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From Justin Zhang <justinzhang...@gmail.com>
Subject Re: corresponding versions ctakes and stakes-resource
Date Thu, 16 Jul 2015 14:33:12 GMT
Hi Akhilesh,

For Eclipse Luna, where did you download required SCM connectors
(Subversion team provider connectors 1.7+.), and "m2e - Maven Integration
for Eclipse"?

Thanks,

Justin

On Wed, Jul 15, 2015 at 10:52 AM, Akhilesh Patel <
akhilesh.patel@citiustech.com> wrote:

> Luna
>
>
> Sent from Samsung Mobile
>
>
> -------- Original message --------
> From: Justin Zhang
> Date:15/07/2015 8:54 PM (GMT+05:30)
> To: user@ctakes.apache.org
> Subject: Re: corresponding versions ctakes and stakes-resource
>
> Which Eclipse package did you use?
>
>   Mars Packages <https://eclipse.org/downloads/packages/release/Mars/R>
>   Luna Packages <https://eclipse.org/downloads/packages/release/Luna/SR2>
>   Kepler Packages
> <https://eclipse.org/downloads/packages/release/Kepler/SR2>
>   Juno Packages <https://eclipse.org/downloads/packages/release/Juno/SR2>
>   Indigo Packages
> <https://eclipse.org/downloads/packages/release/Indigo/SR2>
>   Helios Packages
> <https://eclipse.org/downloads/packages/release/Helios/SR2>
>   Galileo Packages
> <https://eclipse.org/downloads/packages/release/Galileo/SR2>
>   Ganymede Packages
> <https://eclipse.org/downloads/packages/release/Ganymede/SR2>
>   Europa Packages
> <https://eclipse.org/downloads/packages/release/Europa/WINTER>
>   All Releases <https://eclipse.org/downloads/packages/all>
>
>
>
> On Wed, Jul 15, 2015 at 9:36 AM, Akhilesh Patel <
> akhilesh.patel@citiustech.com> wrote:
>
>> Yes I ran using source code as well as using cvd provided by them
>>
>>
>> Sent from Samsung Mobile
>>
>>
>> -------- Original message --------
>> From: Justin Zhang
>> Date:15/07/2015 8:02 PM (GMT+05:30)
>> To: user@ctakes.apache.org
>> Subject: Re: corresponding versions ctakes and stakes-resource
>>
>> Did you run from source code?
>> Any successful experience with binary ctakes?
>>
>>
>> On Wed, Jul 15, 2015 at 9:27 AM, Akhilesh Patel <
>> akhilesh.patel@citiustech.com> wrote:
>>
>>> You can download it from their svn repository. Please use following url
>>> to get latest version
>>>
>>> http://ctakes.apache.org/downloads.cgi
>>>
>>> Sent from Samsung Mobile
>>>
>>>
>>> -------- Original message --------
>>> From: Justin Zhang
>>> Date:15/07/2015 7:45 PM (GMT+05:30)
>>> To: user@ctakes.apache.org
>>> Subject: Re: corresponding versions ctakes and stakes-resource
>>>
>>> Hello Akhilesh,
>>>
>>> Thank you for quick response.
>>>
>>> What is the link to download 3.2.2-SNAPSHOT? and What version of ctakes
>>> resource did you use?
>>>
>>>
>>> Is it different from
>>> https://www.apache.org/dist/ctakes/ctakes-3.2.2/apache-ctakes-3.2.2-bin.tar.gz
>>> ?
>>>
>>> I tried this one and with ctakes resource 3.2.1.1. It did not for these
>>> 3 pipelines.
>>>
>>> Justin
>>>
>>>
>>> On Wed, Jul 15, 2015 at 9:03 AM, Akhilesh Patel <
>>> akhilesh.patel@citiustech.com> wrote:
>>>
>>>> Hi Justin,
>>>>
>>>>
>>>>
>>>> I have not worked on smoking status however  I am able to capture “Side
>>>> effects” and “Drug annotation” information from clinical notes. Both
the
>>>> module working form me.
>>>>
>>>> I am using following xml files to extract the information
>>>>
>>>>
>>>>
>>>>        <delegateAnalysisEngine key=*"DrugMentionAnnotator"*>
>>>>
>>>>          <import location=
>>>> *"../../ctakes/ctakes-drug-ner/desc/analysis_engine/DrugMentionAnnotator.xml"*
>>>> />
>>>>
>>>>        </delegateAnalysisEngine>
>>>>
>>>>
>>>>
>>>> <delegateAnalysisEngine key=*"SideEffect"*>
>>>>
>>>> <import location=
>>>> *"../../ctakes/ctakes-side-effect/desc/analysis_engine/SideEffectAggregateTAE.xml"*
>>>> />
>>>>
>>>> </delegateAnalysisEngine>
>>>>
>>>>
>>>>
>>>> Ctakes version I am using is 3.2.2-SNAPSHOT.
>>>>
>>>>
>>>>
>>>> Thanks,
>>>>
>>>> Akhilesh
>>>>
>>>>
>>>>
>>>> *From:* Justin Zhang [mailto:justinzhang.xl@gmail.com]
>>>> *Sent:* Wednesday, July 15, 2015 7:22 PM
>>>> *To:* user@ctakes.apache.org
>>>> *Subject:* Re: corresponding versions ctakes and stakes-resource
>>>>
>>>>
>>>>
>>>> Hello again,
>>>>
>>>> For the same purpose as the first email: I have put a lot of efforts in
>>>> order to run this few pipelines with different versions ctakes/resources
>>>> and different computer systems, and did not succeed. Most errors are "URIs"
>>>> or "File (xml) not found".
>>>>
>>>> I am so eager to move forward. Could anyone help me through the steps
>>>> for "Smoking Status", and then "Side effects"/"Drug Annotations"? I would
>>>> need the information of specific ctakes binary version and correct match
>>>> resources, and relevant necessary steps.
>>>>
>>>> Great appreciation!!!
>>>>
>>>> Justin
>>>>
>>>>
>>>>
>>>> On Tue, Jul 14, 2015 at 4:04 PM, Justin Zhang <justinzhang.xl@gmail.com>
>>>> wrote:
>>>>
>>>> Hello Everyone,
>>>>
>>>>
>>>>
>>>> I am looking to load following AE (analysis engine) from runctakesCVD.sh
>>>>
>>>>
>>>>
>>>> ·  <cTAKES_HOME>/desc/ctakes-smoking-status/desc/analysis_engine/SimulatedProdSmokingTAE.xml
>>>> (The annotator to obtain document or patient-level smoking status)
>>>>
>>>> ·  <cTAKES_HOME>/desc/ctakes-side-effect/desc/analysis_engine/SideEffectAggregateTAE_UMLS.xml
>>>> (The annotator to find side effect mentions and sentences from clinical
