I may misunderstand the current DataBuilder functionality but I would rejuvenate the proposal that Alex tried to present at hackathon 2 that was sidelined. I would also try to align our data extraction utilities with PCORI procedures and ask for development that would allow for extraction of SAS data sets of requested clinical data that are ready for analysis on that platform. Our researchers do not use R and are not about to learn new skills to suit our purpose. Jim
James R. Campbell MD [email protected] Office: 402-559-7505 Secretary: 402-559-7299 Pager: 402-888-1230 > On Jul 8, 2016, at 10:39 AM, Kowalski, George <[email protected]> wrote: > > MCW is in. I’d prefer a docker instance. > > In the mean time I’ve developed a separate tool to extract all the data for a > query into a sqlite file. > > https://github.com/MCW-BMI/i2b2Exporter > > It does not just take the concepts requested in the query as databuilder does > , but all associated concepts for the query. > > G > > > George Kowalski > Biomedical Informatics Software Engineer > Clinical & Translational Science Institute > Medical College of Wisconsin > 9200 West Wisconsin Avenue, Suite L722A > Milwaukee, Wisconsin USA 53226 > 414.805.7318 (office) / [email protected]<mailto:[email protected]> > > > From: <[email protected]> on behalf of Dan Connolly > <[email protected]> > Date: Thursday, July 7, 2016 at 2:54 PM > To: Phillip Reeder <[email protected]>, "French, Tony" > <[email protected]>, "[email protected]" > <[email protected]> > Subject: RE: DataBuilder installation instructions > > Yes, I'd like that. Interested sites, please do chime in. > > I'll try to figure out details. > > I tend to use the normal Tuesday call slot for such things; perhaps it could > start at 11:30 or something. We'll see. > > -- > Dan > ________________________________ > From: Phillip Reeder [[email protected]] > Sent: Thursday, July 07, 2016 12:53 PM > To: Dan Connolly; French, Tony; [email protected] > Subject: Re: DataBuilder installation instructions > Dan, > Any chance someone from your site could go through the install of the current > version so that other sites could be on the most recent version? I know > we, at UTSW, would like to get to a more recent version as well. I know you > have made numerous changes and enhancements in the past year that we would > like to have. Maybe we could schedule an installathon and get a bunch of > people up to the latest version? Would other sites be interested? > > Phillip > > From: > <[email protected]<redir.aspx?REF=-TuGCYglDB3qOBv4gp8MAZB2QepWxTb78D9rgtdx2YEETABEoKbTCAFtYWlsdG86Z3BjLWRldi1ib3VuY2VzQGxpc3RzZXJ2Lmt1bWMuZWR1>> > on behalf of Dan Connolly > <[email protected]<redir.aspx?REF=Q1HPM7XGpVog9uReo0Fi62hTciKe6gZrDzYtwzGs1qQETABEoKbTCAFtYWlsdG86ZGNvbm5vbGx5QGt1bWMuZWR1>> > Date: Thursday, July 7, 2016 at 11:10 AM > To: "French, Tony" > <[email protected]<redir.aspx?REF=Qj1yzHStiwpKhM0Nfa84xQflx-JkcYQMYMEy0hQd_6IETABEoKbTCAFtYWlsdG86YWRmcmVuY2hAcmVnZW5zdHJpZWYub3Jn>>, > > "[email protected]<redir.aspx?REF=pNh1vDjJti-nD9aNPMpgnVIvXOKsAs399Z_-3bk3iEoETABEoKbTCAFtYWlsdG86R1BDLURFVkBMSVNUU0VSVi5LVU1DLkVEVQ..