date:20171221

Re: Custom Dictionary connected to mysql [EXTERNAL]

2017-12-21 Thread Chahal Arora

Hi Sean,

I wanted the lookup to be case insensitive. Also wanted to go away with the
restriction of putting enteries in lowercase in database like the way it
was working with BSV.

But if lowercase enteries are expected in database then I guess modifying
database will work for me.

On Fri, 22 Dec 2017 at 12:46 AM, Finan, Sean <
sean.fi...@childrens.harvard.edu> wrote:

> Do you want your lookup to be case sensitive?  If so then new code would
> be required.  The lookup is case insensitive because it does expect the
> dictionary/database to contain only lowercase entries.  If you are ok with
> the case insensitivity then I propose that you modify your database.
> Sean
>
>
> -Original Message-
> From: Gandhi Rajan Natarajan [mailto:gandhi.natara...@arisglobal.com]
> Sent: Thursday, December 21, 2017 11:06 AM
> To: dev@ctakes.apache.org
> Subject: RE: Custom Dictionary connected to mysql [EXTERNAL]
>
> I feel Sean and Tim will be the right persons to answer this.
>
>
>
> Regards,
>
> Gandhi
>
>
>
> -Original Message-
>
> From: Chahal Arora [mailto:chahal.ar...@raxa.com]
>
> Sent: Thursday, December 21, 2017 7:32 PM
>
> To: dev@ctakes.apache.org
>
> Subject: Re: Custom Dictionary connected to mysql
>
>
>
> Hi Gandhi, Thank you for your help. It's working now. In the
> customDictionary.xml, I changed
> org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWordDictionary to
> org.apache.ctakes.dictionary.lookup2.dictionary.UmlsJdbcRareWordDictionary
>
> and org.apache.ctakes.dictionary.lookup2.concept.JdbcConceptFactory to
> org.apache.ctakes.dictionary.lookup2.concept.UmlsJdbcConceptFactory. For
> single word term, this worked without any change, but for a multi-word
> term, this was returning empty results. When I debugged, I found that the
> issue was coming at code below in DefaultJCasTermAnnotator class line 103-
> if ( hitTokens[ hit ].equals(allTokens.get( i ).getText() ) || hitTokens[
> hit ].equals( allTokens.get( i ).getVariant() ) ); This was happening due
> to the difference in string case. The input string is converted to
> lowercase, but the string from MySQL database is not converted. Right now I
> have to put all terms in my database in lower case to make it work. Do you
> know any configuration so that I don't have to deal with the case issue
> without changing DefaultJCasTermAnnotator file? When using BSV file, I am
> getting lower case sting for both input and term.
>
>
>
>
>
>
>
> Regards
>
> Chahal Arora
>
> Software Engineer
>
> Raxa
>
>
>
> On Tue, Dec 19, 2017 at 11:23 PM, Gandhi Rajan Natarajan <
> gandhi.natara...@arisglobal.com> wrote:
>
>
>
> > Hi Chahal,
>
> >
>
> > Looking at the error trace:
>
> > ‘javax.servlet.ServletException,java.io.IOException
>
> > 19 Dec 2017 17:56:01  INFO RequestMappingHandlerAdapter - Looking for
>
> > @ControllerAdvice: WebApplicationContext for namespace
>
> > 'ctakes-rest-service-servlet'’
>
> >
>
> > It looks like you are trying to mix match codes from both
>
> > ctakes-rest-service and ctakes-web-rest module I guess.
>
> > Ctakes-rest-service module is obsolete now and request you to consider
>
> > only ctakes-web-rest module  in
>
> >
> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_GoTeamEpsilon_ctakes-2Drest-2D&d=DwIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=FqnIF6F3Z8G6N9y2xdT6hsGRUtI9Gkcio-84DqbbEJM&s=6B-VtVwKMYDaxqmRYJgeUq-3W2oT9wb6XDlnckfJ9rU&e=
>
> > service/tree/master/ctakes-web-rest
>
> >
>
> > Regards,
>
> > Gandhi
>
> >
>
> > From: Chahal Arora [mailto:chahal.ar...@raxa.com]
>
> > Sent: Tuesday, December 19, 2017 8:20 PM
>
> > To: dev@ctakes.apache.org
>
> > Subject: Re: Custom Dictionary connected to mysql
>
> >
>
> > Hi Gandhi,
>
> >
>
> > With updated customDictionary.xml all errors were gone.
>
> >
>
> > I am not sure about the schema of the tables used. I have taken
>
> > reference from JdbcRareWordDictionary.java -
>
> >
> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_apache_&d=DwIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=FqnIF6F3Z8G6N9y2xdT6hsGRUtI9Gkcio-84DqbbEJM&s=JLcnqVyhD1PRoXduqLRON_SkVHeLv0q7doqV6RSn-7A&e=
>
> > ctakes/blob/trunk/ctakes-dictionary-lookup-fast/src/
>
> > main/java/org/apache/ctakes/dictionary/lookup2/dictionary/
>
> > JdbcRareWordDictionary.java  and JdbcConceptFactory.java -
>
> >
> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_apache_ctakes_blob_trunk_ctakes-2D&d=DwIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=FqnIF6F3Z8G6N9y2xdT6hsGRUtI9Gkcio-84DqbbEJM&s=cfygw3v7SDiH3Wjz_VepLVO006NEJBCH79qO3sHBlm4&e=
>
> > dictionary-lookup-fast/src/main/java/org/apache/ctakes/
>
> > dictionary/lookup2/concept/JdbcConceptFactory.java
>
> >
>
> > I am using the ctakes-rest-web server and getting all the annotation
>
> > array as empty in the result json.
>
> >
>
> > Attached tomcat logs again

