* using log directory 'd:/Rcompile/CRANpkg/local/2.9/knnTree.Rcheck' * using R version 2.9.2 (2009-08-24) * using session charset: ISO8859-1 * checking for file 'knnTree/DESCRIPTION' ... OK * this is package 'knnTree' version '1.2.4' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'knnTree' can be installed ... WARNING Found the following significant warnings: Warning: invalid whitespace before brace in file 'knn.var.Rd' at '\item{train} {data frame or matrix of training data with classifications in column 1}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{test} {data frame or matrix of training data with classifications in column 1. Optional if theyre.the.same = TRUE}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{k.vec} {numeric vector of possible values of k, the number of nearest neighbors.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{theyre.the.same} {logical describing whether train and test are the same data set. If so, test is ignored and leave-one-out cross-validation is used. This will normally be TRUE when building the classifier and FALSE when predicting.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{return.all.rates} {logical, TRUE if all error rates (that is, one for every element of k.vec) should be returned. If FALSE, only the smallest is returned.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{scaling} {numeric describing scaling technique: 0 means do no scaling; 1 means choose between no scaling and scaling each column by its SD; 2 means choose between no scaling and scaling each column by its MAD.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{backward} {logical describing variable selection technique. TRUE means start with all variables and delete them one at a time until there is no improvement; FALSE means start with no variables and add them one at a time.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{max.steps} {numeric giving maximum number of steps to take. If negative, continue until there is no improvement. Default: -1.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{save.call} {logical, TRUE if a copy of the call should be saved in the resulting object}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{verbose} {numeric for debugging purposes. If verbose is 0, no diagnostic output is produced. If verbose > 0, diagnostic output (more as the value increases) is placed in a file called "status.txt" in the this-is-escaped-codenormal-bracket27bracket-normal directory. When verbose is 2 or (especially) 3 this file may become very large.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{use.big} {logical, TRUE if the C code should try to use a technique that uses more memory but runs faster.}' Warning: \code inside code block in file 'knn.var.Rd' Warning: invalid whitespace before brace in file 'knn.var.Rd' at '\item{train} {data frame or matrix of training data with classifications in column 1}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{test} {data frame or matrix of training data with classifications in column 1. Optional if theyre.the.same = TRUE}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{k.vec} {numeric vector of possible values of k, the number of nearest neighbors.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{theyre.the.same} {logical describing whether train and test are the same data set. If so, test is ignored and leave-one-out cross-validation is used. This will normally be TRUE when building the classifier and FALSE when predicting.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{return.all.rates} {logical, TRUE if all error rates (that is, one for every element of k.vec) should be returned. If FALSE, only the smallest is returned.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{scaling} {numeric describing scaling technique: 0 means do no scaling; 1 means choose between no scaling and scaling each column by its SD; 2 means choose between no scaling and scaling each column by its MAD.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{backward} {logical describing variable selection technique. TRUE means start with all variables and delete them one at a time until there is no improvement; FALSE means start with no variables and add them one at a time.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{max.steps} {numeric giving maximum number of steps to take. If negative, continue until there is no improvement. Default: -1.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{save.call} {logical, TRUE if a copy of the call should be saved in the resulting object}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{verbose} {numeric for debugging purposes. If verbose is 0, no diagnostic output is produced. If verbose > 0, diagnostic output (more as the value increases) is placed in a file called "status.txt" in the this-is-escaped-codenormal-bracket27bracket-normal directory. When verbose is 2 or (especially) 3 this file may become very large.}' Warning: invalid whitespace before brace in file 'knn.var.Rd' at ' \item{use.big} {logical, TRUE if the C code should try to use a technique that uses more memory but runs faster.}' Warning: \code inside code block in file 'knn.var.Rd' Warning: invalid whitespace before brace in file 'knnTree.Rd' at '\item{trg.set} {data frame or matrix of training data without classifications}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{trg.classes} {categorical vector of training set classifications}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{v} {numeric, number of blocks for cross-validation}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{k.vec} {numeric vector of numbers of k to consider}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{seed} {if present, passed to this-is-escaped-codenormal-bracket15bracket-normal to initialize the random number generator}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{opt.tree} {character, giving method by which to choose the size of the tree. Choices are ignore (consider all sizes up to size of first unpruned tree); find (consider all sizes up to size of first pruned tree); fix (use tree size passed in opt.tree.size); max (consider all sizes <= opt.tree.size)}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{opt.tree.size} {tree size used if opt.tree = fix or max}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{scaling} {numeric describing scaling technique: 0 means do no scaling; 1 means choose between no scaling and scaling each column by its SD; 2 means choose between no scaling and scaling each column by its MAD.