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section_properties_default() function to define
standard portrait properties for tables..html outputs.bold_titles to
tt_to_flextable() to bold titles.tt_to_flextable(), and/or extend themes.reorder_split_levels() to cover more edge
cases and be more stringent in the allowed inputs.tt input from
theme_docx_default() and added code to handle row classes
and number of columns internally.theme_docx_default().bold_titles to
tt_to_flextable() to bold titles."\n" newline issues in as_html by
relying onto output devices for newline handling. Added
expand_newlines = FALSE default to allow previous
behavior.keep_split_levels() throws now an error if the user
requests to keep levels that are not present in data.tt_as_flextable() header when title was added.flextable."" having larger imposed
margins than filled cell. They are transformed into " "
before rendering.theme_docx_default() when only one line of column names is
present, but top left information is on multiple lines.sep = "\t" and set other
parameters via ... parameter propagation in
export_as_tsv.matrix_form and
toString.simple_analysis into utils file.theme_docx_default() showing how to
extend the default theme.theme_html_default().col_counts vignette wording, as CRAN
macOS check failed. Raised the issue with the R-core team
already.truetype fonts based on
formatters version >= 0.5.8. Nearly all
functions related to pagination or export now accept
fontspec argument and pass it around accordingly, by @gmbecker.make_split_fun provided that core_split
associates the generated facets with subsetting expressions. Subsetting
expressions remain unnecessary for splits in row space. By @gmbecker.make_split_res, add_to_split_result now
accept a list of subsetting expressions which will be attached to the
values, by @gmbecker.value_expr internal getter and setter methods, by
@gmbecker.split_cols_by* functions now accept
show_colcounts and colcount_format
arguments.colcount_visible getter and
setter for changing column count visibility in an already built table
@gmbecker.facet_colcount getter and
setter column count value at arbitrary point in column structure of
built table @gmbecker.facet_colcounts_visible setter to conveniently set
the column count visibility of a set of sibling facets in column
spacerm_all_colcounts convenience function for turning
off visibility all column counts throughout the column structure @gmbecker.as_html preventing indentation from being
applied in Viewer output.col_counts<- and col_total<- methods
now explicitly convert value to integer, by @gmbecker.col_gap is now respected in nlines row
methods, and thus by make_row_df, by @gmbecker.lifecycle badge files for deprecated
documentation.gap and check_headers
arguments to rbindl_rtables using
lifecycle.top_level_section_div for
basic_table to set section dividers for top level
rows.keep_label_rows to as_result_df to
have these lines visible.sort_at_path now gives informative error messages when
the given path does not exist.rlistings decoration (e.g. titles and footers)
expansion when there are new lines. Moved relevant handling from
rtables’ matrix_form function to
formatters’ dedicated mform_handle_newlines
function.rtables_root not being removed when
using as_result_df.as_result_df where rows of the
table have only "root" as path index.sort_at_path pathing to ignore leading
"root" element (regardless of actual root element name) to
match current tt_at_path behavior.section_div for analysis of multiple variables
(AnalyzeMultiVars).mf_rinfo(mf)) and actual selected indentation from
matrix_form(mf, indent_rownames = FALSE).as_html preventing indentation from being
applied in Viewer output.col_counts<- and col_total<- methods
now explicitly convert value to integer, by @gmbecker.col_gap is now respected in nlines row
methods, and thus by make_row_df, by @gmbecker.as_html to accommodate \n
characters.add_analyzed_var and
trim_zero_rows.ref_group reordering in column splits so not to
change the order.bold argument to as_html to bold
specified elements, and header_sep_line argument to print a
horizontal line under the table header in rendered HTML output.section_div and section_div<-). They also
accept split section structure assignment.header_section_div setters and getters for layout
and table objects along with related basic_table
parameter.na_str argument to analyze_colvars
to set custom string to print in place of missing values.data.frame outputs for
as_result_df() via flag parameters as_viewer,
as_strings, and expand_colnames.export_as_pdf function to
formatters.as_result_df causing misalignment of
column names.row_paths() was giving a different path due to it being
made of named values.as_result_df when called on tables with
less than 3 rows.styler and resolved package lint. Changed
default indentation from 4 spaces to 2.as_html.col_fnotes_here to be
replaced with col_footnotes.section_div methods now have a dedicated
documentation page that is visible to users.txt, they preserve the
horizontal separator of the table.stringi and checkmate as
they are fundamental packages for string handling and argument
checking.formatters.na_str).Viewer and as_html to
fail when new line characters were added..docx exports with
export_as_docx().flextable customization with theme
function specific for word documents
(theme_docx_default()).NA rows to be included in every
.df_row split.cfun/afun) can use new parameters
to extend analysis calculations: .alt_df_row and
.alt_df give access to alt_counts_df across
columns, while .all_col_exprs and
.all_col_counts contains global information about all
columns.rbind will retain titles/footer
information if identical in all objects or only present in the first
object being bound.cfun/afun) have more information
about current column split; .spl_context has access to
cur_col_id, cur_col_expr,
cur_col_split, and cur_col_split_val.qtable.qtable_layout from qtable.qtable labeling via row_labels (#698).alt_counts_df presents different splits from
df.formatters:
formatters::check_aligns superseded internal function
chk_rtables_align and
formatters::list_valid_aligns superseded
rtables_aligns.page_by machinery caused by
migration to formatters 0.5.1 pagination framework.page_by labels become missing when only one level
exist in the split_rows_by.var levels but not
lblvar levels.qtable function to create a table with a single
top-level structure in both row and column dimensions involving faceting
by 0 or more variables in each.as_result_df function to flatten a table into a
dataframe.sanitize_table_struct,
validate_table_struct, find_degen_struct to
support degenerative table rendering.paginate_table) by generalizing parameters’ defaults
(cpp, lpp, and font_size).export_as_txt to formatters. Added
to reexports.export_as_rtf to formatters. Not
re-exported.r2rtf to Suggestsformatters and is now invoked from there.
