R Under development (unstable) (2025-03-03 r87871 ucrt) -- "Unsuffered Consequences"
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> # This file is part of the standard setup for testthat.
> # It is recommended that you do not modify it.
> #
> # Where should you do additional test configuration?
> # Learn more about the roles of various files in:
> # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
> # * https://testthat.r-lib.org/articles/special-files.html
> 
> library(testthat)
> library(pkgdiff)
> 
> test_check("pkgdiff")
# A difference object: logr package
- Comparing: v1.3.6/v1.3.7
- Breaking Changes: FALSE
- Added Functions: 
  - get_warnings()
  - log_error()
  - log_resume()
  - log_suspend()
- Added Parameters: 
  - log_close(): footer
  - log_open(): header
# A difference object: admiral package
- Comparing: v0.12.3/v1.0.0
- Breaking Changes: TRUE
- Added Functions: 
  - derive_var_merged_ef_msrc()
  - derive_vars_computed()
  - derive_vars_extreme_event()
  - flag_event()
- Added Parameters: 
  - consolidate_metadata(): check_type
  - derive_extreme_event(): tmp_event_nr_var
  - derive_param_exposure(): dataset_add, filter_add
  - derive_summary_records(): dataset_add, dataset_ref, filter_add, missing_values
  - derive_var_anrind(): signif_dig
  - derive_var_extreme_flag(): true_value, false_value
  - derive_var_joined_exist_flag(): dataset_add, first_cond_lower, first_cond_upper, filter_add, filter_join
  - derive_var_merged_summary(): new_vars, missing_values
  - derive_vars_joined(): tmp_obs_nr_var, join_type, first_cond_lower, first_cond_upper, exist_flag, true_value, false_value
  - derive_vars_merged(): exist_flag, true_value, false_value
  - event_joined(): first_cond_lower, first_cond_upper
  - filter_joined(): dataset_add, first_cond_lower, first_cond_upper, filter_add, filter_join
  - set_admiral_options(): signif_digits
- Removed Functions: 
  - assert_terms()
  - assert_valid_queries()
  - derive_param_extreme_event()
  - derive_var_basetype()
  - derive_var_confirmation_flag()
  - derive_var_last_dose_amt()
  - derive_var_last_dose_date()
  - derive_var_last_dose_grp()
  - derive_var_merged_cat()
  - derive_var_merged_character()
  - derive_vars_last_dose()
  - extend_source_datasets()
  - filter_date_sources()
  - validate_basket_select()
  - validate_query()
- Removed Parameters: 
  - derive_extreme_records(): filter
  - derive_param_exist_flag(): aval_fun, dataset_adsl, subject_keys
Package data for 'logxx' not found.
Package data for 'logxx' not found.
Archive versions of 'logxx' not available.
# A difference object: fmtr package
- Comparing: v1.5.7/v1.5.8
- Breaking Changes: TRUE
- Added Functions: 
  - fapply2()
- Added Parameters: 
  - fmt_cnt_pct(): na, zero
- Removed Functions: 
  - labels.data.frame()
  - labels<-()
# A difference object: fmtr package
- Comparing: v1.5.7/v1.5.8
- Breaking Changes: TRUE
- Added Functions: 1
- Added Parameters: 1
- Removed Functions: 
  - labels.data.frame()
  - labels<-()
# A difference object: fmtr package
- Comparing: v1.5.5/v1.5.7
- Breaking Changes: FALSE
# A difference object: fmtr package
- Comparing: v1.5.5/v1.5.7
- Breaking Changes: FALSE
Loading required package: proto
Loading required package: grid
Loading required package: reshape
Loading required package: proto
Loading required package: reshape
# A package info object: Matrix package
- Version: v1.7-2
- Release Date: 2025-01-23
- Title: Sparse and Dense Matrix Classes and Methods
- Maintainer: Martin Maechler <mmaechler+Matrix@gmail.com>
- License: GPL (>= 2) | file LICENCE
- Description: A rich hierarchy of sparse and dense matrix classes,
including general, symmetric, triangular, and diagonal matrices
with numeric, logical, or pattern entries.  Efficient methods for
operating on such matrices, often wrapping the 'BLAS', 'LAPACK',
and 'SuiteSparse' libraries.
- Depends: R (>= 4.4), methods
- Imports: grDevices, graphics, grid, lattice, stats, utils
- Suggests: MASS, datasets, sfsmisc, tools
- Enhances: SparseM, graph
- Downloads/Month: 131226
- Repository: CRAN
- Cached: FALSE
- Functions: 
  - !()
  - %&%()
  - %*%()
  - +()
  - ..2dge(): from
  - .C2nC(): from, isTri
  - .CR2RC(): from
  - .CR2T(): from
  - .M2C(): from
  - .M2R(): from
  - .M2T(): from
  - .M2V(): from
  - .M2diag(): from
  - .M2gen(): from, kind
  - .M2kind(): from, kind, sparse
  - .M2m(): from
  - .M2packed(): from
  - .M2sym(): from, ...