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{prune.function} {function to do pruning, normally prune.tree or prune.misclass}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{one.SE} {logical; if TRUE, prune and then use one-SE rule}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{backward} {logical describing variable selection technique. TRUE means start with all variables and delete them one at a time until there is no improvement; FALSE means start with no variables and add them one at a time.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{max.steps} {numeric giving maximum number of steps to take. If negative, continue until there is no improvement. Default: -1.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{v.start} {number of cross-validation block to start at; for debugging only}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{leaf.start} {number of leaf to start at; for debugging only}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{verbose} {numeric for debugging purposes. If verbose is 0, no diagnostic output is produced. If verbose > 0, diagnostic output (more as the value increases) is sent to file fname, which is the screen if fname is the empty string.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{debug} {currently not used}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{fname} {string naming the file to which diagnostic output is sent if verbose > 0}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{use.big} {logical, TRUE if the C code should try to use a technique that uses more memory but runs faster.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{save.output} {character; if not empty, the resulting object is assigned to results in frame 1 and also dumped to disk in the file named in save.output. This can be useful for parallel processing.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at '\item{trg.set} {data frame or matrix of training data without classifications}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{trg.classes} {categorical vector of training set classifications}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{v} {numeric, number of blocks for cross-validation}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{k.vec} {numeric vector of numbers of k to consider}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{seed} {if present, passed to this-is-escaped-codenormal-bracket15bracket-normal to initialize the random number generator}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{opt.tree} {character, giving method by which to choose the size of the tree. Choices are ignore (consider all sizes up to size of first unpruned tree); find (consider all sizes up to size of first pruned tree); fix (use tree size passed in opt.tree.size); max (consider all sizes <= opt.tree.size)}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{opt.tree.size} {tree size used if opt.tree = fix or max}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{scaling} {numeric describing scaling technique: 0 means do no scaling; 1 means choose between no scaling and scaling each column by its SD; 2 means choose between no scaling and scaling each column by its MAD.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{prune.function} {function to do pruning, normally prune.tree or prune.misclass}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{one.SE} {logical; if TRUE, prune and then use one-SE rule}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{backward} {logical describing variable selection technique. TRUE means start with all variables and delete them one at a time until there is no improvement; FALSE means start with no variables and add them one at a time.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{max.steps} {numeric giving maximum number of steps to take. If negative, continue until there is no improvement. Default: -1.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{v.start} {number of cross-validation block to start at; for debugging only}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{leaf.start} {number of leaf to start at; for debugging only}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{verbose} {numeric for debugging purposes. If verbose is 0, no diagnostic output is produced. If verbose > 0, diagnostic output (more as the value increases) is sent to file fname, which is the screen if fname is the empty string.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{debug} {currently not used}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{fname} {string naming the file to which diagnostic output is sent if verbose > 0}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{use.big} {logical, TRUE if the C code should try to use a technique that uses more memory but runs faster.}' Warning: invalid whitespace before brace in file 'knnTree.Rd' at ' \item{save.output} {character; if not empty, the resulting object is assigned to results in frame 1 and also dumped to disk in the file named in save.output. This can be useful for parallel processing.}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at '\item{object} {knn model created by \R{knn.var}}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{test} {data frame or matrix of test data with classifications in column 1.