countLines {ShortRead} | R Documentation

## Count lines in all (text) files in a directory whose file name matches a pattern

### Description

`countLines` visits all files in a directory path `dirPath` whose base (i.e., file) name matches `pattern`. Lines in the file are counted as the number of new line characters.

### Usage

    countLines(dirPath, pattern=character(0), ..., useFullName=FALSE)

### Arguments

`dirPath` | A character vector (or other object; see methods defined on this generic) giving the directory path (relative or absolute) of files whose lines are to be counted.
`pattern` | The (`grep`-style) pattern describing files whose lines are to be counted. The default (`character(0)`) results in line counts for all files in the directory.
`...` | Additional arguments, passed internally to list.files. See `list.files`.
`useFullName` | A `logical(1)` indicating whether elements of the returned vector should be named with the base (file) name (default; `useFullName=FALSE`) or the full path name (`useFullName=TRUE`).

### Value

A named integer vector of line counts. Names are paths to the files whose lines have been counted, excluding `dirPath`.

### Author(s)

Martin Morgan

### Examples

    sp <- SolexaPath(system.file('extdata', package='ShortRead'))
    countLines(analysisPath(sp))
    countLines(experimentPath(sp), recursive=TRUE)
    countLines(experimentPath(sp), recursive=TRUE, useFullName=TRUE)

[Package ShortRead version 1.48.0 Index]