Parsing CSV Files

This code is designed to handle well formed CSV files. However CSV implementations can vary, so you should test it using realistic samples.

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Sample Code [top]

You can download the project file (code and test messages) or copy the code from below.

Code for main():

local csv = require 'csv'

function main(Data)
   local Csv = csv.parseCsv(Data)       -- comma separated (default)
   --local Csv = csv.parseCsv(Data, '\t') -- tab separated (sample message 11)
   --local Csv = csv.parseCsv(Data, '|')  -- bar separated (sample message 12)
   -- Examples of what you can do:
   -- 1) Use in a To Translator and add code
   --    for saving patients to a database
   -- 2) Use in a Filter Component and map to
   --    XML/JSON then queue for further processing

Code for the module:

-- module is likely to be re-used so use a descriptive name like "csv"

local function parseCsvLine (line,sep) 
   local res = {}
   local pos = 1
   sep = sep or ','
   while true do 
      local c = string.sub(line,pos,pos)
      if (c == "") then break end
      local posn = pos 
      local ctest = string.sub(line,pos,pos)
      while ctest == ' ' do
         -- handle space(s) at the start of the line (with quoted values)
         posn = posn + 1
         ctest = string.sub(line,posn,posn) 
         if ctest == '"' then
            pos = posn
            c = ctest
      if (c == '"') then
         -- quoted value (ignore separator within)
         local txt = ""
            local startp,endp = string.find(line,'^%b""',pos)
            txt = txt..string.sub(line,startp+1,endp-1)
            pos = endp + 1
            c = string.sub(line,pos,pos) 
            if (c == '"') then 
               txt = txt..'"' 
               -- check first char AFTER quoted string, if it is another
               -- quoted string without separator, then append it
               -- this is the way to "escape" the quote char in a quote. example:
               --   value1,"blub""blip""boing",value3  will result in blub"blip"boing  for the middle
            elseif c == ' ' then
               -- handle space(s) before the delimiter (with quoted values)
               while c == ' ' do
                  pos = pos + 1
                  c = string.sub(line,pos,pos) 
         until (c ~= '"')
         if not (c == sep or c == "") then 
            error("ERROR: Invalid CSV field - near character "..pos.." in this line of the CSV file: \n"..line, 3)
         pos = pos + 1
         posn = pos 
         ctest = string.sub(line,pos,pos)
         while ctest == ' ' do
            -- handle space(s) after the delimiter (with quoted values)
            posn = posn + 1
            ctest = string.sub(line,posn,posn) 
            if ctest == '"' then
               pos = posn
               c = ctest
         -- no quotes used, just look for the first separator
         local startp,endp = string.find(line,sep,pos)
         if (startp) then 
            pos = endp + 1
            -- no separator found -> use rest of string and terminate
   return res

---- Module Interface functions ----
local csv = {}

function csv.parseCsv(Data, Separator)
   -- handle '\r\n\' as line separator
   Data = Data:gsub('\r\n','\n')
   -- handle '\r' (bad form) as line separator  
   Data = Data:gsub('\r','\n')
   local Result={}
   for Line in Data:gmatch("([^\n]+)") do
      local ParsedLine = parseCsvLine(Line, Separator)
      table.insert(Result, ParsedLine)
   return Result

return csv

Using the code [top]

  • This code would usually be used in a Filter or Destination component script, for example:
    • You could save patient details to a  database table in a Destination component
    • You could map patient details to XML/JSON in Filter and then queue for further processing (either in the Destination or by forwarding to another channel)
  • You will need to write From Translator code to read your CSV files and push them onto the Iguana queue for processing in your Filter or To Translator component
  • Because the code is a good candidate for re-use by other channels, give it a descriptive name, we used “csv”
    Note: If you already have a module called “csv” you can add this code (or use a different module name).

How it works [top]

  • The code reads CSV messages from the queue and then parses them using the csv.parseCsv() function
  • There are definite advantages loading and queuing the CSV data files in the From Component, and then processing the CSV messages in a Filter or Destination component:
    • The main advantage is that you can reprocess CSV messages using the Iguana log rather than having to reload the original files
    • Separating the file handling and parsing/processing also keeps the code cleaner and easier to maintain
  • The parsing code is based on this code from Lua user’s wiki, with the following additions:
    • We changed the assert to an if statement to give a more informative error
    • We changed the code to allow for spaces before/after separators when using quoted fields
    • We changed the code to allow for spaces at the start of a line when using quoted fields
    • We wrapped the parseCsvLine() function in the parseCsv() function that accepts multiple lines
  • You can use different field separators by passing them as the Separator (2nd) parameter to the parseCsv() function, for example:
    • To use a tab separator: parseCsv(Data, '\t')
    • To use a “|” separator: parseCsv(Data, '|')
  • The parse will handle the following:
    • Quoted and unquoted fields
    • Separators within quoted fields
    • Escaped quotes (“”) within quoted fields
      Note: See the “Speedie” nickname in the 2nd row of 9th sample message
    • The parse will raise an error for an un-escaped (“) quote in quoted field
      Note: The 10th sample message raises an error for this reason
  • The parse will handle spaces before/after separators when using quoted fields
  • The parse will handle spaces at the start of a line when using quoted fields
  • Limitation: The parse does not handle quotes in an unquoted field, it just reads them like any other character
    Note: Technically this violates CSV rules but I have seen it occasionally

    • A un-escaped  quote (“) will be shown as a single quote (“), when it could be considered an error
    • An escaped quote (“”) will be show as two quotes (“”) when it should probably be shown as one quote (“)

Best Practices [top]

  • Test the code to make sure it will handle the CSV files you receive correctly, and adjust it if necessary
    Note: There a CSV standard (RFC 4180) but it is not always followed exactly,  so parsing CSV is never completely cut and dried

What not to do [top]

  • Don’t expect the code to handle all possible CSV file content (you need to test)
    Note: As mentioned in best practices CSV files are not truly standard so parsing them is not an exact science

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