  - .M2tri(): from, ...
  - .M2unpacked(): from
  - .M2v(): from
  - .SuiteSparse_version()
  - .T2CR(): from, Csparse
  - .T2Cmat(): from, isTri
  - .asmatrix(): x
  - .bdiag(): lst
  - .dense2g(): from, kind
  - .dense2kind(): from, kind
  - .dense2m(): from
  - .dense2sparse(): from, repr
  - .dense2sy(): from, ...
  - .dense2v(): from
  - .diag.dsC(): x, Chx, res.kind
  - .diag2dense(): from, kind, shape, packed, uplo
  - .diag2mat(): from
  - .diag2sT(): from, uplo, kind, drop0
  - .diag2sparse(): from, kind, shape, repr, uplo
  - .diag2tT(): from, uplo, kind, drop0
  - .diagN2U(): x, cl, checkDense
  - .diagU2N(): x, cl, checkDense
  - .dsy2dsp(): from
  - .dsy2mat(): from, keep.dimnames
  - .dxC2mat(): from, chkUdiag
  - .formatSparseSimple(): m, asLogical, digits, col.names, note.dropping.colnames, dn
  - .ind2dense(): from, kind
  - .ind2sparse(): from, kind, repr
  - .m2V(): from, kind
  - .m2dense(): from, class, uplo, diag, trans
  - .m2dgC(): from
  - .m2lgC(): from
  - .m2ngC(): from
  - .m2ngCn(): from, na.is.not.0
  - .m2ngTn(): from, na.is.not.0
  - .m2sparse(): from, class, uplo, diag, trans
  - .n2dgT(): from
  - .nC2d(): from
  - .nC2l(): from
  - .solve.dgC.chol(): a, b, check
  - .solve.dgC.lu(): a, b, tol, check
  - .solve.dgC.qr(): a, b, order, check
  - .sparse2dense(): from, packed
  - .sparse2g()
  - .sparse2kind(): from, kind, drop0
  - .sparse2m()
  - .sparse2v()
  - .sparseDiagonal(): n, x, uplo, shape, unitri, kind, cols
  - .symDiagonal(): n, x, uplo, kind
  - .tCR2RC(): from
  - .tCRT(): x, lazy
  - .trDiagonal(): n, x, uplo, unitri, kind
  - .updateCHMfactor(): object, parent, mult
  - .validateCsparse(): x, sort.if.needed
  - Arith()
  - BunchKaufman()
  - Cholesky()
  - Compare()
  - Diagonal(): n, x, names
  - Hilbert(): n
  - KhatriRao(): X, Y, FUN, sparseY, make.dimnames
  - Logic()
  - Math()
  - Math2()
  - Matrix(): data, nrow, ncol, byrow, dimnames, sparse, doDiag, forceCheck
  - Matrix.Version()
  - MatrixClass(): cl, cld, ...Matrix, dropVirtual, ...
  - Ops()
  - Schur()
  - Summary()
  - T2graph(): from, need.uniq, edgemode
  - abIseq(): from, to, by, length.out, along.with
  - abIseq1(): from, to
  - aggregateT(): x
  - all.equal()
  - anyDuplicatedT(): x, ...
  - as.array()
  - as.array.Matrix()
  - as.array.sparseVector(): x, ...
  - as.complex()
  - as.integer()
  - as.logical()
  - as.matrix()
  - as.matrix.Matrix()
  - as.matrix.sparseVector(): x, ...
  - as.numeric()
  - as.vector()
  - asPerm(): pivot, off, ioff, n
  - asUniqueT(): x, byrow, isT
  - band()
  - bandSparse(): n, m, k, diagonals, symmetric, repr, giveCsparse
  - bdiag(): ...
  - c.abIndex(): ...
  - c.sparseVector(): ...
  - cBind(): ..., deparse.level
  - cbind2()
  - chol()
  - chol2inv()
  - coerce()
  - colMeans()
  - colScale(): x, d
  - colSums()
  - condest(): A, t, normA, silent, quiet
  - cov2cor()
  - crossprod()
  - det(): x, ...
  - determinant()
  - diag()
  - diag<-()
  - diagN2U(): x, cl, checkDense
  - diagU2N(): x, cl, checkDense
  - diff()
  - dim()
  - dim<-()
  - dimScale(): x, d1, d2
  - dimnames()
  - dimnames<-()
  - dmperm(): x, nAns, seed
  - drop()
  - drop0(): x, tol, is.Csparse, give.Csparse
  - expand()
  - expand1()
  - expand2()
  - expm()
  - fac2Sparse(): from, to, drop.unused.levels, repr, giveCsparse, factorPatt12, contrasts.arg
  - fac2sparse(): from, to, drop.unused.levels, repr, giveCsparse
  - facmul()
  - forceSymmetric()
  - format()
  - formatSpMatrix(): x, digits, maxp, cld, zero.print, col.names, note.dropping.colnames, uniDiag, align, ...
