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#!/usr/bin/env Rscript
# =================
# Copyright 2015 Michael Cysouw <cysouw@mac.com>
#
# This file is free software: you may copy, redistribute and/or modify it
# under the terms of the GNU General Public License as published by the
# Free Software Foundation, either version 3 of the License, or (at your
# option) any later version.
#
# This file is distributed in the hope that it will be useful, but
# WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
# General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with this program. If not, see <http://www.gnu.org/licenses/>.
# =================
# =====
# usage
# =====
DOC <- "
USAGE:
simstrings [-h -d -s SEPARATOR -r DECIMALS <STRINGS>...]
DESCRIPTION:
Using the function sim.strings() from the R-package qlcMatrix:
Efficient computation of pairwise string similarities using a cosine
similarity on bigram vectors. Note that the algorithm is efficient, but there
is an overhead beacuse of the startup of R and loading packages.
The STRINGS argument should be space-separated. Piping through is supported, see examples.
Details at http://www.rdocumentation.org/packages/qlcMatrix/functions/sim.strings.html
OPTIONS:
-h, --help Showing this help text
-d, --distance Return distances instead of similarities
-s SEPARATOR Separator, defaults to nothing (i.e. separation at Unicode codepoints);
use 'S' to get space [default: ]
-r DECIMALS Round result to decimals [default: 3]
EXAMPLES
simstrings abcd abdd abbb
ls | simstrings
"
# ==============
# docopt parsing
# ==============
attach(docopt::docopt(DOC))
# for piping data
if (length(STRINGS) == 0) {
STRINGS <- scan(file("stdin") , sep = "\n" , quiet = TRUE , what = "character")
closeAllConnections()
}
# default values are strings by default, not numbers
r <- as.numeric(r)
# space cannot be passed as argument in bash
if (s == "S") {s <- " "}
# ======
# R code
# ======
library(methods) # this declaration is a bug; should not be necessary
result <- qlcMatrix::sim.strings(STRINGS, sep = s)
if (distance) {
result <- as.matrix(1 - result)
} else {
result <- as.matrix(result)
}
result <- round(result, digits = r)
# =======================
# Return output to stdout
# =======================
write.table(result
, file = ""
, sep = "\t"
, row.names = FALSE
, col.names = FALSE
, quote = FALSE
)
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