>>>> documents)
>>>>
>>>> ·  <cTAKES_HOME>/desc/ctakes-drug-ner/desc/analysis_engine/DrugAggregatePlaintextUMLSProcesor.xml
>>>> (The annotator to obtain drug annotations)
>>>>
>>>>
>>>>
>>>> What corresponding ctakes binary and ctakes resource should I use?
>>>>
>>>>
>>>>
>>>> In download page, current resource versions are 3.0.1, 3.10, 3.13,
>>>> 3.2.0, 3.2.1.1
>>>>
>>>>
>>>>
>>>> current ctakes versions are 3.1.0, 3.1.1, 3.2.0, 3.2.1, 3.2.2
>>>>
>>>>
>>>>
>>>> thanks,
>>>>
>>>>
>>>>
>>>> --
>>>>
>>>> Justin
>>>>
>>>>
>>>>
>>>>
>>>> --
>>>>
>>>> Justin
>>>> ===========================================================================================================================================================================================
>>>> DISCLAIMER: The information contained in this message (including any
>>>> attachments) is confidential and may be privileged. If you have received
it
>>>> by mistake please notify the sender by return e-mail and permanently delete
>>>> this message and any attachments from your system. Any dissemination, use,
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>>>> part is strictly prohibited. Please note that e-mails are susceptible to
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>>>> that this communication is free of viruses, interceptions or interferences.
>>>> ====================================================================================================================================================================
>>>>
>>>>
>>>
>>>
>>>
>>> --
>>> Justin
>>>
>>> ===========================================================================================================================================================================================
>>> DISCLAIMER: The information contained in this message (including any
>>> attachments) is confidential and may be privileged. If you have received it
>>> by mistake please notify the sender by return e-mail and permanently delete
>>> this message and any attachments from your system. Any dissemination, use,
>>> review, distribution, printing or copying of this message in whole or in
>>> part is strictly prohibited. Please note that e-mails are susceptible to
>>> change. CitiusTech shall not be liable for the improper or incomplete
>>> transmission of the information contained in this communication nor for any
>>> delay in its receipt or damage to your system. CitiusTech does not
>>> guarantee that the integrity of this communication has been maintained or
>>> that this communication is free of viruses, interceptions or interferences.
>>> ====================================================================================================================================================================
>>>
>>>
>>
>>
>>
>> --
>> Justin
>>
>> ===========================================================================================================================================================================================
>> DISCLAIMER: The information contained in this message (including any
>> attachments) is confidential and may be privileged. If you have received it
>> by mistake please notify the sender by return e-mail and permanently delete
>> this message and any attachments from your system. Any dissemination, use,
>> review, distribution, printing or copying of this message in whole or in
>> part is strictly prohibited. Please note that e-mails are susceptible to
>> change. CitiusTech shall not be liable for the improper or incomplete
>> transmission of the information contained in this communication nor for any
>> delay in its receipt or damage to your system. CitiusTech does not
>> guarantee that the integrity of this communication has been maintained or
>> that this communication is free of viruses, interceptions or interferences.
>> ====================================================================================================================================================================
>>
>>
>
>
>
> --
> Justin
>
> ===========================================================================================================================================================================================
> DISCLAIMER: The information contained in this message (including any
> attachments) is confidential and may be privileged. If you have received it
> by mistake please notify the sender by return e-mail and permanently delete
> this message and any attachments from your system. Any dissemination, use,
> review, distribution, printing or copying of this message in whole or in
> part is strictly prohibited. Please note that e-mails are susceptible to
> change. CitiusTech shall not be liable for the improper or incomplete
> transmission of the information contained in this communication nor for any
> delay in its receipt or damage to your system. CitiusTech does not
> guarantee that the integrity of this communication has been maintained or
> that this communication is free of viruses, interceptions or interferences.
> ====================================================================================================================================================================
>
>



-- 
Justin

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