Last updated: 2020-08-27

Checks: 7 0

Knit directory: uci_covid19_dashboard/

This reproducible R Markdown analysis was created with workflowr (version 1.6.2). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.


Great! Since the R Markdown file has been committed to the Git repository, you know the exact version of the code that produced these results.

Great job! The global environment was empty. Objects defined in the global environment can affect the analysis in your R Markdown file in unknown ways. For reproduciblity it’s best to always run the code in an empty environment.

The command set.seed(20200714) was run prior to running the code in the R Markdown file. Setting a seed ensures that any results that rely on randomness, e.g. subsampling or permutations, are reproducible.

Great job! Recording the operating system, R version, and package versions is critical for reproducibility.

Nice! There were no cached chunks for this analysis, so you can be confident that you successfully produced the results during this run.

Great job! Using relative paths to the files within your workflowr project makes it easier to run your code on other machines.

Great! You are using Git for version control. Tracking code development and connecting the code version to the results is critical for reproducibility.

The results in this page were generated with repository version c96e3f3. See the Past versions tab to see a history of the changes made to the R Markdown and HTML files.

Note that you need to be careful to ensure that all relevant files for the analysis have been committed to Git prior to generating the results (you can use wflow_publish or wflow_git_commit). workflowr only checks the R Markdown file, but you know if there are other scripts or data files that it depends on. Below is the status of the Git repository when the results were generated:


Ignored files:
    Ignored:    .Renviron

Untracked files:
    Untracked:  r_env.yml
    Untracked:  rebuild

Note that any generated files, e.g. HTML, png, CSS, etc., are not included in this status report because it is ok for generated content to have uncommitted changes.


These are the previous versions of the repository in which changes were made to the R Markdown (analysis/positivity-maps.Rmd) and HTML (docs/positivity-maps.html) files. If you’ve configured a remote Git repository (see ?wflow_git_remote), click on the hyperlinks in the table below to view the files as they were in that past version.

File Version Author Date Message
html c96e3f3 vnminin 2020-08-27 consistent message above trend plots
html cf421b9 markellekelly 2020-08-26 automatic update - 2020-08-26
html 9d099cd vnminin 2020-08-25 short dropdown menu names
html 726e8dc markellekelly 2020-08-25 automatic update - 2020-08-25
html e239a00 vnminin 2020-08-24 added a note about dropdown menus
html 518db49 Rachel Longjohn 2020-08-24 Merge branch ‘master’ into county-sets
html 2559f5d Rachel Longjohn 2020-08-24 add more county sets
html b79277f markellekelly 2020-08-24 automatic update - 2020-08-24
html f932f34 markellekelly 2020-08-23 automatic update - 2020-08-23
html eaad166 markellekelly 2020-08-22 automatic update - 2020-08-22
html 8b79b5e vnminin 2020-08-21 added Andrew as an additional media contact
html f30d34d markellekelly 2020-08-21 automatic update - 2020-08-21
html 7069376 markellekelly 2020-08-20 automatic update - 2020-08-20
html 223088a markellekelly 2020-08-19 automatic update - 2020-08-19
html 64a83bf markellekelly 2020-08-18 automatic update - 2020-08-18
html ae98627 vnminin 2020-08-14 daily date pull
html 24e4ed4 vnminin 2020-08-13 data update
html 616ee7e vnminin 2020-08-12 daily data update
html 8db6eb5 vnminin 2020-08-11 pushed a note about reporting system problems
html 0803f2b vnminin 2020-08-11 data update
html 19f2315 vnminin 2020-08-10 push with updated data
html a5927e7 vnminin 2020-08-09 rebuilding with new data
html fb0028a vnminin 2020-08-08 ca portal got data
html 9589b6d vnminin 2020-08-07 two time stamps
html 60756e0 Damon Bayer 2020-08-07 data update
html b3f0a7a vnminin 2020-08-06 rebuilding to fix testing not linking to itself
html 35e30c1 vnminin 2020-08-06 daily data update; I am a good robot
html 7334400 vnminin 2020-08-05 data update
html 6466f12 vnminin 2020-08-04 data pull and fixed the last date being cut off
html 5db0d2e vnminin 2020-08-03 data update
html 4afb037 vnminin 2020-08-02 forgot to republish
html e3847ed vnminin 2020-08-02 added testing maps
Rmd a2c2c61 vnminin 2020-08-01 added Software section to About
html a2c2c61 vnminin 2020-08-01 added Software section to About
Rmd 51fac09 vnminin 2020-08-01 added page headers to incidence and positive maps
html 51fac09 vnminin 2020-08-01 added page headers to incidence and positive maps
Rmd e024ad3 Damon Bayer 2020-07-31 Positivity Maps + Navigation Updates
html e024ad3 Damon Bayer 2020-07-31 Positivity Maps + Navigation Updates

Fraction of positive COVID-19 tests mapped to OC zip codes

Data provided by the Orange County Health Care Agency.

Last updated 2020-07-29.


sessionInfo()
R version 3.6.1 (2019-07-05)
Platform: x86_64-conda_cos6-linux-gnu (64-bit)
Running under: Ubuntu 18.04.4 LTS

Matrix products: default
BLAS/LAPACK: /home/kmarke/anaconda3/envs/issue-216/lib/libopenblasp-r0.3.10.so

locale:
 [1] LC_CTYPE=en_US       LC_NUMERIC=C         LC_TIME=en_US       
 [4] LC_COLLATE=en_US     LC_MONETARY=en_US    LC_MESSAGES=en_US   
 [7] LC_PAPER=en_US       LC_NAME=C            LC_ADDRESS=C        
[10] LC_TELEPHONE=C       LC_MEASUREMENT=en_US LC_IDENTIFICATION=C 

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.5      whisker_0.4     knitr_1.29      magrittr_1.5   
 [5] workflowr_1.6.2 R6_2.4.1        rlang_0.4.7     stringr_1.4.0  
 [9] tools_3.6.1     xfun_0.16       git2r_0.27.1    htmltools_0.5.0
[13] ellipsis_0.3.1  yaml_2.2.1      digest_0.6.25   rprojroot_1.3-2
[17] tibble_3.0.3    lifecycle_0.2.0 crayon_1.3.4    later_1.1.0.1  
[21] vctrs_0.3.2     fs_1.5.0        promises_1.1.1  glue_1.4.1     
[25] evaluate_0.14   rmarkdown_2.3   stringi_1.4.6   compiler_3.6.1 
[29] pillar_1.4.6    backports_1.1.8 httpuv_1.5.4    pkgconfig_2.0.3