}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{train} {data frame or matrix of training data with classifications in column 1}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{theyre.the.same} {logical describing whether train and test are the same data set. If so, train is ignored.}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{return.classifications} {logical: if TRUE, classifications for each element in the test set are returned.}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{verbose} {numeric for debugging purposes. If verbose is 0, no diagnostic output is produced. If verbose > 0, diagnostic output (more as the value increases) is placed in a file called "status.txt" in the this-is-escaped-codenormal-bracket20bracket-normal directory. When verbose is 2 or (especially) 3 this file may become very large.}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{...} {Other arguments, currently ignored}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at '\item{object} {knn model created by \R{knn.var}}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{test} {data frame or matrix of test data with classifications in column 1.}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{train} {data frame or matrix of training data with classifications in column 1}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{theyre.the.same} {logical describing whether train and test are the same data set. If so, train is ignored.}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{return.classifications} {logical: if TRUE, classifications for each element in the test set are returned.}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{verbose} {numeric for debugging purposes. If verbose is 0, no diagnostic output is produced. If verbose > 0, diagnostic output (more as the value increases) is placed in a file called "status.txt" in the this-is-escaped-codenormal-bracket20bracket-normal directory. When verbose is 2 or (especially) 3 this file may become very large.}' Warning: invalid whitespace before brace in file 'predict.knn.Rd' at ' \item{...} {Other arguments, currently ignored}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at '\item{object} {knnTree model created by \R{knnTree}}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at ' \item{test} {data frame or matrix of test data with classifications in column 1.}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at ' \item{train} {data frame or matrix of training data with classifications in column 1}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at ' \item{verbose} {logical; if TRUE the error rate for each leaf is printed}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at ' \item{...} {Other arguments, currently ignored}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at '\item{object} {knnTree model created by \R{knnTree}}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at ' \item{test} {data frame or matrix of test data with classifications in column 1.}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at ' \item{train} {data frame or matrix of training data with classifications in column 1}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at ' \item{verbose} {logical; if TRUE the error rate for each leaf is printed}' Warning: invalid whitespace before brace in file 'predict.knnTree.Rd' at ' \item{...} {Other arguments, currently ignored}' Warning: invalid whitespace before brace in file 'print.knn.Rd' at '\item{x} {knn.var model created by \R{knn.var}}' Warning: invalid whitespace before brace in file 'print.knn.Rd' at ' \item{...} {Other arguments, currently ignored}' Warning: invalid whitespace before brace in file 'print.knn.Rd' at '\item{x} {knn.var model created by \R{knn.var}}' Warning: invalid whitespace before brace in file 'print.knn.Rd' at ' \item{...} {Other arguments, currently ignored}' Warning: invalid whitespace before brace in file 'print.knnTree.Rd' at '\item{x} {knnTree model created by \R{knnTree}}' Warning: invalid whitespace before brace in file 'print.knnTree.Rd' at ' \item{...} {Other arguments, currently ignored}' Warning: invalid whitespace before brace in file 'print.knnTree.Rd' at '\item{x} {knnTree model created by \R{knnTree}}' Warning: invalid whitespace before brace in file 'print.knnTree.Rd' at ' \item{...} {Other arguments, currently ignored}' See 'd:/Rcompile/CRANpkg/local/2.9/knnTree.Rcheck/00install.out' for details. * checking package directory ... OK * checking for portable file names ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking for unstated dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... NOTE knnTree: no visible binding for global variable 'prune.misclass' knnTree: possible error in assign("verbose", verbose, frame = 1): unused argument(s) (frame = 1) knnTree: possible error in assign("fname", fname, frame = 1): unused argument(s) (frame = 1) knnTree: possible error in assign("data", data, frame = 1): unused argument(s) (frame = 1) knnTree: no visible global function definition for 'tree' knnTree: no visible global function definition for 'cv.tree' knnTree: possible error in assign("chunk", chunk, frame = 1): unused argument(s) (frame = 1) knnTree: possible error in assign("results", results, frame = 1): unused argument(s) (frame = 1) knnTree: no visible global function definition for 'data.dump' * checking Rd files ... OK * checking Rd files against version 2 parser ... WARNING Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:17:13 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:19:12 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:21:13 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:22:23 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:26:24 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:29:15 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:32:16 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:36:17 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:38:17 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:40:15 Warning in parse_Rd("./man/knn.var.Rd", encoding = "unknown") : bad markup (extra space?) at knn.var.Rd:45:15 Warning: ./man/knn.var.Rd:7: Unnecessary braces at '{knn.var}' Warning: ./man/knn.var.Rd:17-18: Unnecessary braces at '{data frame or matrix of training data with classifications in column 1}' Warning: ./man/knn.var.Rd:19-20: Unnecessary braces at '{data frame or matrix of training data with classifications in column 1. Optional if theyre.the.same = TRUE}' Warning: ./man/knn.var.Rd:21: Unnecessary braces at '{numeric vector of possible values of k, the number of nearest neighbors.