tweak/remove confusing links to self (spotted by Lluis Revilla)

git-svn-id: https://svn.r-project.org/R/trunk@87653 00db46b3-68df-0310-9c12-caf00c1e9a41

src/library/base/man/call.Rd

@@ -57,8 +57,8 @@ as.call(x)
       If you think of using \code{as.call(\var{string})}, consider using
       \code{\link{str2lang}(\var{string})} which is an efficient version of
       \code{\link{parse}(text=\var{string})}.
-      Note that \code{\link{call}()} and \code{\link{as.call}()}, when
-      applicable, are much preferable to these \code{\link{parse}()} based
+      Note that \code{call()} and \code{as.call()}, when
+      applicable, are much preferable to these \code{parse()} based
       approaches.
     }
   }
@@ -80,7 +80,7 @@ as.call(x)
   \code{\link{expression}},
   \code{\link{function}}.
 
-  Producing \code{\link{call}}s etc from character: \code{\link{str2lang}} and
+  Producing \code{call}s etc from character: \code{\link{str2lang}} and
   \code{\link{parse}}.
 }
 \references{

src/library/base/man/double.Rd

@@ -88,7 +88,7 @@ as.single(x, \dots)
 %% keep next the same in double.Rd & numeric.Rd
 \section{Note on names}{
   It is a historical anomaly that \R has two names for its
-  floating-point vectors, \code{\link{double}} and \code{\link{numeric}}
+  floating-point vectors, \code{double} and \code{numeric}
   (and formerly had \code{real}).
 
   \code{double} is the name of the \link{type}.

src/library/base/man/is.unsorted.Rd

@@ -30,7 +30,7 @@ is.unsorted(x, na.rm = FALSE, strictly = FALSE)
   objects with an S3 class (where the \code{>=} or \code{>} method is
   used to compare \code{x[i]} with \code{x[i-1]} for \code{i} in
   \code{2:length(x)}) or with an S4 class where you have to provide a
-  method for \code{\link{is.unsorted}()}.
+  method for \code{is.unsorted()}.
 %% FIXME: rather want  '>' and '>=' methods for S4 classes be sufficient
 }
 \note{

src/library/base/man/numeric.Rd

@@ -74,7 +74,7 @@ is.numeric(x)
 %% keep next the same in double.Rd & numeric.Rd
 \section{Note on names}{
   It is a historical anomaly that \R has two names for its
-  floating-point vectors, \code{\link{double}} and \code{\link{numeric}}
+  floating-point vectors, \code{double} and \code{numeric}
   (and formerly had \code{real}).
 
   \code{double} is the name of the \link{type}.

src/library/base/man/parse.Rd

@@ -108,12 +108,12 @@ str2expression(text)
   }
     \item{\code{str2expression(s)}: }{for a \code{\link{character}} vector
       \code{s}, \code{str2expression(s)} corresponds to
-      \code{\link{parse}(text = s, keep.source=FALSE)}, which is always of
+      \code{parse(text = s, keep.source=FALSE)}, which is always of
       type (\code{\link{typeof}}) and \code{\link{class}} \code{expression}.
     }
     \item{\code{str2lang(s)}: }{for a \code{\link{character}} string
       \code{s}, \code{str2lang(s)} corresponds to
-      \code{\link{parse}(text = s, keep.source=FALSE)[[1]]} (plus a check
+      \code{parse(text = s, keep.source=FALSE)[[1]]} (plus a check
       that both \code{s} and the \code{parse(*)} result are of length one)
       which is typically a \code{call} but may also be a \code{symbol} aka
       \code{\link{name}}, \code{\link{NULL}} or an atomic constant such as

src/library/base/man/showConnections.Rd

@@ -51,7 +51,7 @@ getAllConnections()
   re-directed by \code{\link{sink}} (and in some circumstances the
   output from \code{stdout()} can be split: see the help page).
 
-  The encoding for \code{\link{stdin}()} when redirected can
+  The encoding for \code{stdin()} when redirected can
   be set by the command-line flag \option{--encoding}.
 
