as.cntrol.list.list() and hence snctrl() no longer clobbers nested controls, e.g., control.ergm(SAN=control.san(...),...).|>) for now.ginv_eigen(), which performs generalised inverse via eigendecomposition rather than SVD, to be used by sginv() if snnd=TRUE; and xTAx_eigen() and xTAx_seigen() to evaluate the inverse quadratic form using eigendecomposition.lweighted.var() and lweighted.cov() now take an additional argument onerow= to specify what they should return (NA, 0, or something else) if the input matrix has one row.var.mcmc.list() "method" to evaluate the covariance matrix for an mcmc.list without constructing a large matrix.colMeans.mcmc.list() "method" no longer constructs a large matrix when calculating.lweighted.cov(), to compute weighted covariance between two matrices or vectors.is.SPD(), sandwich_solve(), sandwich_ssolve(), sginv(), snearPD(), srcond(), ssolve(), xAxT(), xTAx(), xTAx_qrsolve(), xTAx_qrssolve(), xTAx_solve(), and xTAx_ssolve() moved from ergm and documented.handle.controls(), arguments that are match.arg()-ed are now evaluated in the correct frame.unused_dots_warning() is exported that works with rlang::check_dots_used() to print an informative message.term_list for storing terms extracted from a formula, by list_rhs.formula() and others, containing information about each term's sign and environment. Concatenation, indexing, and print methods are implemented.list_rhs.formula() can now handle NULL terms on the RHS.Welford that implements method update() and maintains elements $n, $means, $SSDs, and $vars.snctrl() was issuing a warning twice when called with a misspelled argument.
deInf() now handles NULL input.
in locate_function() a subtle bug has been fixed in handling of visible as opposed to invisible objects.
ergm's term locator functions (locate_function() and locate_prefixed_function()) have been moved from ergm.
A new function, default_options(), a wrapper around options() that drops options already set.
A new function, as.control.list() generic and methods which take an R list and call an appropriate control.*() function on it.
check.control.class() now first runs the control argument through as.control.list() and overwrites, so control= arguments to many functions can be plain lists.
A new function, simplify_simple(), which takes a list and returns an atomic vector if the elements of the list are atomic and of length 1, with particular handling for NULL and empty (0-length) elements.
A new function, snctrl() (StatNet ConTRoL), designed so that argument completion will complete all available control functions. Looking up its help (?snctrl) produces a dynamic list of all control parameters and their packages and control functions that is updated as packages are loaded and unloaded.
A new function, handle.controls(), that performs the most normal functions in a control.*() function.
Two trivial helper functions, base_env() and empty_env(), to replace an object's environment with baseenv() and emptyenv(),
respectively.
A new function, fixed.pval() that wraps base::format.pval() with better default arguments.
A reimplementation of attr() is exported, which disables partial matching by default.
statnetStartupMessage() now first looks for a comment=(affil=...) for the contributor's affiliation, before using e-mail.
Improved output formatting for .Deprecate_once().
append_rhs.formula() now accepts NULL as the first argument, in which case it creates a new formula, and takes an additonal argument env=, which is used as this new formula's environment.
rle utilities are no longer reexported.
statnet.common no longer depends on purrr.
statnetStartupMessage() has been simplified.
split() methods for matrices and arrays, to split them along a margin.
trim_env(), a generic that will replace an environment (possibly attached to another object) with a sub-environment containing only objects whose names are specified.
A diff() method for control lists and a print() method for the resulting differences.
deInf(), to replace .deinf() in package ergm.
A compress() generic, a compress() method for RLEs, and a doNotCompress argument to rep.rle(). Both compact.rle() and the doNotCompact argument to rep.rle() are now deprecated.
Various optimizations have been made to RLEs.
nonsimp_update.formula() now handles both one and two sided formulas; it also now copies all names except ... when from.new = TRUE.
str.rle() now works despite the overridden length() method.EVL(), a family of functions like NVL(), that treat any object of length 0 as NULL.
once(), a purrr-style adverb that wraps a function to only evaluate the first time it's called with a given configuration of arguments.
persistEval() and persistEvalQ() to retry evaluating a given expression a specified number of times.
forkTimeout(), don't collect a process twice. Thanks to Tomas Kalibera for suggesting the fix..Deprecate_once() calls .Deprecated(), passing all its arguments through, but only the first time it's called.
.Deprecate_method() calls .Deprecated(), but only if a method has been called by name, i.e., METHOD.CLASS.
forkTimeout() evaluates an R expression with a hard time limit (except on Windows) by forking a process. Unlike setTimeLimit(), it enforces the limit even on native code.
ult() is a convenience function that extracts or replaces elements of a list indexed from the end.
statnet.common now depends on R >= 3.5 due to what appears to be a method dispatching bug in earlier versions.
The package no longer Enhances coda.
despace() removes whitespace from a string.
Pseudo-methods colMeans.mcmc.list(), sweep.mcmc.list(), and lapply.mcmc.list() (migrated from the ergm package).
filter_rhs.formula() selectively deletes terms in on the RHS of a formula.
eval_lhs.formula() extracts the LHS of the formula and evaluates it in the specified environment.
NVL2() and NVL3() for flexible substitution of null values.
message_print() formats its arguments as if for print() or show() methods, but then prints to stderr like message().
paste.and() now takes an additional con= argument, allowing a conjunction other than "and" to be used.
ERRVL() now uses lazy evaluation and lets the user dot-substitute the previous argument's try-error into the next argument.
Printing for control lists now works for function arguments.
A number of improvements to rle methods.
A number of functions have been renamed for consistency:
term.list.formula() → list_rhs.formula()append.rhs.formula() → append_rhs.formula()nonsimp.update.formula() → nonsimp_update.formula()Citation utilities have been deprecated, since CRAN's structure makes them unusable.
The package now uses Roxygen for documentation.
term.list.formula() output format has been changed, since support of attributes on symbols is being deprecated.
A library of methods has been added for the base rle class, implementing concatenation, compaction, and a number of binary operations.
all_same() has been moved from ergm and renamed to all_identical().
A new assignment method NVL()<- overwrites a variable if its value is NULL.
A set of classes and functions for manipulating and efficiently performing calculations on dense matrices or vectors with weighted rows or elements (possibly on the log scale) has been added.
New control parameter helper function, control.remap() has been added. Autodetection of function names by set.control.class() and check.control.class() has been deprecated and now results in a warning.
Improvements to the compressed data frame code, including an order() generic.
Miscellaneous robustifications added.
Native routine registration has been added.
append.rhs.formula(), vectors.namesmatch(), term.list.formula(), and ergm.update.formula() (renamed to nosimp.update.formula()) moved from ergm.
Skye Bender-deMoll has been added as a contributor.
ERRVL() moved from ergm.
Some NAMESPACE and other fixes to pass CRAN checks.
Updated e-mail address
Some improvements to opttest.
set.control.class(), check.control.class(), print.control.list()); startup message framework; NVL(); sort.data.frame(); compress.data.frame(); paste.and(); citation utilities framework; and opttest() framework.