RE: Custom Dictionary connected to mysql [EXTERNAL]

2017-12-21 Thread Finan, Sean

Do you want your lookup to be case sensitive?  If so then new code would be 
required.  The lookup is case insensitive because it does expect the 
dictionary/database to contain only lowercase entries.  If you are ok with the 
case insensitivity then I propose that you modify your database.
Sean

-Original Message-
From: Gandhi Rajan Natarajan [mailto:gandhi.natara...@arisglobal.com] 
Sent: Thursday, December 21, 2017 11:06 AM
To: dev@ctakes.apache.org
Subject: RE: Custom Dictionary connected to mysql [EXTERNAL]

I feel Sean and Tim will be the right persons to answer this.

Regards,

Gandhi

-Original Message-

From: Chahal Arora [mailto:chahal.ar...@raxa.com]

Sent: Thursday, December 21, 2017 7:32 PM

To: dev@ctakes.apache.org

Subject: Re: Custom Dictionary connected to mysql

Hi Gandhi, Thank you for your help. It's working now. In the 
customDictionary.xml, I changed 
org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWordDictionary to 
org.apache.ctakes.dictionary.lookup2.dictionary.UmlsJdbcRareWordDictionary

and org.apache.ctakes.dictionary.lookup2.concept.JdbcConceptFactory to 
org.apache.ctakes.dictionary.lookup2.concept.UmlsJdbcConceptFactory. For single 
word term, this worked without any change, but for a multi-word term, this was 
returning empty results. When I debugged, I found that the issue was coming at 
code below in DefaultJCasTermAnnotator class line 103- if ( hitTokens[ hit 
].equals(allTokens.get( i ).getText() ) || hitTokens[ hit ].equals( 
allTokens.get( i ).getVariant() ) ); This was happening due to the difference 
in string case. The input string is converted to lowercase, but the string from 
MySQL database is not converted. Right now I have to put all terms in my 
database in lower case to make it work. Do you know any configuration so that I 
don't have to deal with the case issue without changing 
DefaultJCasTermAnnotator file? When using BSV file, I am getting lower case 
sting for both input and term.

