Yes, I will do that. Who else plans to provide patches for it? Just to avoid duplicate work and to coordnate the efforts ...
Is there a development dataset which was utilized for the initial development, and if yes, is it possible to contribute it too? My first step would be: - set up a maven project - set up a development pipeline in a test (with cTAKES components replacing the previous ANNIE preprocessing) Best, Peter Am 02.11.2015 um 18:04 schrieb Pei Chen: > Hi Peter/Azad, > Per INFRA-10579, since there is only a limited history, they suggested > we do the export/import ourselves. > The initial code base has been imported into: > sandbox/ctakes-clinical-deid > > Feel free to do an svn co > https://svn.apache.org/repos/asf/ctakes/sandbox/ctakes-clinical-deid/ > and attach any patches to CTAKES-384 until you have commit access... > > --Pei > > > On Mon, Nov 2, 2015 at 3:56 AM, Peter Klügl <peter.klu...@averbis.com> 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). >> >> Best, >> >> Peter >> >> Am 13.10.2015 um 21:17 schrieb Pei Chen: >>> Thanks Azad. >>> I submitted a Jira to infra to help us do the import (that way we will try >>> and preserve the commit history). >>> In the meantime, would you mind filling out the ICLA[1]. >>> >>> [Reminder: Let's keep it in sandbox and not release it until all of the 3rd >>> party dependencies licenses have been verified.] >>> >>> [1] http://www.apache.org/licenses/#clas >>> >>> Thanks, >>> Pei >>> >>> Pei Chen >>> Wired Informatics <http://www.wiredinformatics.com> >>> 265 Franklin St Ste 1702 >>> Boston, MA 02110 >>> tel: (617) 433-7544 >>> pei.c...@wiredinformatics.com >>> >>> On Sun, Oct 11, 2015 at 3:51 PM, Azad Dehghan <azad.dehg...@gmail.com> >>> wrote: >>> >>>> 1: Yes. Sorted. >>>> 3: Code attached to the Jira. >>>> >>>> Azad >>>> >>>> On 8 October 2015 at 20:03, Chen, Pei <pei.c...@childrens.harvard.edu> >>>> wrote: >>>> >>>>> This is great news! >>>>>> What is the current status and procedure? Is there an explicit >>>>> contribution to cTAKES? Is there an ICLA? What about the license of the >>>>> sourceforge project? >>>>> Jira has been opened to track this: >>>>> https://issues.apache.org/jira/browse/CTAKES-384 >>>>> >>>>> 1) Azad, would you be willing 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 it to the repo (Until >>>> folks >>>>> can commit directly to the ctakes repo directly going forward.) >>>>> >>>>> -----Original Message----- >>>>> From: Peter Klügl [mailto:peter.klu...@averbis.com] >>>>> Sent: Thursday, October 08, 2015 8:06 AM >>>>> To: dev@ctakes.apache.org >>>>> Subject: Re: Combining Knowledge- and Data-driven Methods for >>>>> De-identification of Clinical Narratives >>>>> >>>>> 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 more next year. >>>>> >>>>> What is the current status and procedure? Is there an explicit >>>>> contribution to cTAKES? Is there an ICLA? What about the license of the >>>>> sourceforge project? >>>>> >>>>> Best, >>>>> >>>>> Peter >>>>> >>>>> Am 01.10.2015 um 16:20 schrieb Pei Chen: >>>>>> Hi Azad, >>>>>> This is awesome news. Thanks for adding in the code that was >>>>>> referenced by the paper. I'll create a Jira to track we need to port >>>>>> it over to UIMA/Ruta. >>>>>> >>>>>> In the meantime, the link is at: >>>>>> https://urldefense.proofpoint.com/v2/url?u=http-3A__sourceforge.net_p_ >>>>>> >>>> clinical-2Ddeid_code_ci_master_tree_&d=BQICaQ&c=qS4goWBT7poplM69zy_3xhKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m=yjhqco4EH0XrR798kbkzfYcFQ8z8MR9UF8mMRSjKTH0&s=_k7AbwzkVrRwTrNC3LArZ5hQ5Q47eh06KCDla7UBugY&e= >>>>> for those who may be interested in helping out... >>>>>> --Pei >>>>>> >>>>>> Hello Pei, >>>>>> >>>>>> I hope all is well. >>>>>> >>>>>> I have now uploaded the source code for cDeid >>>>>> (https://urldefense.proofpoint.com/v2/url?u=http-3A__sourceforge.net_p >>>>>> _clinical-2Ddeid_code_ci_master_tree_&d=BQICaQ&c=qS4goWBT7poplM69zy_3x >>>>>> hKwEW14JZMSdioCoppxeFU&r=huK2MFkj300qccT8OSuuoYhy_xEYujfPwiAxhPVz5WY&m >>>>>> >>>> =yjhqco4EH0XrR798kbkzfYcFQ8z8MR9UF8mMRSjKTH0&s=_k7AbwzkVrRwTrNC3LArZ5hQ5Q47eh06KCDla7UBugY&e= >>>>> ) ; I have tried to make the code as portable and modular as possible >>>> with >>>>> some trade-off for performance. This should help with porting the code to >>>>> cTAKES/UIMA. >>>>>> Once you let the community know I will try to get involved to help >>>>>> with translating JAPE to RUTA, etc. >>>>>> >>>>>> Best, >>>>>> Azad
