R/searchFormulaDocker.R

In sbalci/AutoJournalWatch: Auto Journal Watch.

searchFormula_pancreas <-
  paste0("docker run --rm -it ncbi/edirect", 
    "esearch -db pubmed -query \"",
    searchQuery_pancreas,
    "\" -released last_month ",
    " | efetch -db pubmed -format uid > ~/AutoJournalWatch/data/newPMID_pancreas.csv"
  )

searchFormula_gallbladder <-
  paste0("docker run --rm -it ncbi/edirect",
    "esearch -db pubmed -query \"",
    searchQuery_gallbladder,
    "\" -released last_month ",
    " | efetch -db pubmed -format uid > ~/AutoJournalWatch/data/newPMID_gallbladder.csv"
  )

searchFormula_bileducts <-
  paste0("docker run --rm -it ncbi/edirect",
    "esearch -db pubmed -query \"",
    searchQuery_bileducts,
    "\" -released last_month ",
    " | efetch -db pubmed -format uid > ~/AutoJournalWatch/data/newPMID_bileducts.csv"
  )

searchFormula_ampulla <-
  paste0("docker run --rm -it ncbi/edirect",
    "esearch -db pubmed -query \"",
    searchQuery_ampulla,
    "\" -released last_month ",
    " | efetch -db pubmed -format uid > ~/AutoJournalWatch/data/newPMID_ampulla.csv"
  )