Regards

Chahal Arora

Software Engineer

Raxa

On Tue, Dec 19, 2017 at 11:23 PM, Gandhi Rajan Natarajan < 
gandhi.natara...@arisglobal.com> wrote:

> Hi Chahal,

>

> Looking at the error trace:

> ‘javax.servlet.ServletException,java.io.IOException

> 19 Dec 2017 17:56:01  INFO RequestMappingHandlerAdapter - Looking for

> @ControllerAdvice: WebApplicationContext for namespace

> 'ctakes-rest-service-servlet'’

>

> It looks like you are trying to mix match codes from both

> ctakes-rest-service and ctakes-web-rest module I guess.

> Ctakes-rest-service module is obsolete now and request you to consider

> only ctakes-web-rest module  in

> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_GoTeamEpsilon_ctakes-2Drest-2D&d=DwIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=FqnIF6F3Z8G6N9y2xdT6hsGRUtI9Gkcio-84DqbbEJM&s=6B-VtVwKMYDaxqmRYJgeUq-3W2oT9wb6XDlnckfJ9rU&e=

> service/tree/master/ctakes-web-rest

>

> Regards,

> Gandhi

>

> From: Chahal Arora [mailto:chahal.ar...@raxa.com]

> Sent: Tuesday, December 19, 2017 8:20 PM

> To: dev@ctakes.apache.org

> Subject: Re: Custom Dictionary connected to mysql

>

> Hi Gandhi,

>

> With updated customDictionary.xml all errors were gone.

>

> I am not sure about the schema of the tables used. I have taken

> reference from JdbcRareWordDictionary.java -

> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_apache_&d=DwIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=FqnIF6F3Z8G6N9y2xdT6hsGRUtI9Gkcio-84DqbbEJM&s=JLcnqVyhD1PRoXduqLRON_SkVHeLv0q7doqV6RSn-7A&e=

> ctakes/blob/trunk/ctakes-dictionary-lookup-fast/src/

> main/java/org/apache/ctakes/dictionary/lookup2/dictionary/

> JdbcRareWordDictionary.java  and JdbcConceptFactory.java -

> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_apache_ctakes_blob_trunk_ctakes-2D&d=DwIGaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=fs67GvlGZstTpyIisCYNYmQCP6r0bcpKGd4f7d4gTao&m=FqnIF6F3Z8G6N9y2xdT6hsGRUtI9Gkcio-84DqbbEJM&s=cfygw3v7SDiH3Wjz_VepLVO006NEJBCH79qO3sHBlm4&e=

> dictionary-lookup-fast/src/main/java/org/apache/ctakes/

> dictionary/lookup2/concept/JdbcConceptFactory.java

>

> I am using the ctakes-rest-web server and getting all the annotation

> array as empty in the result json.

>

> Attached tomcat logs again.

>

> Regards

> Chahal Arora

> Software Engineer

> Raxa

>

> On Tue, Dec 19, 2017 at 6:44 PM, Gandhi Rajan Natarajan <

> gandhi.natara...@arisglobal.com >>

> wrote:

> Not able to see any tomcat logs attached.

>

> Do you see any errors in tomcat console?

>

> Regards,

> Gandhi

>

> From: Chahal Arora [mailto:chahal.ar...@raxa.com chahal.ar...@raxa.com>]

> Sent: Tuesday, December 19, 2017 6:09 PM

> To: dev@ctakes.apache.org

> Subject: Re: Custom Dictionary connected to mysql

>

> Hi,

>

> I have updated

RE: Custom Dictionary connected to mysql

2017-12-21 Thread Gandhi Rajan Natarajan

I feel Sean and Tim will be the right persons to answer this.