paginate_table remains as a convenience function.str method when called upon table
objects.str method for VTableTree objects
with a default max.level of 3, as the infinite default from
base is not useful or informative.font_size value is now 8 across
pagination and export machinerymargins argument in pagination and export machinery now
(correctly) interpreted as inches. This change is inherited from
formatterslpp and cpp now default to
NA_integer_, which is interpreted as inferring their value
from the physical page size specified."letter".
Pagination can still be turned off in either direction by setting
l/cpp to NULL explicitly.symbol and an
index. Messages associated with symbols will only appear
once per page in the footer materials regardless of number of elements
referenced in the page with that symbol. Matches and inherits from
changes in formatterstrim_zero_rows.cell_values after
sorting.vpaginate_table.sort_at_path.split_label to function
split_rows_by_multivar and extra_args to
function split_cols_by_multivar.split_rows_by_multivar documentation.make_split_fun function for creation of custom
split functionsbasic_table now accepts
colcount_formatspl_context now includes root row in row-split
contexts.export_as_pdf now correctly takes margins
into account when calculating lpp and cpp from
page size.colwidths values
correctlynlines TableRow method (used for both rows
and column label extent in pagination) now correctly handles column
spanningverbose = TRUE now includes original
and adjusted lines-per page informationcont_n_allcols and cont_n_onecol score
functions now throw errors when they are applied to subtables that have
no content table, instead of the previously returned
NAsort_at_path now emits an informative error message
when score functions fail.paginate_table now accepts colwidths and
paginates assuming column label and cell values are wrapped to those
widths.make_row_df now accepts colwidths and
calculates row extents assuming cell values are wrapped to those
widthsnlines TableRow method now uses provided
colwidths to assume cell-value wrappingexport_to_txt now automatically paginates when any form
of page dimension is provided (previously the default was
unconditionally not paginating).formatters increased to
>=0.4.0[<- now treats character i and
j values as paths, the same as [ always
has.[<- CellValue method now preserves
CellValue attributes (e.g., format)nlines methods now accept both colwidths
and max_widthmax_width is now used during pagination to determine
lines taken up by referential footnotesmake_col_df now accepts colwidths
argument, and can be called directly on
InstantiatedColumnInfo objectsformatters increase to
>0.3.3.12"" values.formatters increase to
>0.3.3.11paginate_table now accepts tf_wrap and
max_width and respects title/footer word wrapping when
presenttf_wrap and
max_width and use them in both pagination (when turned on)
and toString when used (pdf, txt exporters).formatters increased to
>0.3.3.10export_as_pdf now accepts standard page/font size
parameterswidth, height,
fontsize are soft deprecated (no warning) and will be fully
deprecated and then removed in the future.toString method for VTableTree now accepts
tf_wrap and max_widthexport_as_txt and export_as_pdf now accept
cpp, as well as tf_wrap and
max_width and default to tf_wrap being on and
max_width = cpp when cpp is non-NULL.basic_table now accepts inset argument for
declaring table insettable_inset
slot, with accessor functions.matrix_form method for VTableTree sets
table_inset valueformatters to
>0.3.3.5 for table_inset supportexact=TRUE in all calls to attr within
access functionsformatters to
>0.3.3.4na_str argument,
which specifies na string with the same inheritance rules
as formatsna_str informationformatters to
>= 0.3.3.3 for support of na_strs with
NA_character_ valuespaginate_table now takes page dimension and font
information and uses formatters::page_lcpp to calculate
lpp and cpp automatically when those are
provided.formatters to
>= 0.3.3.2 for page_lcpppaginate_table now accepts cpp and will
perform vertical pagination when it is non-nullvpaginate_table is now deprecatedformatters to
>=0.3.2.4section_div argument in
split_rows_by* function)formatters to
>=0.3.2.3add_combo_levels #340)
no longer block rbindingcol_counts getter and setter now accept
path argument.cbinding tables from working correctly
([#324]](https://github.com/insightsengineering/rtables/issues/324))linesep argument to toString and related
functions renamed to hsepformatters to
>=0.3.0hsep argument to build_table which
sets the horizontal separator for the constructed table (and subtables
thereof)horizontal_sep and horizontal_sep<-
accessors for constructed tables, the latter of which is mandatorily
