getCodes: getCodes

In Maritimes/bio.odissupport: A Package Facilitating the Transfer of Data from PED to ODIS

Description

This function sends names to webservices to try to get codes

Usage

getCodes(mysteryAPHIAID = NULL, definitiveAPHIAID = NULL,
  APHIAIDs_checked = NULL, mysteryTSN = NULL, definitiveTSN = NULL,
  TSNs_checked = NULL, searchtype = NULL, thisCode = NULL,
  masterlist = NULL, logName = logName)

Arguments

mysteryAPHIAID	- dataframe with names for which you want to find AphiaIDs
definitiveAPHIAID	- dataframe with names for which you already have good AphiaIDs. The results will be bound to this.
APHIAIDs_checked	- a vector of APHIAIDs that chave already been sent to the webservices (to avoid duplicate checks)
mysteryTSN	- dataframe with names for which you want to find TSNs
definitiveTSN	- dataframe with names for which you already have good TSNs. The results will be bound to this.
TSNs_checked	- a vector of TSNs that chave already been sent to the webservices (to avoid duplicate checks)
searchtype	- flag indicating whether scientific or common names should be used checking the services
thisCode	- the particular code that is being looked for (e.g. APHIAID)
masterlist	This is the originally submitted list of species (with an internally assigned ID)
logName	- this is the name of the logfile in the working directory that progress should be appended to.

Maritimes/bio.odissupport documentation built on May 31, 2019, 8:01 a.m.