Use roxygen for functions and methods

1 files changed, 43 insertions, 61 deletions

diff --git a/man/CAKE_export.Rd b/man/CAKE_export.Rd
index c7111bc8..142b4a75 100644
--- a/man/CAKE_export.Rd
+++ b/man/CAKE_export.Rd
@@ -1,73 +1,55 @@
+% Generated by roxygen2: do not edit by hand
+% Please edit documentation in R/CAKE_export.R
 \name{CAKE_export}
 \alias{CAKE_export}
-\title{
-  Export a list of datasets format to a CAKE study file
-}
-\description{
-  In addition to the datasets, the pathways in the degradation
-  model can be specified as well.
-}
+\title{Export a list of datasets format to a CAKE study file}
 \usage{
-CAKE_export(ds, map = c(parent = "Parent"),
-  links = NA,
+CAKE_export(ds, map = c(parent = "Parent"), links = NA,
   filename = "CAKE_export.csf", path = ".", overwrite = FALSE,
-  study = "Codlemone aerobic soil degradation",
-  description = "",
-  time_unit = "days",
-  res_unit = "\% AR",
-  comment = "Created using mkin::CAKE_export",
-  date = Sys.Date(),
+  study = "Codlemone aerobic soil degradation", description = "",
+  time_unit = "days", res_unit = "\% AR",
+  comment = "Created using mkin::CAKE_export", date = Sys.Date(),
   optimiser = "IRLS")
 }
 \arguments{
-  \item{ds}{
-    A named list of datasets in long format as compatible with
-    \code{\link{mkinfit}}.
-  }
-  \item{map}{
-    A character vector with CAKE compartment names (Parent, A1, ...),
-    named with the names used in the list of datasets.
-  }
-  \item{links}{
-    An optional character vector of target compartments, named with
-    the names of the source compartments. In order to make this
-    easier, the names are used as in the datasets supplied.
-  }
-  \item{filename}{
-    Where to write the result. Should end in .csf in order to be compatible
-    with CAKE.
-  }
-  \item{path}{
-    An optional path to the output file.
-  }
-  \item{overwrite}{
-    If TRUE, existing files are overwritten.
-  }
-  \item{study}{
-    The name of the study.
-  }
-  \item{description}{
-    An optional description.
-  }
-  \item{time_unit}{
-    The time unit for the residue data.
-  }
-  \item{res_unit}{
-    The unit used for the residues.
-  }
-  \item{comment}{
-    An optional comment.
-  }
-  \item{date}{
-    The date of file creation.
-  }
-  \item{optimiser}{
-    Can be OLS or IRLS.
-  }
+\item{ds}{A named list of datasets in long format as compatible with
+\code{\link{mkinfit}}.}
+
+\item{map}{A character vector with CAKE compartment names (Parent, A1, ...),
+named with the names used in the list of datasets.}
+
+\item{links}{An optional character vector of target compartments, named with
+the names of the source compartments. In order to make this easier, the
+names are used as in the datasets supplied.}
+
+\item{filename}{Where to write the result. Should end in .csf in order to be
+compatible with CAKE.}
+
+\item{path}{An optional path to the output file.}
+
+\item{overwrite}{If TRUE, existing files are overwritten.}
+
+\item{study}{The name of the study.}
+
+\item{description}{An optional description.}
+
+\item{time_unit}{The time unit for the residue data.}
+
+\item{res_unit}{The unit used for the residues.}
+
+\item{comment}{An optional comment.}
+
+\item{date}{The date of file creation.}
+
+\item{optimiser}{Can be OLS or IRLS.}
 }
 \value{
-  The function is called for its side effect.
+The function is called for its side effect.
+}
+\description{
+In addition to the datasets, the pathways in the degradation model can be
+specified as well.
 }
 \author{
-  Johannes Ranke
+Johannes Ranke
 }