cloture/donnees.R

source("functionsOvalide.R")
library(lubridate)

annee <- 2015
mois  <- 10
date <- "04/12/2015"

read.csv2("listOvalide.csv") %>%
{
  apply(., 1, . %>%
  {
    df <- extractOvalide(annee, mois, .[2], .[3])
    names(df) <- LETTERS[1:length(df)]
    df
  }) ->> Ovalide
  names(Ovalide) <<- .$name

  apply(., 1, . %>%
  {
    df <- extractOvalide(annee - 1, mois, .[2], .[3])
    names(df) <- LETTERS[1:length(df)]
    df
  }) ->> OvalideP
  names(OvalideP) <<- .$name
}

src_mysql("pmsi_dim", "livenne.chu-nancy.fr", user = "u992093", password = "Md;8G4iSm") %>%
  tbl(sql("SELECT idhosp, idrss, idrum, date_entree, date_sortie, cmd, um FROM fix116
          UNION
          SELECT idhosp, idrss, idrum, date_entree, date_sortie, cmd, um FROM fix117")) %>%
  collect %>%
  mutate(date_entree = date_entree %>% as.Date,
         date_sortie = date_sortie %>% as.Date,
         annee_sortie = year(date_sortie),
         mois_sortie = month(date_sortie)) %>%
  filter(annee_sortie > annee - 3) %>% # Données rum/rss depuis 3 ans
  left_join( # + libellés pôles et services
    src_mysql("pmsi_dim_nom", "livenne.chu-nancy.fr", user = "u992093", password = "Md;8G4iSm") %>%
      tbl("structure") %>%
      filter(um != "") %>%
      select(uf_date_ferm, um, service_libelle, pole_libelle) %>%
      arrange(um, uf_date_ferm) %>%
      distinct %>%
      collect %>%
      add_rownames(var = "dummy") %>% # Dédoublonnage : 1 um -> 1 couple libellés
      group_by(um) %>%
      filter(dummy == last(dummy)) %>%
      select(-dummy, -uf_date_ferm) %>%
      ungroup
  ) %>%
  mutate(idrss = ifelse(idhosp %>% str_detect("^13"), str_c("m", idrss), idrss)) %>% # Dédoublonnage rss maternité 2013
  select(-idhosp) %>%
  mutate(duree_rum = date_sortie - date_entree) %>% # durée rum
  left_join( # durée rss
    group_by(., idrss) %>%
      summarise(duree_rss = sum(duree_rum))
  ) -> rum

save(Ovalide, OvalideP, annee, mois, rum, date, file = "donnees.Rdata")