  - formatSparseM(): x, zero.print, align, m, asLogical, uniDiag, digits, cx, iN0, dn
  - graph2T(): from, use.weights
  - head()
  - image()
  - invPerm(): p, zero.p, zero.res
  - invertPerm(): p, off, ioff
  - is.finite()
  - is.infinite()
  - is.na()
  - is.null.DN(): dn
  - isDiagonal()
  - isLDL(): x
  - isPerm(): p, off
  - isSymmetric()
  - isTriangular()
  - isUniqueT(): x, byrow, isT
  - kronecker()
  - length()
  - lu()
  - mat2triplet(): x, uniqT
  - mean()
  - nearPD(): x, corr, keepDiag, base.matrix, do2eigen, doSym, doDykstra, only.values, ensureSymmetry, eig.tol, conv.tol, posd.tol, maxit, conv.norm.type, trace
  - nnzero()
  - norm()
  - onenormest(): A, t, A.x, At.x, n, silent, quiet, iter.max, eps
  - pack()
  - print()
  - print.diagSummary()
  - print.sparseSummary(): x, ...
  - printSpMatrix(): x, digits, maxp, cld, zero.print, col.names, note.dropping.colnames, uniDiag, col.trailer, align, ...
  - printSpMatrix2(): x, digits, maxp, zero.print, col.names, note.dropping.colnames, uniDiag, suppRows, suppCols, col.trailer, align, width, fitWidth, ...
  - qr()
  - qr.Q()
  - qr.R()
  - qr.X()
  - qr.coef()
  - qr.fitted()
  - qr.qty()
  - qr.qy()
  - qr.resid()
  - qr2rankMatrix(): qr, tol, isBqr, do.warn
  - qrR(): qr, complete, backPermute, row.names
  - rBind(): ..., deparse.level
  - rankMatrix(): x, tol, method, sval, warn.t, warn.qr
  - rbind2()
  - rcond()
  - readHB(): file
  - readMM(): file
  - rep()
  - rep2abI(): x, times
  - rowMeans()
  - rowScale(): x, d
  - rowSums()
  - rsparsematrix(): nrow, ncol, density, nnz, symmetric, rand.x, ...
  - show()
  - signPerm(): p, off
  - skewpart()
  - solve()
  - spMatrix(): nrow, ncol, i, j, x
  - sparse.model.matrix(): object, data, contrasts.arg, xlev, transpose, drop.unused.levels, row.names, sep, verbose, ...
  - sparseMatrix(): i, j, p, x, dims, dimnames, symmetric, triangular, index1, repr, giveCsparse, check, use.last.ij
  - sparseVector(): x, i, length
  - summary()
  - symmpart()
  - t()
  - tail()
  - tcrossprod()
  - toeplitz()
  - tril()
  - triu()
  - uniqTsparse(): x, class.x
  - unname()
  - unpack()
  - update()
  - updown()
  - which()
  - writeMM()
  - zapsmall()
Package R.oo version 1.4.2 has no namespace file.
# A package info object: R.oo package
- Version: v1.4.2
- Release Date: 
- Title: R object-oriented programming with or without references
- Maintainer: Henrik Bengtsson <henrikb@braju.com>
- License: LGPL (>= 2.1)
- Description: Methods and classes for object-oriented programming in R with or without references.  Large effort has been made on making definition of methods as simple as possible with a minimum of maintainance for package developers.  The package has been developed since 2001 and is now considered very stable.  This is a cross-platform package implemented in pure R that defines standard S3 classes without any tricks.
- Depends: R (>= 2.2.0), R.methodsS3, utils
- Imports: methods
- Suggests: tools
- Downloads/Month: 186733
- Repository: 
- Cached: TRUE
- Functions: 
  - .First.lib(): libname, pkgname
Package xtable version 1.0-1 has no namespace file.
# A package info object: xtable package
- Version: v1.0-1
- Release Date: 
- Title: Export tables
- License: GPL version 2 or later
- Description: Coerce data to LaTeX and HTML tables
- Depends: 
- Downloads/Month: 468313
- Cached: TRUE
- Functions: 
  - caption(): x, ...
  - caption.xtable(): x
  - label(): x, ...
  - label.xtable(): x
  - align(): x, ...
  - align.xtable(): x
  - digits(): x, ...
  - digits.xtable(): x
  - display(): x, ...
  - display.xtable(): x
  - xtable(): x, ...
