config.R

In patelm9/cartographR3:

library(tidyverse)

##Local MSK repositories that support project
path_to_bibliotech_repo <- "/Users/meerapatel/GitHub/MSK_KMI_Enterprise/biblio-tech"
path_to_mskextractquarry_repo <- "/Users/meerapatel/GitHub/MSK_KMI_Enterprise/msk-extract-quarry"

##Path to cartographR2 components within biblio-tech repository
path_to_redcap_identity <- "/Users/meerapatel/GitHub/MSK_KMI_Enterprise/biblio-tech/KEY/REDCap/IDENTITY.csv"
path_to_redcap_key <- "/Users/meerapatel/GitHub/MSK_KMI_Enterprise/biblio-tech/KEY/REDCap/KEY_TO_UMLS.csv"
path_to_redcap_relationship <- "/Users/meerapatel/GitHub/MSK_KMI_Enterprise/biblio-tech/KEY/REDCap/RELATIONSHIP.csv"

##Path to lookups
path_to_umls_lookup <- "/Users/meerapatel/GitHub/MSK_KMI_Enterprise/biblio-tech/CATALOGUE/UMLS/LOOKUP.csv"
path_to_athena_lookup <- "/Users/meerapatel/GitHub/MSK_KMI_Enterprise/biblio-tech/CATALOGUE/Athena_Vocabulary_v5/LOOKUP.csv"

##Path to source data in msk-extract-quarry
path_to_input_01 <- "/Users/meerapatel/GitHub/MSK_KMI_Enterprise/msk-extract-quarry/Misc_20190819_to_20191023/BreastDMT_DataDictionary_2018-07-27.csv"
path_to_input_02 <- "/Users/meerapatel/GitHub/MSK_KMI_Enterprise/msk-extract-quarry/One_Offs/Missing Mappings.xlsx"