Regards,
Gandhi

-Original Message-
From: Chahal Arora [mailto:chahal.ar...@raxa.com]
Sent: Thursday, December 21, 2017 7:32 PM
To: dev@ctakes.apache.org
Subject: Re: Custom Dictionary connected to mysql

Hi Gandhi, Thank you for your help. It's working now. In the 
customDictionary.xml, I changed 
org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWordDictionary to 
org.apache.ctakes.dictionary.lookup2.dictionary.UmlsJdbcRareWordDictionary
and org.apache.ctakes.dictionary.lookup2.concept.JdbcConceptFactory to 
org.apache.ctakes.dictionary.lookup2.concept.UmlsJdbcConceptFactory. For single 
word term, this worked without any change, but for a multi-word term, this was 
returning empty results. When I debugged, I found that the issue was coming at 
code below in DefaultJCasTermAnnotator class line 103- if ( hitTokens[ hit 
].equals(allTokens.get( i ).getText() ) || hitTokens[ hit ].equals( 
allTokens.get( i ).getVariant() ) ); This was happening due to the difference 
in string case. The input string is converted to lowercase, but the string from 
MySQL database is not converted. Right now I have to put all terms in my 
database in lower case to make it work. Do you know any configuration so that I 
don't have to deal with the case issue without changing 
DefaultJCasTermAnnotator file? When using BSV file, I am getting lower case 
sting for both input and term.



Regards
Chahal Arora
Software Engineer
Raxa

On Tue, Dec 19, 2017 at 11:23 PM, Gandhi Rajan Natarajan < 
gandhi.natara...@arisglobal.com> wrote:

> Hi Chahal,
>
> Looking at the error trace:
> ‘javax.servlet.ServletException,java.io.IOException
> 19 Dec 2017 17:56:01  INFO RequestMappingHandlerAdapter - Looking for
> @ControllerAdvice: WebApplicationContext for namespace
> 'ctakes-rest-service-servlet'’
>
> It looks like you are trying to mix match codes from both
> ctakes-rest-service and ctakes-web-rest module I guess.
> Ctakes-rest-service module is obsolete now and request you to consider
> only ctakes-web-rest module  in
> https://github.com/GoTeamEpsilon/ctakes-rest-
> service/tree/master/ctakes-web-rest
>
> Regards,
> Gandhi
>
> From: Chahal Arora [mailto:chahal.ar...@raxa.com]
> Sent: Tuesday, December 19, 2017 8:20 PM
> To: dev@ctakes.apache.org
> Subject: Re: Custom Dictionary connected to mysql
>
> Hi Gandhi,
>
> With updated customDictionary.xml all errors were gone.
>
> I am not sure about the schema of the tables used. I have taken
> reference from JdbcRareWordDictionary.java -
> https://github.com/apache/
> ctakes/blob/trunk/ctakes-dictionary-lookup-fast/src/
> main/java/org/apache/ctakes/dictionary/lookup2/dictionary/
> JdbcRareWordDictionary.java  and JdbcConceptFactory.java -
> https://github.com/apache/ctakes/blob/trunk/ctakes-
> dictionary-lookup-fast/src/main/java/org/apache/ctakes/
> dictionary/lookup2/concept/JdbcConceptFactory.java
>
> I am using the ctakes-rest-web server and getting all the annotation
> array as empty in the result json.
>
> Attached tomcat logs again.
>
> Regards
> Chahal Arora
> Software Engineer
> Raxa
>
> On Tue, Dec 19, 2017 at 6:44 PM, Gandhi Rajan Natarajan <
> gandhi.natara...@arisglobal.com >>
> wrote:
> Not able to see any tomcat logs attached.
>
> Do you see any errors in tomcat console?
>
> Regards,
> Gandhi
>
> From: Chahal Arora [mailto:chahal.ar...@raxa.com chahal.ar...@raxa.com>]
> Sent: Tuesday, December 19, 2017 6:09 PM
> To: dev@ctakes.apache.org
> Subject: Re: Custom Dictionary connected to mysql
>
> Hi,
>
> I have updated the customDictionary.xml and all the erros have gone
> but still not getting any result. I am attaching the latest
> customDictionary.xml and tomcat logs file.
>
>
>
> Regards
> Chahal Arora
> Software Engineer
> Raxa
>
> On Tue, Dec 19, 2017 at 5:45 PM, Chahal Arora  >> wrote:
> Hi All,
>
> I was working on moving the terms from custom dictionary BSV file to
> MySQL database in LabValueFinder. I am able to connect to the database
> but not sure about the database schema.
>
> Is there an example available where the custom dictionary is connected
> to mysql database instead of a bsv file or hsql database?
>
> Attached is the customDictionary.xml file that I am using.
>
>
> Regards
> Chahal Arora
> Software Engineer
> Raxa
>
> This email and any files transmitted with it are confidential and
> intended solely for the use of the individual or entity to whom they are 
> addressed.
> If you are not the named addressee you should not disseminate,
> distribute or copy this e-mail. Please notify the sender or system
> manager by email immediately if you have received this e-mail by
> mistake and delete this e-mail from your system. If you are not the
> intended recipient you are notified that disclosing, copying,
> distributing or taking any action in