>" > > <[email protected]<redir.aspx?REF=pNh1vDjJti-nD9aNPMpgnVIvXOKsAs399Z_-3bk3iEoETABEoKbTCAFtYWlsdG86R1BDLURFVkBMSVNUU0VSVi5LVU1DLkVEVQ..>> > Subject: RE: DataBuilder installation instructions > > That's pretty much the main installation documentation, still. And that it is > out of date is a known problem: > > * #335: problem: DataBuilder VM deployment outdated by migration of middle > tier to jboss > <redir.aspx?REF=l02ArUG3YbclGkb9YkfVT16GJ9tWpKyq6Cu_b5DnFNoETABEoKbTCAFodHRwczovL2luZm9ybWF0aWNzLmdwY25ldHdvcmsub3JnL3RyYWMvUHJvamVjdC90aWNrZXQvMzM1> > I suggest you report details of the errors you're getting; perhaps there are > easy fixes to the documentation that will get you going. > > Be sure to include the exact revision hash of the code you're trying to use; > if you checked out the current code from the > heron_extract<UrlBlockedError.aspx> repository, you might have better luck > with an older version (such as rev 1b8a53f78be0 from Nov 2014, available in > heron_extract.zip<redir.aspx?REF=MQLAqihRp1HMw4GwABGrrORljLijDE8LTVk97voAqBQETABEoKbTCAFodHRwczovL2luZm9ybWF0aWNzLmdwY25ldHdvcmsub3JnL3RyYWMvUHJvamVjdC9hdHRhY2htZW50L3dpa2kvQnVpbGRlclNhZ2EvaGVyb25fZXh0cmFjdC56aXA.>). > > -- > Dan > ________________________________ > From: > [email protected]<redir.aspx?REF=-TuGCYglDB3qOBv4gp8MAZB2QepWxTb78D9rgtdx2YEETABEoKbTCAFtYWlsdG86Z3BjLWRldi1ib3VuY2VzQGxpc3RzZXJ2Lmt1bWMuZWR1> > > [[email protected]<redir.aspx?REF=-TuGCYglDB3qOBv4gp8MAZB2QepWxTb78D9rgtdx2YEETABEoKbTCAFtYWlsdG86Z3BjLWRldi1ib3VuY2VzQGxpc3RzZXJ2Lmt1bWMuZWR1>] > on behalf of French, Tony > [[email protected]<redir.aspx?REF=Qj1yzHStiwpKhM0Nfa84xQflx-JkcYQMYMEy0hQd_6IETABEoKbTCAFtYWlsdG86YWRmcmVuY2hAcmVnZW5zdHJpZWYub3Jn>] > Sent: Thursday, July 07, 2016 10:56 AM > To: > [email protected]<redir.aspx?REF=pNh1vDjJti-nD9aNPMpgnVIvXOKsAs399Z_-3bk3iEoETABEoKbTCAFtYWlsdG86R1BDLURFVkBMSVNUU0VSVi5LVU1DLkVEVQ..> > Subject: DataBuilder installation instructions > We are working on getting DataBuilder installed in our environment. I found > the BuilderSaga<UrlBlockedError.aspx> article for installing it into an i2b2 > demo VM. Is that the best guide to reference for installing it into an > actual working environment or are there step by step manual instructions > available anywhere? > > I have tried following the screencast to install using the latest i2b2 demo > VM but have already ran into several errors. Does anyone have a historical > link to i2b2vmware-1703a.zip ? > > > > Thanks, > Tony > > > Tony French | Software Development Manager > Tools and Shared Resources > Center for Biomedical Informatics > [cid:[email protected]] > 1101 West Tenth Street > Indianapolis, IN, 46202 > Tel 317-274-9087 | Fax: 317-274-9305 > Twitter: @Regenstrief | > Facebook.com/regenstriefinstitute<UrlBlockedError.aspx> > www.regenstrief.org<UrlBlockedError.aspx> > > Confidentiality Notice: The contents of this message and any files > transmitted with it may contain confidential and/or privileged information > and are intended solely for the use of the named addressee(s). Additionally, > the information contained herein may have been disclosed to you from medical > records with confidentiality protected by federal and state laws. 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