}' Warning: ./man/knn.var.Rd:22-25: Unnecessary braces at '{logical describing whether train and test are the same data set. If so, test is ignored and leave-one-out cross-validation is used. This will normally be TRUE when building the classifier and FALSE when predicting.}' Warning: ./man/knn.var.Rd:26-28: Unnecessary braces at '{logical, TRUE if all error rates (that is, one for every element of k.vec) should be returned. If FALSE, only the smallest is returned.}' Warning: ./man/knn.var.Rd:29-31: Unnecessary braces at '{numeric describing scaling technique: 0 means do no scaling; 1 means choose between no scaling and scaling each column by its SD; 2 means choose between no scaling and scaling each column by its MAD.}' Warning: ./man/knn.var.Rd:32-35: Unnecessary braces at '{logical describing variable selection technique. TRUE means start with all variables and delete them one at a time until there is no improvement; FALSE means start with no variables and add them one at a time.}' Warning: ./man/knn.var.Rd:36-37: Unnecessary braces at '{numeric giving maximum number of steps to take. If negative, continue until there is no improvement. Default: -1.}' Warning: ./man/knn.var.Rd:38-39: Unnecessary braces at '{logical, TRUE if a copy of the call should be saved in the resulting object}' Warning: ./man/knn.var.Rd:40-44: Unnecessary braces at '{numeric for debugging purposes. If verbose is 0, no diagnostic output is produced. If verbose > 0, diagnostic output (more as the value increases) is placed in a file called "status.txt" in the \code{HOME} directory. When verbose is 2 or (especially) 3 this file may become very large.}' Warning: ./man/knn.var.Rd:45-46: Unnecessary braces at '{logical, TRUE if the C code should try to use a technique that uses more memory but runs faster.}' Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:13:15 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:14:19 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:15:9 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:16:13 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:17:12 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:19:16 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:24:21 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:25:15 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:28:22 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:30:14 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:31:16 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:35:17 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:37:15 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:39:18 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:40:15 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:44:13 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:45:13 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:47:15 Warning in parse_Rd("./man/knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at knnTree.Rd:49:19 Warning: ./man/knnTree.Rd:13: Unnecessary braces at '{data frame or matrix of training data without classifications}' Warning: ./man/knnTree.Rd:14: Unnecessary braces at '{categorical vector of training set classifications}' Warning: ./man/knnTree.Rd:15: Unnecessary braces at '{numeric, number of blocks for cross-validation}' Warning: ./man/knnTree.Rd:16: Unnecessary braces at '{numeric vector of numbers of k to consider}' Warning: ./man/knnTree.Rd:17-18: Unnecessary braces at '{if present, passed to \code{set.seed()} to initialize the random number generator}' Warning: ./man/knnTree.Rd:19-23: Unnecessary braces at '{character, giving method by which to choose the size of the tree. Choices are ignore (consider all sizes up to size of first unpruned tree); find (consider all sizes up to size of first pruned tree); fix (use tree size passed in opt.tree.size); max (consider all sizes <= opt.tree.size)}' Warning: ./man/knnTree.Rd:24: Unnecessary braces at '{tree size used if opt.tree = fix or max}' Warning: ./man/knnTree.Rd:25-27: Unnecessary braces at '{numeric describing scaling technique: 0 means do no scaling; 1 means choose between no scaling and scaling each column by its SD; 2 means choose between no scaling and scaling each column by its MAD.}' Warning: ./man/knnTree.Rd:28-29: Unnecessary braces at '{function to do pruning, normally prune.tree or prune.misclass}' Warning: ./man/knnTree.Rd:30: Unnecessary braces at '{logical; if TRUE, prune and then use one-SE rule}' Warning: ./man/knnTree.Rd:31-34: Unnecessary braces at '{logical describing variable selection technique. TRUE means start with all variables and delete them one at a time until there is no improvement; FALSE means start with no variables and add them one at a time.}' Warning: ./man/knnTree.Rd:35-36: Unnecessary braces at '{numeric giving maximum number of steps to take. If negative, continue until there is no improvement. Default: -1.