   \code{nullfile()} returns filename of the null device (\code{"/dev/null"}

src/library/base/man/taskCallback.Rd

@@ -38,8 +38,8 @@ removeTaskCallback(id)
     internal callback list to be removed.
     Integer indices are 1-based, i.e the first element is 1.
     The names of currently registered handlers is available
-    using \code{\link{getTaskCallbackNames}}
-    and is also returned in a call to \code{\link{addTaskCallback}}.
+    using \code{\link{getTaskCallbackNames}()}
+    and is also returned in a call to \code{addTaskCallback}.
   }
   \item{name}{character: names to be used.}
 }

src/library/grDevices/man/axisTicks.Rd

@@ -37,7 +37,7 @@ axisTicks(usr, log, axp = NULL, nint = 5)
   \code{axisTicks(usr, *)} calls \code{.axisPars(usr, ..)} to set
   \code{axp} when that is missing or \code{NULL}.
 
-  Apart from that, \code{\link{axisTicks}()} just calls the C function
+  Apart from that, \code{axisTicks()} just calls the C function
   \code{CreateAtVector()} in \file{\var{R}/src/main/plot.c} which is also
   called by the base \pkg{graphics} package function
   \code{\link[graphics]{axis}(side, *)} when its argument \code{at} is not

src/library/graphics/man/plot.default.Rd

@@ -25,8 +25,9 @@
     coordinates is acceptable.  See the function \code{\link{xy.coords}}
     for details.  If supplied separately, they must be of the same length.}
   \item{type}{1-character string giving the type of plot desired.  The
-    following values are possible, for details, see \code{\link{plot}}:
-    \code{"p"} for points, \code{"l"} for lines,
+    following values are possible, for details, see \code{\link[base]{plot}}:
+    \code{"p"} for points,
+    \code{"l"} for lines,
     \code{"b"} for both points and lines,
     \code{"c"} for empty points joined by lines,
     \code{"o"} for overplotted points and lines,
@@ -129,7 +130,7 @@
   Murrell, P. (2005) \emph{R Graphics}. Chapman & Hall/CRC Press.
 }
 \seealso{
-  \code{\link{plot}}, \code{\link{plot.window}}, \code{\link{xy.coords}}.
+  \code{\link[base]{plot}}, \code{\link{plot.window}}, \code{\link{xy.coords}}.
   For thousands of points, consider using \code{\link{smoothScatter}}
   instead.
 }

src/library/grid/man/grid.add.Rd

@@ -65,6 +65,6 @@ setChildren(x, children)
 \author{Paul Murrell}
 \seealso{
   \code{\link{grob}}, \code{\link{getGrob}},
-  \code{\link{addGrob}}, \code{\link{removeGrob}}.
+  \code{\link{removeGrob}}.
 }
 \keyword{dplot}

src/library/grid/man/grid.get.Rd

@@ -52,7 +52,7 @@ getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)
 }
 \author{Paul Murrell}
 \seealso{
-  \code{\link{grob}}, \code{\link{getGrob}},
+  \code{\link{grob}},
   \code{\link{addGrob}}, \code{\link{removeGrob}}.
 }
 \examples{

src/library/grid/man/grid.remove.Rd

@@ -63,6 +63,7 @@ removeGrob(gTree, gPath, strict = FALSE, grep = FALSE,
 }
 \author{Paul Murrell}
 \seealso{
-  \code{\link{grob}}, \code{\link{getGrob}}.
+  \code{\link{grob}}, \code{\link{getGrob}},
+  \code{\link{addGrob}}.
 }
 \keyword{dplot}

src/library/methods/man/setIs.Rd

@@ -102,7 +102,7 @@ setIs(class1, class2, test=NULL, coerce=NULL, replace=NULL,
       \code{\link{setAs}}.  The difference between the  two is simply
       that \code{\link{setAs}} will require a call to \code{\link{as}}
       for a conversion to take place, whereas after the call to
-      \code{\link{setIs}}, objects will be automatically converted to
+      \code{setIs}, objects will be automatically converted to
       the superclass.
 
