;>>
>>> Greg--
>>>
>>> On Tue, May 18, 2021 at 10:04 AM Finan, Sean <
>>> sean.fi...@childrens.harvard.edu> wrote:
>>>
>>>> To which ctakes component(s) are you referring?
>>>>
is [newer / faster / more comprehensive] than existing engines in
> [cTAKES / other].
>
> We will present [numbers , usage , capabilities / i/o ] of the engine and its
> [model / data ].
> We will also commit the code and documentation to Apache cTAKES.
>
>
> ===
,
in for which languages?
Peter
On Mon, Jul 8, 2019 at 8:25 AM Peter Klügl wrote:
Hi,
Averbis released a selection of type systems as open source (Apache
License 2.0) which also cover many use cases in clinical and medical
information extraction.
I know that cTAKES has of course well
Types mainly for IDMP.
Artifacts with descriptions, types.txt, JCas cover classes and some
generated asciidoc are available at maven central.
Best,
Peter
--
Dr. Peter Klügl
R&D Text Mining/Machine Learning
Averbis GmbH
Salzstr. 15
79098 Freiburg
Germany
Fon: +49 761 708 394 0
Fax: +
Hi Azad,
the basic rules are now translated. Do you wanna take a look at it?
There remain still many issues and the F score is quite low on the dev
set. I will continue improving the rules when I find the time.
Best,
Peter
Am 15.03.2016 um 09:49 schrieb Peter Klügl:
> Hi,
>
>
ntroduce Peter Klügl as a new
> committer. We are very happy with the sustained growth of the project
> and look forward to continued contributions from the community and
> adding to the ranks of the cTAKES committers.
>
> --Pei
on longitudinal data.
>>> This method is used on-top of a number NERs.
>>>
>>> Please let me know where I can help. I will be available again in April.
>>>
>>> Cheers,
>>> Azad
>>>
>>> On 10 March 2016 at 13:13, Peter Klügl wrote:
&
Hi Pei,
the content of the new files is duplicated again, e.g., see
I2B2Evaluation.java
No idea what caused that...
Best,
Peter
Am 11.03.2016 um 11:32 schrieb Peter Klügl:
> Hi,
>
> thanks for the notes and links, Andy and Guergana. The software and
> articles are very interest
wider application on longitudinal data.
> This method is used on-top of a number NERs.
>
> Please let me know where I can help. I will be available again in April.
>
> Cheers,
> Azad
>
> On 10 March 2016 at 13:13, Peter Klügl wrote:
>
>> Hi,
>>
>> sorry, I was q
Hi,
Am 11.03.2016 um 11:46 schrieb Azad Dehghan:
> Do we have a tracker; which ones remain?
>
>
No. This can best be checked by the existing ruta files in
src/main/ruta/org/apache/ctakes/deid
Rigth now, there are:
Age, Date (just a few simple rule I wrote), Doctor (empty), Phone
(empty), Street,
y
>>> phases I can translate.
>>>> I added the rules for age. Are there jape rules for creating date
>>> annotations?
>>> No. I believe cTAKES has existing component(s) to capture dates?
>>>
>>>> After all rules are translated, they need
n in April.
Cheers,
Azad
On 10 March 2016 at 13:13, Peter Klügl wrote:
Hi,
sorry, I was quite busy last month.
I added a new patch, which needs to be applied.
No new rules, but it's possible now to evaluate everything against the
labelled data of the challenge.
@Azad:
Which documents
g-PHI-Gold-Set2 or testing-PHI-Gold-fixed?
Best,
Peter
Am 03.02.2016 um 09:05 schrieb Peter Klügl:
> Hi,
>
> the last patch fixed almost all problems.
>
> I added another one that adds the csv file for the unit test and extends
> svn-ignore.
>
> Best,
>
> Peter
>
Hi,
the last patch fixed almost all problems.
I added another one that adds the csv file for the unit test and extends
svn-ignore.
Best,
Peter
Am 02.02.2016 um 09:16 schrieb Peter Klügl:
> Hi,
>
> I added another patch. I missed to manually add one test file to version
> contro
Hi,
I added another patch. I missed to manually add one test file to version
control, and there are still duplicate lines.
I hope this patch fixes the remaining problems.
Best,
Peter
Am 29.01.2016 um 10:34 schrieb Peter Klügl:
> Hi,
>
> the problems were caused by the svn client in m
schrieb Peter Klügl:
> Thanks Pei.
>
> I fear there was again a problem with the patch. All new files are
> missing (and also the svn-ignore settings).
>
> Can you take a look?
>
> Best,
>
> Peter
>
> Am 28.01.2016 um 14:43 schrieb Pei Chen:
>> patch appli
Thanks Pei.
I fear there was again a problem with the patch. All new files are
missing (and also the svn-ignore settings).
Can you take a look?
Best,
Peter
Am 28.01.2016 um 14:43 schrieb Pei Chen:
> patch applied.
