ouhscbbmc/cdw-skeleton-1

Contains a partial list of files used to generate new CDW projects

cdw-skeleton-1's Issues

description & summary

produce a file that describes the CSVs to help orient the research to the CDW product

cc: @athumann

use yaml file to specify tables & columns to scribe

ie, write to csv

Revise description_template to acknowledge funding source

Can we change the description template from this:

description_template <- paste0(
  "---\ntitle: %s Extracts\n\n---\n\n",
  "Project: `%s`\n",
  "============================\n\n",
  "Data Extracts from the BBMC CDW\n\n",
  "%i datasets were derived from the CDW and saved as separate csvs.\n",
  "The collection of datasets is described in the file `%s`\n",
  "which can be opened in Excel, Notepad++, or any program that can read plain text.\n\n",
  "%s\n\n",
  "The datasets were saved by %s at %s.\n\n",
  "%s\n\n",
  "%s\n\n"
)

to this?

description_template <- paste0(
  "---\ntitle: %s Extracts\n\n---\n\n",
  "Project: `%s`\n",
  "============================\n\n",
  "Data Extracts from the BBMC CRDW\n\n",
  "%i datasets were derived from the CRDW and saved as separate csvs.\n",
  "The collection of datasets is described in the file `%s`\n",
  "which can be opened in Excel, Notepad++, or any program that can read plain text.\n\n",
  "%s\n\n",
  "The datasets were saved by %s at %s.\n\n",
  "%s\n\n",
  "%s\n\n",
  "This work was made possible by the NIH grant U54GM104938 -[ (Oklahoma Shared Clinical and Translational Resource)](http://osctr.ouhsc.edu). Because our continued existence depends partly on productivity in research dissemination, when producing articles and presentations that utilize these data, please include this grant number in your acknowledgements.\n\n
 Our suggested acknowledgement:  'Data for this research were provided by the University of Oklahoma Health Sciences Center Clinical Research Data Warehouse (http://ouhsc.edu/bbmc/crdw), whose work is made possible by NIH grant U54GM104938.'\n"

or something to that effect? @deshea you always have good suggestions for polishing these things.

modernize scribe-factory for purrr 1.0

@akanagwa, the purrr package was updated recently. The scribe factories of existing repos may need this update. Just copy & paste this into the old repos when they fail.

The big fix was 32f71d6

There were a few other soft (non-breaking) changes to purrr that I'll update now.