       The automatic feature is the dangerous part, mainly because it

src/library/parallel/man/makeCluster.Rd

@@ -129,7 +129,7 @@ getDefaultCluster()
 #endif
 
   It is good practice to shut down the workers by calling
-  \code{\link{stopCluster}}: however the workers will terminate
+  \code{stopCluster}: however the workers will terminate
   themselves once the socket on which they are listening for commands
   becomes unavailable, which it should if the master \R session is
   completed (or its process dies).

src/library/parallel/man/unix/children.Rd

@@ -116,7 +116,7 @@ mckill(process, signal = 2L)
   \eqn{2^{31} - 1}{2^31 - 1} bytes (and still are on 32-bit platforms).
 }
 \seealso{
-  \code{\link{mcfork}}, \code{\link{sendMaster}}, \code{\link{mcparallel}}
+  \code{\link{mcfork}}, \code{\link{mcparallel}}
 }
 \examples{\dontrun{
 p  <- mcparallel(scan(n = 1, quiet = TRUE))

src/library/stats/man/NLSstRtAsymptote.Rd

@@ -29,7 +29,7 @@ NLSstRtAsymptote(xy)
 \seealso{
   \code{\link{sortedXyData}},
   \code{\link{NLSstClosestX}},
-  \code{\link{NLSstRtAsymptote}},
+  \code{\link{NLSstLfAsymptote}},
   \code{\link{selfStart}}
 }
 \examples{

src/library/stats/man/dendrogram.Rd

@@ -192,7 +192,7 @@ is.leaf(object)
   dendrograms into a new one which has \code{x} and \code{y} (and
   optional further arguments) as branches.  Note that before \R 3.1.2,
   \code{adjust = "none"} was used implicitly, which is invalid when,
-  e.g., the dendrograms are from \code{\link{as.dendrogram}(hclust(..))}.
+  e.g., the dendrograms are from \code{as.dendrogram(hclust(..))}.
 
   \code{\link{nobs}(object)} returns the total number of leaves (the
   \code{members} attribute, see above).

src/library/stats/man/dist.Rd

@@ -129,7 +129,7 @@ as.dist(m, diag = FALSE, upper = FALSE)
   \item{call}{optionally, the \code{\link{call}} used to create the
     object.}
   \item{method}{optionally, the distance method used; resulting from
-    \code{\link{dist}()}, the (\code{\link{match.arg}()}ed) \code{method}
+    \code{dist()}, the (\code{\link{match.arg}()}ed) \code{method}
     argument.}
 }
 \references{

src/library/stats/man/stepfun.Rd

@@ -80,7 +80,7 @@ as.stepfun(x, \dots)
     \item{"yleft", "yright"}{the function values \emph{outside} the knots}
     \item{"method"}{(always \code{== "constant"}, from
       \code{\link{approxfun}(.)}).}
-  The knots are also available via \code{\link{knots}(fn)}.
+  The knots are also available via \code{knots(fn)}.
 }
 \author{
   Martin Maechler, \email{maechler@stat.math.ethz.ch} with some basic

src/library/stats/man/uniroot.Rd

@@ -30,8 +30,8 @@ uniroot(f, interval, \dots,
     when \code{f()} does not have differing signs at the endpoints.  The
     default, \code{"no"}, keeps the search interval and hence produces
     an error.  Can be abbreviated.}
-  \item{check.conv}{logical indicating whether a convergence warning of the
-    underlying \code{\link{uniroot}} should be caught as an error and if
+  \item{check.conv}{logical indicating whether a convergence warning
+    should be caught as an error and if
     non-convergence in \code{maxiter} iterations should be an error
     instead of a warning.}
   \item{tol}{the desired accuracy (convergence tolerance).}

src/library/utils/man/update.packages.Rd

@@ -52,7 +52,7 @@ new.packages(lib.loc = NULL, repos = getOption("repos"),
     Incompatible with \code{type = "both"}.
   }
   \item{method}{Download method, see \code{\link{download.file}}.
-    Unused by \code{\link{old.packages}} if a non-\code{NULL} \code{available}
+    Unused by \code{old.packages} if a non-\code{NULL} \code{available}
     is supplied.} 
   \item{instlib}{character string giving the library directory where to
     install the packages.}