> Thanks,
> Pei
>
> On Thu, Jan 28, 2016 at 4:14 AM, Peter Klüg
in/core type system afterwards.
> There was an existing item to upgrade UIMA, but agreed- it will require much
> more testing. If it works, we can upgrade it in our sandbox area or create a
> branch if necessary.
>
> —Pei
>
>> On Jan 18, 2016, at 9:06 AM, Peter Klügl w
examples for
> unit testing -- I will also be validate the NERs using the i2b2 research
> dataset.
>
> Cheers,
> Azad
>
> On 19 January 2016 at 09:01, Peter Klügl wrote:
>
>> Ok, let me know which ones I should translate.
>>
>> Best,
>>
>> Pete
(Username) shortly. I will
> look at your changes to follow suit.
>
> Best,
> Azad
>
> On 18 January 2016 at 14:06, Peter Klügl wrote:
>
>> Hi,
>>
>> a new patch is attached.
>>
>> @Pei:
>> are there suitable annotation types in the cTAKES ty
tests.
Let me know if you need more information about the changes.
Do you wanna have help with the other rule sets? Or should we split them up?
Best,
Peter
Am 18.01.2016 um 11:04 schrieb Peter Klügl:
> Hi,
>
> great. I will integrate them in the project and in the next patch.
mber 2015 at 10:37, Azad Dehghan wrote:
>
>> This is on my todo list for Dec. as well. If there are any more volunteers
>> for translating JAPE to RUTA, please get in touch.
>>
>> Cheers,
>> Azad
>>
>> On 24 Nov 2015 09:55, "Peter Klügl"
g/repos/asf/ctakes/sandbox/ctakes-clinical-deid/
> Thanks Peter.
>
> What error did you get with xml-api’s? Do you mean upgrade ctakes to
> the latest version of uima instead of 2.4.0?
>
> —Pei
>
>> On Jan 11, 2016, at 12:39 PM, Peter Klügl > <mailto:peter.klu...@averb
mentioned that he already
started with that :-)
Best,
Peter
Am 18.12.2015 um 11:01 schrieb Peter Klügl:
> Hi,
>
> sorry, there was no free time left in December for this issue, but I
> will be able to provide the patches in January (for real).
>
> Best,
>
> Peter
&g
APE to RUTA, please get in touch.
>
> Cheers,
> Azad
>
> On 24 Nov 2015 09:55, "Peter Klügl" wrote:
>> Hi,
>>
>> I just wanted to mention that I haven't forgot about it. Unfortunately,
>> there is just no spare time right now. I hope I wi
t; alternative JCas view. You can probably open up that discussion to
> the dev group as you see fit.)
>
> My 2 cents...
>
>
> On Fri, Nov 6, 2015 at 3:38 AM, Peter Klügl wrote:
>> Hi,
>>
>> Is there a cTAKES project that may serve as an example on how t
Hi,
Is there a cTAKES project that may serve as an example on how the cTAKES
community develops or how a project should look like?
I learned that different people set up UIMA project in a quite different
manner and I do not what to get inspired by "some sort of out-dated"
approach in the cTAKES re
;
>
> On Mon, Nov 2, 2015 at 3:56 AM, Peter Klügl wrote:
>> Hi,
>>
>> I just wanted to ask about the current status. I assume that the source
>> is not yet in svn, right? Let me know when I can do something (in case I
>> miss some mail on this list).
>>
>&
ing to switch licenses? I believe it's
>>> currently GNU3 -> ASL 2.0?
>>> 2) Create a project/module in cTAKES sandbox for this
>>> 3) Export/Import sourceforge and attach the code to the Jira initially.
>>> One of the current cTAKES committers can commit
have full IP for the files that matter: rule-set, dictionaries, and
> the TwoPass implementation. ANNIE Tokeniser and Sentence splitter won't be
> 'ported' (?) as RUTA provides the required word-level features used by the
> rule-set.
>
> Azad
>
> On 9 Octob
module in cTAKES sandbox for this
>> 3) Export/Import sourceforge and attach the code to the Jira initially.
>> One of the current cTAKES committers can commit it to the repo (Until folks
>> can commit directly to the ctakes repo directly going forward.)
>>
>>
Hi,
I can offer my help here if required.
I have experience in translating JAPE rules to UIMA Ruta and already
worked with clinical notes, e.g., also concerning deidentification.
The problem is that I can only invest a few hours in the next two weeks.
I will have more time next month or even mor
nts to create rule-based Ruta annotators for cTAKES,
be sure that he/she can count on my help and support.
Best,
Peter
> --Pei
>
>
> On Wed, Aug 5, 2015 at 3:47 AM, Peter Klügl wrote:
>> Hi,
>>
>> my (uninformed) view on cTAKES was that it is mainly based on black-bo
Hi,
my (uninformed) view on cTAKES was that it is mainly based on black-box
machine learning models.
There were some mentions of rule-based approaches on the mailing list
and a quick look in the source code revealed to me some functionality
that is based on FSMs and regular expressions (and the g
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