Re: non Medical entity extraction [EXTERNAL]

2017-12-21 Thread Miller, Timothy

By structured fields I mean non-note sources. Notes might be stored in
a database and other columns/tables in that database will contain
patient metadata, such as sex, birthdate, insurance status, etc.
Extracting this information is probably institution-specific. If you
don't have access to this kind of database and want to get it from
notes you will need to write your own uima annotator. There are
examples of how to do this in the ctakes-examples module.
Tim


On Thu, 2017-12-21 at 07:14 -0800, Vedic Baatein wrote:
> That makes sense. 
> 
> What would be a good way to extract information about the “structured
> fields” from the notes. Is there a specific module for it. 
> 
> Thanks,
> Nitesh
> 
> > 
> > On Dec 21, 2017, at 4:24 AM, Miller, Timothy  > ens.harvard.edu> wrote:
> > 
> > No, there is not that I'm aware of. While that information is often
> > in
> > the note, it is also usually in structured fields where it can be
> > extracted with ~100% accuracy so it's not a high priority for NLP.
> > Thanks
> > Tim
> > 
> > 
> > On Thu, 2017-12-21 at 09:26 +, abilash.mat...@cognizant.com
> > wrote:
> > > 
> > > Hi All,
> > > 
> > > Is there an option currently available with CTAKES for extracting
> > > patient name, age etc. from Medical records and lab reports?
> > > 
> > > Thanks,
> > > Abilash Mathew
> > > This e-mail and any files transmitted with it are for the sole
> > > use of
> > > the intended recipient(s) and may contain confidential and
> > > privileged
> > > information. If you are not the intended recipient(s), please
> > > reply
> > > to the sender and destroy all copies of the original message. Any
> > > unauthorized review, use, disclosure, dissemination, forwarding,
> > > printing or copying of this email, and/or any action taken in
> > > reliance on the contents of this e-mail is strictly prohibited
> > > and
> > > may be unlawful. Where permitted by applicable law, this e-mail
> > > and
> > > other e-mail communications sent to and from Cognizant e-mail
> > > addresses may be monitored.

Re: non Medical entity extraction [EXTERNAL]

2017-12-21 Thread Vedic Baatein

That makes sense. 

What would be a good way to extract information about the “structured fields” 
from the notes. Is there a specific module for it. 

Thanks,
Nitesh

> On Dec 21, 2017, at 4:24 AM, Miller, Timothy 
>  wrote:
> 
> No, there is not that I'm aware of. While that information is often in
> the note, it is also usually in structured fields where it can be
> extracted with ~100% accuracy so it's not a high priority for NLP.
> Thanks
> Tim
> 
> 
> On Thu, 2017-12-21 at 09:26 +, abilash.mat...@cognizant.com wrote:
>> Hi All,
>> 
>> Is there an option currently available with CTAKES for extracting
>> patient name, age etc. from Medical records and lab reports?
>> 
>> Thanks,
>> Abilash Mathew
>> This e-mail and any files transmitted with it are for the sole use of
>> the intended recipient(s) and may contain confidential and privileged
>> information. If you are not the intended recipient(s), please reply
>> to the sender and destroy all copies of the original message. Any
>> unauthorized review, use, disclosure, dissemination, forwarding,
>> printing or copying of this email, and/or any action taken in
>> reliance on the contents of this e-mail is strictly prohibited and
>> may be unlawful. Where permitted by applicable law, this e-mail and
>> other e-mail communications sent to and from Cognizant e-mail
>> addresses may be monitored.