  - xtable.data.frame(): x, caption, label, align, digits, display
  - xtable.matrix(): x, caption, label, align, digits, display
  - xtable.anova(): x, caption, label, align, digits, display
  - xtable.aov(): x, caption, label, align, digits, display, ...
  - xtable.summary.aov(): x, caption, label, align, digits, display
  - xtable.aovlist(): x, caption, label, align, digits, display
  - xtable.summary.aovlist(): x, caption, label, align, digits, display
  - xtable.lm(): x, caption, label, align, digits, display
  - xtable.summary.lm(): x, caption, label, align, digits, display
  - xtable.glm(): x, caption, label, align, digits, display
  - xtable.summary.glm(): x, caption, label, align, digits, display
  - xtable.prcomp(): x, caption, label, align, digits, display
  - xtable.summary.prcomp(): x, caption, label, align, digits, display
  - xtable.princomp(): x, caption, label, align, digits, display
# A package info object: gtools package
- Version: v2.0.7
- Release Date: 
- Title: Various functions to help manipulate data.
- Maintainer: Nitin Jain <nitin.jain@pfizer.com>
- License: GPL (version 2 or later)
- Description: Various functions to help manipulate data
- Depends: R (>= 1.9.0)
- Downloads/Month: 162868
- Cached: TRUE
- Functions: 
  - combinations(): n, r, v, set, repeats.allowed
  - ddirichlet(): x, alpha
  - even(): x
  - foldchange(): num, denom
  - foldchange2logratio(): foldchange, base
  - inv.logit(): x, min, max
  - invalid(): x
  - logit(): x, min, max
  - logratio2foldchange(): logratio, base
  - mixedorder()
  - mixedsort()
  - odd(): x
  - permutations(): n, r, v, set, repeats.allowed
  - permute(): x
  - quantcut(): x, q, na.rm, ...
  - rdirichlet(): n, alpha
  - running()
  - scat(): ...
# A package info object: logr package
- Version: v1.3.8
- Release Date: 2024-05-09
- Title: Creates Log Files
- Maintainer: David Bosak <dbosak01@gmail.com>
- License: CC0
- Description: Contains functions to help create log files.  The
package aims to overcome the difficulty of the base R sink() command.  The
log_print() function will print to both the console and the file log,
without interfering in other write operations.
- Depends: R (>= 3.4.0), common (>= 1.1.3)
- Imports: withr, utils
- Suggests: knitr, rmarkdown, testthat, tidylog, dplyr, covr
- Downloads/Month: 4510
- Repository: CRAN
- Cached: TRUE
- Functions: 14
# A package info object: logr package
- Version: v1.3.8
- Release Date: 2024-05-09
- Title: Creates Log Files
- Maintainer: David Bosak <dbosak01@gmail.com>
- License: CC0
- Description: Contains functions to help create log files.  The
package aims to overcome the difficulty of the base R sink() command.  The
log_print() function will print to both the console and the file log,
without interfering in other write operations.
- Depends: R (>= 3.4.0), common (>= 1.1.3)
- Imports: withr, utils
- Suggests: knitr, rmarkdown, testthat, tidylog, dplyr, covr
- Downloads/Month: 4510
- Repository: CRAN
- Cached: TRUE
- Functions: 
  - get_warnings()
  - log_close(): footer
  - log_code()
  - log_error(): msg
  - log_hook(): x
  - log_open(): file_name, logdir, show_notes, autolog, compact, traceback, header
  - log_path()
  - log_print(): x, ..., console, blank_after, msg, hide_notes
  - log_resume(): file_name
  - log_status()
  - log_suspend()
  - log_warning(): msg
  - put(): x, ..., console, blank_after, msg, hide_notes
  - sep(): x, console
Package data for 'grid' has been archived.
Package data for 'grid' has been archived.
Package grid version 0.7-4 has no namespace file.
Package data for 'maptools' has been archived.
Package data for 'maptools' has been archived.
Comparing knitr v1.39/v1.49
Comparing rvest v0.3.6/v1.0.4
Getting stability score for package 'common'...
Getting stability score for package 'fmtr'...
Getting stability score for package 'libr'...
Getting stability score for package 'defineR'...
Package data for 'definer' not found.
Archive versions of 'definer' not available.
Comparing procs 1.0.5/1.0.6
Comparing procs 1.0.4/1.0.5
Comparing procs 1.0.3/1.0.4
Package data for 'forker' not found.
Archive versions of 'forker' not available.
Archive versions of 'concatenate' not available.
Package data for 'grid' has been archived.
Package data for 'purr' not found.
Archive versions of 'definrr' not available.
Archive versions of 'defineR' not available.
Package data for 'forker' not found.
Archive versions of 'forker' not available.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 246 ]
> 
> proc.time()
   user  system elapsed 
   8.59    2.09   46.56