}' Warning: ./man/knnTree.Rd:37-38: Unnecessary braces at '{number of cross-validation block to start at; for debugging only}' Warning: ./man/knnTree.Rd:39: Unnecessary braces at '{number of leaf to start at; for debugging only}' Warning: ./man/knnTree.Rd:40-43: Unnecessary braces at '{numeric for debugging purposes. If verbose is 0, no diagnostic output is produced. If verbose > 0, diagnostic output (more as the value increases) is sent to file fname, which is the screen if fname is the empty string.}' Warning: ./man/knnTree.Rd:44: Unnecessary braces at '{currently not used}' Warning: ./man/knnTree.Rd:45-46: Unnecessary braces at '{string naming the file to which diagnostic output is sent if verbose > 0}' Warning: ./man/knnTree.Rd:47-48: Unnecessary braces at '{logical, TRUE if the C code should try to use a technique that uses more memory but runs faster.}' Warning: ./man/knnTree.Rd:49-52: Unnecessary braces at '{character; if not empty, the resulting object is assigned to results in frame 1 and also dumped to disk in the file named in save.output. This can be useful for parallel processing.}' Warning in parse_Rd("./man/predict.knn.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knn.Rd:10:14 Warning in parse_Rd("./man/predict.knn.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knn.Rd:11:12 Warning in parse_Rd("./man/predict.knn.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knn.Rd:13:13 Warning in parse_Rd("./man/predict.knn.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knn.Rd:15:23 Warning in parse_Rd("./man/predict.knn.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knn.Rd:17:30 Warning in parse_Rd("./man/predict.knn.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knn.Rd:19:15 Warning in parse_Rd("./man/predict.knn.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knn.Rd:24:11 Warning: ./man/predict.knn.Rd:5: Unnecessary braces at '{knn.var}' Warning: ./man/predict.knn.Rd:10: Unnecessary braces at '{knn model created by \R{}{knn.var}}' Warning: ./man/predict.knn.Rd:11-12: Unnecessary braces at '{data frame or matrix of test data with classifications in column 1.}' Warning: ./man/predict.knn.Rd:13-14: Unnecessary braces at '{data frame or matrix of training data with classifications in column 1}' Warning: ./man/predict.knn.Rd:15-16: Unnecessary braces at '{logical describing whether train and test are the same data set. If so, train is ignored.}' Warning: ./man/predict.knn.Rd:17-18: Unnecessary braces at '{logical: if TRUE, classifications for each element in the test set are returned.}' Warning: ./man/predict.knn.Rd:19-23: Unnecessary braces at '{numeric for debugging purposes. If verbose is 0, no diagnostic output is produced. If verbose > 0, diagnostic output (more as the value increases) is placed in a file called "status.txt" in the \code{HOME} directory. When verbose is 2 or (especially) 3 this file may become very large.}' Warning: ./man/predict.knn.Rd:24: Unnecessary braces at '{Other arguments, currently ignored}' Warning in parse_Rd("./man/predict.knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knnTree.Rd:9:14 Warning in parse_Rd("./man/predict.knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knnTree.Rd:10:12 Warning in parse_Rd("./man/predict.knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knnTree.Rd:12:13 Warning in parse_Rd("./man/predict.knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knnTree.Rd:14:15 Warning in parse_Rd("./man/predict.knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at predict.knnTree.Rd:15:11 Warning: ./man/predict.knnTree.Rd:5: Unnecessary braces at '{knnTree}' Warning: ./man/predict.knnTree.Rd:9: Unnecessary braces at '{knnTree model created by \R{}{knnTree}}' Warning: ./man/predict.knnTree.Rd:10-11: Unnecessary braces at '{data frame or matrix of test data with classifications in column 1.}' Warning: ./man/predict.knnTree.Rd:12-13: Unnecessary braces at '{data frame or matrix of training data with classifications in column 1}' Warning: ./man/predict.knnTree.Rd:14: Unnecessary braces at '{logical; if TRUE the error rate for each leaf is printed}' Warning: ./man/predict.knnTree.Rd:15: Unnecessary braces at '{Other arguments, currently ignored}' Warning in parse_Rd("./man/print.knn.Rd", encoding = "unknown") : bad markup (extra space?) at print.knn.Rd:9:9 Warning in parse_Rd("./man/print.knn.Rd", encoding = "unknown") : bad markup (extra space?) at print.knn.Rd:10:11 Warning: ./man/print.knn.Rd:6: Unnecessary braces at '{knn.var}' Warning: ./man/print.knn.Rd:9: Unnecessary braces at '{knn.var model created by \R{}{knn.var}}' Warning: ./man/print.knn.Rd:10: Unnecessary braces at '{Other arguments, currently ignored}' Warning in parse_Rd("./man/print.knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at print.knnTree.Rd:9:9 Warning in parse_Rd("./man/print.knnTree.Rd", encoding = "unknown") : bad markup (extra space?) at print.knnTree.Rd:10:11 Warning: ./man/print.knnTree.Rd:6: Unnecessary braces at '{knnTree}' Warning: ./man/print.knnTree.Rd:9: Unnecessary braces at '{knnTree model created by \R{}{knnTree}}' Warning: ./man/print.knnTree.Rd:10: Unnecessary braces at '{Other arguments, currently ignored}' * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... NOTE S3 methods shown with full name in documentation object 'predict.knn': predict.knn S3 methods shown with full name in documentation object 'predict.knnTree': predict.knnTree S3 methods shown with full name in documentation object 'print.knn': print.knn S3 methods shown with full name in documentation object 'print.knnTree': print.knnTree The \usage entries for S3 methods should use the \method markup and not their full name. See the chapter 'Writing R documentation files' in manual 'Writing R Extensions'. * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking for portable compilation flags in Makevars ... OK * checking for portable use of $BLAS_LIBS ... OK * checking examples ... OK * checking PDF version of manual ... OK