Re: Custom Dictionary connected to mysql

2017-12-21 Thread Chahal Arora

Hi Gandhi, Thank you for your help. It's working now. In the
customDictionary.xml, I changed
org.apache.ctakes.dictionary.lookup2.dictionary.JdbcRareWordDictionary to
org.apache.ctakes.dictionary.lookup2.dictionary.UmlsJdbcRareWordDictionary
and org.apache.ctakes.dictionary.lookup2.concept.JdbcConceptFactory to
org.apache.ctakes.dictionary.lookup2.concept.UmlsJdbcConceptFactory. For
single word term, this worked without any change, but for a multi-word
term, this was returning empty results. When I debugged, I found that the
issue was coming at code below in DefaultJCasTermAnnotator class line 103-
if ( hitTokens[ hit ].equals(allTokens.get( i ).getText() ) || hitTokens[
hit ].equals( allTokens.get( i ).getVariant() ) ); This was happening due
to the difference in string case. The input string is converted to
lowercase, but the string from MySQL database is not converted. Right now I
have to put all terms in my database in lower case to make it work. Do you
know any configuration so that I don't have to deal with the case issue
without changing DefaultJCasTermAnnotator file? When using BSV file, I am
getting lower case sting for both input and term.



Regards
Chahal Arora
Software Engineer
Raxa

On Tue, Dec 19, 2017 at 11:23 PM, Gandhi Rajan Natarajan <
gandhi.natara...@arisglobal.com> wrote:

> Hi Chahal,
>
> Looking at the error trace:
> ‘javax.servlet.ServletException,java.io.IOException
> 19 Dec 2017 17:56:01  INFO RequestMappingHandlerAdapter - Looking for
> @ControllerAdvice: WebApplicationContext for namespace
> 'ctakes-rest-service-servlet'’
>
> It looks like you are trying to mix match codes from both
> ctakes-rest-service and ctakes-web-rest module I guess. Ctakes-rest-service
> module is obsolete now and request you to consider only ctakes-web-rest
> module  in https://github.com/GoTeamEpsilon/ctakes-rest-
> service/tree/master/ctakes-web-rest
>
> Regards,
> Gandhi
>
> From: Chahal Arora [mailto:chahal.ar...@raxa.com]
> Sent: Tuesday, December 19, 2017 8:20 PM
> To: dev@ctakes.apache.org
> Subject: Re: Custom Dictionary connected to mysql
>
> Hi Gandhi,
>
> With updated customDictionary.xml all errors were gone.
>
> I am not sure about the schema of the tables used. I have taken reference
> from JdbcRareWordDictionary.java - https://github.com/apache/
> ctakes/blob/trunk/ctakes-dictionary-lookup-fast/src/
> main/java/org/apache/ctakes/dictionary/lookup2/dictionary/
> JdbcRareWordDictionary.java  and JdbcConceptFactory.java -
> https://github.com/apache/ctakes/blob/trunk/ctakes-
> dictionary-lookup-fast/src/main/java/org/apache/ctakes/
> dictionary/lookup2/concept/JdbcConceptFactory.java
>
> I am using the ctakes-rest-web server and getting all the annotation array
> as empty in the result json.
>
> Attached tomcat logs again.
>
> Regards
> Chahal Arora
> Software Engineer
> Raxa
>
> On Tue, Dec 19, 2017 at 6:44 PM, Gandhi Rajan Natarajan <
> gandhi.natara...@arisglobal.com>
> wrote:
> Not able to see any tomcat logs attached.
>
> Do you see any errors in tomcat console?
>
> Regards,
> Gandhi
>
> From: Chahal Arora [mailto:chahal.ar...@raxa.com chahal.ar...@raxa.com>]
> Sent: Tuesday, December 19, 2017 6:09 PM
> To: dev@ctakes.apache.org
> Subject: Re: Custom Dictionary connected to mysql
>
> Hi,
>
> I have updated the customDictionary.xml and all the erros have gone but
> still not getting any result. I am attaching the latest
> customDictionary.xml and tomcat logs file.
>
>
>
> Regards
> Chahal Arora
> Software Engineer
> Raxa
>
> On Tue, Dec 19, 2017 at 5:45 PM, Chahal Arora  >> wrote:
> Hi All,
>
> I was working on moving the terms from custom dictionary BSV file to MySQL
> database in LabValueFinder. I am able to connect to the database but not
> sure about the database schema.
>
> Is there an example available where the custom dictionary is connected to
> mysql database instead of a bsv file or hsql database?
>
> Attached is the customDictionary.xml file that I am using.
>
>
> Regards
> Chahal Arora
> Software Engineer
> Raxa
>
> This email and any files transmitted with it are confidential and intended
> solely for the use of the individual or entity to whom they are addressed.
> If you are not the named addressee you should not disseminate, distribute
> or copy this e-mail. Please notify the sender or system manager by email
> immediately if you have received this e-mail by mistake and delete this
> e-mail from your system. If you are not the intended recipient you are
> notified that disclosing, copying, distributing or taking any action in
> reliance on the contents of this information is strictly prohibited and
> against the law.
>
> This email and any files transmitted with it are confidential and intended
> solely for the use of the individual or entity to whom they are addressed.
> If you are not the named addressee you should not di

