#205: interim builder for breast cancer cohort summary ----------------------------------+----------------------------------- Reporter: dconnolly | Owner: huhickman Type: enhancement | Status: assigned Priority: major | Milestone: bc-survey-cohort-def Component: data-sharing | Resolution: Keywords: breast-cancer-cohort | Blocked By: 32, 204 Blocking: | ----------------------------------+-----------------------------------
Comment (by bos): Replying to [comment:10 dconnolly]: > Replying to [comment:9 bokov]: > > If in ours, the `variable` and `job` tables are blank, will that interfere with your being able to extract our data for the purposes of the breast cancer cohort selection? > > I expect we can do without `job`, but we rely in `variable`. > > It's computable from the XML definition of your query. By design, everybody is using **exactly** the same query (#204), so we can just copy it from another data file. But it's reasonably important to be sure. > > If you do a timeline of your results, you can use `timeline_to_job.py` (from the databuilder code) to compute a JSON file with the relevant details. With a little tweaking to not look for a patient set id, it would probably work on an XML query definition. Then see `export_terms()` in `dfbuilder.py` for how we get the data into the variable table. It might be easier to just write your own 50 line script; or perhaps I could factor the relevant parts out. I think the relationship between the query definition and the variable table is pretty straightforward. > > If necessary, just give me the XML query definition that you ran and I'll compute it. [[BR]] We had some i2b2 issues, so we had to build run the query manually, then convert it to sqlite. Hence, hence our job and variable tables are empty. -- Ticket URL: <http://informatics.gpcnetwork.org/trac/Project/ticket/205#comment:11> gpc-informatics <http://informatics.gpcnetwork.org/> Greater Plains Network - Informatics _______________________________________________ Gpc-dev mailing list Gpc-dev@listserv.kumc.edu http://listserv.kumc.edu/mailman/listinfo/gpc-dev