You can not select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
125 lines
7.6 KiB
125 lines
7.6 KiB
<!DOCTYPE html>
|
|
<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Read a list of Bruker OPUS spectrum binary files. — read_opus_univ • simplerspec</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Read a list of Bruker OPUS spectrum binary files. — read_opus_univ"><meta property="og:description" content="Read multiple spectral files measured with a Bruker FTIR Instrument. Files
|
|
containing spectra are in OPUS binary format.
|
|
read_opus_univ is a wrapper for read_opus_bin_univ())"><meta name="robots" content="noindex"><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]>
|
|
<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script>
|
|
<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script>
|
|
<![endif]--></head><body data-spy="scroll" data-target="#toc">
|
|
|
|
|
|
<div class="container template-reference-topic">
|
|
<header><div class="navbar navbar-default navbar-fixed-top" role="navigation">
|
|
<div class="container">
|
|
<div class="navbar-header">
|
|
<button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar" aria-expanded="false">
|
|
<span class="sr-only">Toggle navigation</span>
|
|
<span class="icon-bar"></span>
|
|
<span class="icon-bar"></span>
|
|
<span class="icon-bar"></span>
|
|
</button>
|
|
<span class="navbar-brand">
|
|
<a class="navbar-link" href="../index.html">simplerspec</a>
|
|
<span class="version label label-danger" data-toggle="tooltip" data-placement="bottom" title="In-development version">0.1.0.9001</span>
|
|
</span>
|
|
</div>
|
|
|
|
<div id="navbar" class="navbar-collapse collapse">
|
|
<ul class="nav navbar-nav"><li>
|
|
<a href="../reference/index.html">Reference</a>
|
|
</li>
|
|
<li>
|
|
<a href="../news/index.html">Changelog</a>
|
|
</li>
|
|
</ul><ul class="nav navbar-nav navbar-right"><li>
|
|
<a href="https://github.com/philipp-baumann/simplerspec/" class="external-link">
|
|
<span class="fab fa-github fa-lg"></span>
|
|
|
|
</a>
|
|
</li>
|
|
</ul></div><!--/.nav-collapse -->
|
|
</div><!--/.container -->
|
|
</div><!--/.navbar -->
|
|
|
|
|
|
|
|
</header><div class="row">
|
|
<div class="col-md-9 contents">
|
|
<div class="page-header">
|
|
<h1>Read a list of Bruker OPUS spectrum binary files.</h1>
|
|
<small class="dont-index">Source: <a href="https://github.com/philipp-baumann/simplerspec/blob/HEAD/R/read-opus-universal.R" class="external-link"><code>R/read-opus-universal.R</code></a></small>
|
|
<div class="hidden name"><code>read_opus_univ.Rd</code></div>
|
|
</div>
|
|
|
|
<div class="ref-description">
|
|
<p>Read multiple spectral files measured with a Bruker FTIR Instrument. Files
|
|
containing spectra are in OPUS binary format.
|
|
<code>read_opus_univ</code> is a wrapper for <code><a href="read_opus_bin_univ.html">read_opus_bin_univ()</a></code>)</p>
|
|
</div>
|
|
|
|
<div id="ref-usage">
|
|
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">read_opus_univ</span><span class="op">(</span><span class="va">fnames</span>, extract <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"spc"</span><span class="op">)</span>, parallel <span class="op">=</span> <span class="cn">FALSE</span>,</span>
|
|
<span>atm_comp_minus4offset <span class="op">=</span> <span class="cn">FALSE</span><span class="op">)</span></span></code></pre></div>
|
|
</div>
|
|
|
|
<div id="arguments">
|
|
<h2>Arguments</h2>
|
|
<dl><dt>fnames</dt>
|
|
<dd><p>List of character vectors containing full path names of spectra</p></dd>
|
|
|
|
|
|
<dt>extract</dt>
|
|
<dd><p>Character vector of spectra types to extract from file.
|
|
Possible values are: "spc" (AB block in Bruker Opus software), "spc_nocomp"
|
|
(Spectra before final atmospheric compensation; only present if background
|
|
correction has been set in Opus), "ScSm" (Single channel spectrum of the
|
|
sample), "ScRf" (Single channel spectrum of the sample), "IgSm" (Interferogram
|
|
of the sample), "IgRf" (Interferogram of the reference). Default is
|
|
<code>extract = c("spc")</code>.</p></dd>
|
|
|
|
|
|
<dt>parallel</dt>
|
|
<dd><p>Logical (<code>TRUE</code> or <code>FALSE</code> indicating whether
|
|
files are read in parallel (multiple processors or multiple cores)).
|
|
Default is <code>parallel = FALSE</code>. If <code>TRUE</code> a parallel backend needs
|
|
to be registered, e.g. by using the <code>doParallel</code> package.</p></dd>
|
|
|
|
|
|
<dt>atm_comp_minus4offset</dt>
|
|
<dd><p>Logical whether spectra after atmospheric
|
|
compensation are read with an offset of <code>-4</code> bites from Bruker OPUS
|
|
files. Default is <code>FALSE</code>.</p></dd>
|
|
|
|
</dl></div>
|
|
<div id="value">
|
|
<h2>Value</h2>
|
|
|
|
|
|
<p>out List spectra and metadata (parameters) extracted from
|
|
Bruker OPUS spectrometer files. List names are the names of the OPUS
|
|
files whose spectral data were extracted.</p>
|
|
</div>
|
|
|
|
</div>
|
|
<div class="col-md-3 hidden-xs hidden-sm" id="pkgdown-sidebar">
|
|
<nav id="toc" data-toggle="toc" class="sticky-top"><h2 data-toc-skip>Contents</h2>
|
|
</nav></div>
|
|
</div>
|
|
|
|
|
|
<footer><div class="copyright">
|
|
<p></p><p>Developed by Philipp Baumann.</p>
|
|
</div>
|
|
|
|
<div class="pkgdown">
|
|
<p></p><p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.7.</p>
|
|
</div>
|
|
|
|
</footer></div>
|
|
|
|
|
|
|
|
|
|
|
|
|
|
</body></html>
|
|
|
|
|