.org" &= lt;user@ctakes.= apache.org>
Date: Wednesday, September 21, 2016= at 3:54 PM
To: "user@ctakes.apache.org" <user@ctakes.apache= .org>

Subject: Re: Trouble loading AE

Hi,
Glad that it worked !

I think resources are missing in your cTakes installation.
Did you download the UMLS resources separately from=C2=A0https://sourceforge.net/projects/ctakesresources/files/<= wbr>?source=3Dnavbar=C2=A0
And You have to put these resources under=C2=A0org/apache/ctakes/di= ctionary/

Hope that Helps !

Bandeep

On Wed, Sep 21, 2016 at 3:45 PM, Gianfrancesco, = Milena <Mile= na.Gianfrancesco@ucsf.edu> wrote:
Thanks, Bandeep. That seems to have solved that issue, but now when I try = to load AE I get an error message popup that states: "org.apache.uima.= resource.ResourceInitializationException". I'm not sure what this means? It only happens when I try to load the A= Es that utilize UMLS.

Thanks in advance.



From: Bandeep Singh [bsingh@phemi.com]
Sent: Tuesday, September 13, 2016 5:24 PM
To: user= @ctakes.apache.org
Subject: Re: Trouble loading AE

Hi Milena,

It looks like a classic example of Java version mismatch. One of the d= ependencies of cTakes is Java 8
Please make sure you have JAVA SDK installed and not JRE. I have OpenJ= DK 8 running on my system and cTakes runs fine on my system.

=C2=A0-Bandeep

On Tue, Sep 13, 2016 at 2:32 PM, Gianfrancesco, = Milena <Mile= na.Gianfrancesco@ucsf.edu> wrote:
Hello,

I have just installed cTakes and followed instructions in the 3.2 User= Install Guide. However, I am unable to load an AE. I have a UMLS user name= and password, and have updated the appropriate scripts as outlined in the = User Guide, yet I get this error when trying to load any AE (even the non-UMLS ones):

Exception in thread "AWT-EventQueue-0" java.lang.Unsupport= edClassVersionError: org/apache/ctakes/dependency/parser/ae/Clear= NLPDependencyParserAE : Unsupported major.minor version 51.0

at java.lang.ClassLoader= .defineClass1(Native Method)

at java.lang.ClassLoader= .defineClassCond(ClassLoader.java:637)

at java.lang.ClassLoader= .defineClass(ClassLoader.java:621)

at java.security.SecureC= lassLoader.defineClass(SecureClassLoader.java:141)

at java.net.URLClassLoad= er.defineClass(URLClassLoader.java:283)

at java.net.URLClassLoad= er.access$000(URLClassLoader.java:58)

at java.net.URLClassLoad= er$1.run(URLClassLoader.java:197)

at java.security.AccessC= ontroller.doPrivileged(Native Method)

at java.net.URLClassLoad= er.findClass(URLClassLoader.java:190)

=C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =C2=A0 =E2=80=A6=E2=80= =A6 + more

=C2=A0I have double checked that I have the latest Java software= . Any idea what could be causing this error?

Thank you!

Milena


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