Re: non Medical entity extraction [EXTERNAL]

2017-12-21 Thread Miller, Timothy

No, there is not that I'm aware of. While that information is often in
the note, it is also usually in structured fields where it can be
extracted with ~100% accuracy so it's not a high priority for NLP.
Thanks
Tim


On Thu, 2017-12-21 at 09:26 +, abilash.mat...@cognizant.com wrote:
> Hi All,
> 
> Is there an option currently available with CTAKES for extracting
> patient name, age etc. from Medical records and lab reports?
> 
> Thanks,
> Abilash Mathew
> This e-mail and any files transmitted with it are for the sole use of
> the intended recipient(s) and may contain confidential and privileged
> information. If you are not the intended recipient(s), please reply
> to the sender and destroy all copies of the original message. Any
> unauthorized review, use, disclosure, dissemination, forwarding,
> printing or copying of this email, and/or any action taken in
> reliance on the contents of this e-mail is strictly prohibited and
> may be unlawful. Where permitted by applicable law, this e-mail and
> other e-mail communications sent to and from Cognizant e-mail
> addresses may be monitored.

non Medical entity extraction

2017-12-21 Thread Abilash.Mathew

Hi All,

Is there an option currently available with CTAKES for extracting patient name, 
age etc. from Medical records and lab reports?

Thanks,
Abilash Mathew
This e-mail and any files transmitted with it are for the sole use of the 
intended recipient(s) and may contain confidential and privileged information. 
If you are not the intended recipient(s), please reply to the sender and 
destroy all copies of the original message. Any unauthorized review, use, 
disclosure, dissemination, forwarding, printing or copying of this email, 
and/or any action taken in reliance on the contents of this e-mail is strictly 
prohibited and may be unlawful. Where permitted by applicable law, this e-mail 
and other e-mail communications sent to and from Cognizant e-mail addresses may 
be monitored.

Re: Custom Dictionary connected to mysql [EXTERNAL]

RE: Custom Dictionary connected to mysql [EXTERNAL]

RE: Custom Dictionary connected to mysql

Re: non Medical entity extraction [EXTERNAL]

Re: non Medical entity extraction [EXTERNAL]

Re: Custom Dictionary connected to mysql

Re: non Medical entity extraction [EXTERNAL]

non Medical entity extraction

8 matches

Site Navigation

Mail list logo

Footer information