I created a post to try to combine questions/issues people had as well as solutions I found.
See https://forum.posit.co/t/rstudio-and-conda/186130
Key here is to make sure both R and LD_LIBRARY_PATH
are coming from the desired conda environment.
I created a post to try to combine questions/issues people had as well as solutions I found.
See https://forum.posit.co/t/rstudio-and-conda/186130
Key here is to make sure both R and LD_LIBRARY_PATH
are coming from the desired conda environment.
name: hvplot_example | |
channels: | |
- conda-forge | |
- defaults | |
dependencies: | |
- python=3.10 | |
- hvplot | |
- intake | |
- intake-parquet | |
- intake-xarray |
See https://askubuntu.com/questions/18654/how-to-prevent-updating-of-a-specific-package for additional details on package holding.
If so, run the following:
apt-mark hold r-base r-base-core r-base-dev r-base-html r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv r-cran-nlme r-cran-nnet r-cran-rpart r-cran-spatial r-cran-survival r-doc-html r-doc-info r-recommended
library(bigrquery) | |
library(magrittr) | |
library(dplyr) | |
library(tidyr) | |
project <- "gbqproject" | |
dataset_writeable <- "gbqdataset" | |
dataset_readonly <- "gbqdataset_source" | |
# test query to prompt for GBQ Credentials | |
# RStudio can't just run the whole file at once |
Run this command to install the jupytext extension:
conda install jupytext -c conda-forge
Start/restart jupyter. In the environment used to launch jupyter notebook
you should now see the File > Jupytext menu. In jupyter lab
, Jupytext adds a set of commands to the command palette (View / Activate Command Palette
, or Ctrl+Shift+C
):
This machine learning example was developed for the paper "The National COVID Cohort Collaborative: Clinical Characterization and Early Severity Prediction" currently available as a preprint.
Although the code is available in the N3C Unite Palantir platform, for faster code sharing, I have made the following publically accessible exports of the workbooks:
Aberdeen | Moore | |
---|---|---|
Advance | Davie | |
Ahoskie | Hertford | |
Alamance | Alamance | |
Albemarle | Stanly | |
Albertson | Duplin | |
Alexander | Buncombe | |
Alexis | Gaston | |
Alliance | Pamlico | |
Almond | Swain |
The following code will setup an example scenario. Some people have no labs, others only have labs before or only after the event of interest.
SQL Fiddle available at http://sqlfiddle.com/#!5/f80104/1/0
CREATE OR REPLACE TABLE encounter
The following code will setup an example scenario. Some people have no labs, others only have labs before or only after the event of interest.
CREATE OR REPLACE TABLE curation.test_encounter
(
person_id INT64 NOT NULL,