recursive.split_rows_by(var, child_labels="hidden") no longer
removes the structural subtable corresponding to levels of
var (#314)formatable dependency renamed to
formatters for suitability of release to CRANformatters (previously
formatable) to >=0.2.0cfun
caused error (#307)path_enriched_df (which powers
tsv export), related to (#308)table_shell to display shell of table with
formatslinesep argument to toString to
specify a character to create the line separator. Previously we used the
en dash as the line separator character, now we changed the default to
the em dash reducing the gap between the dash line elements.NULL is now deprecatedinsert_rrow is deprecated in favor of new
insert_row_at_path and label_at_path<-
functions.spl_context optional argumenttrim_levels_to_map split function for dictating
exact combinations of values which should appear across splitsvalue_formats function now exported which
returns/displays the effective formats of all cells in a tablecompare_rtables is now much faster for tables
with many cellscompare_rtables now accepts structure
argument which adds comparison of structure (by way of row- and
column-path positions)tt_to_flextable coercion functionexport_as_pdf exporter functionvalue_at and cell_values functions now
have methods for TableRow objects making them usable in
sorting/pruning functionstrim_levels_to_map split function based on
[@wwojciech](https://github.com/wwojciech)’s work in #203fnotes_at_path<- functiontrim_levels_in_group now trims empty levels of outer
(split) variable by defaultvalue_at and cell_values now work for
tablerow objectsas_html bug in multivar split
columns caseas_html refactored to support newlines while respecting
table structuredf returned by
make_row_df now reflects extent in lines, thus
will return larger values if the row-label or any cell values contain
newlines.as_html (or viewed in
Viewer) were missing the table class attribute (#194)DataRow with incorrect number of columns is
now an error (#199)colspan
case.NEWS.md filevars_in_layout to list (explicitly named only)
variables used in a layoutSynchronize release with GitHub commit sha.
Documentation revisions as requested by CRAN. No change to package code.
Documentation-text only changes to introduction vignette to pass CRAN’s URL checks. All package, example, test, and vignette code fully identical to that in tagged GitHub release 0.3.4
Minor changes to the 0.3.3 version in order to submit
rtables to CRAN.
This version completely refactors the rtables package.
We do provide a backwards compatibility layer with the
rtable, rcell, rrow,
rheader, and rtabulate family of functions.
However the table data structure and main tabulation framework have
changed. We provide extensive documentation in the manuals
help(package = "rtables") and vignettes
vignette(package = "rtables") of the package.
The changes to rtables have been undertaken to better
meet the requirements of creating and analyzing & reporting tables
in the context of clinical trials.
make_afun now force()s all customization
arguments immediately, which prevents problems when called within
loop/lapply constructs.multivar column splitsanalyze_colvars’s inclNAs argument now
respected.make_pagdfmake_pagdf indent
calculation remains correct.in_ref_col and .ref_group work correctly when
custom splitting is used (including the provided combination-levels
mechanism)multivar case (split
itself now has default name "multivars")MultiVarSplit with different associated levelssplit_cols_by_multivarcbinds.summarize_row_groups can now accept a list of functions
for the cfun argument as analyze_colvars
does.value_formats accessor so it operates on
CellValues rather than the raw contained values (thus
always returning NULL)rrow constructor no longer interprets cell formats a
row format when they are the same across all cells. Fixes bug in
“correct way” code discussed in #112in_rows as cell formats
rather than row formats.cbind_rtables can now take more than 2 tables.analyze_colvarsanalyze_colvars now takes and adheres to
inclNAs argumentxx.xx (xx.xx - xx.xx) and
x.xxxx | (<0.0001)col_by in rtabulate now accepts matrices:
col_by_to_matrix, col_by_to_factor,
by_factor_to_matrix.by_add_total, by_all,
by_combine, by_quartile,
by_compare_subset, by_hierarchical,
by_drop_empty_cols.label, var_labels<-,
var_labels, var_labels_remove,
var_relabel, with_label.cbing_rtables.empty_rtables, is_empty_rtable,
is_non_empty_rtable, is_rtable.header_indent, header_indent<-,
header_row.names, header_row.names<-.insert_rrow.rbind.rtable now supports binding rtables with rows,
e.g. rbind(tbl1, rrow(), tbl2) or
rbind(tbl1, rrow("row name"), tbl2).rbindl_rtables supports NULL objects in
the list (except for the first element).indent function.header_add_N deals gracefully with NULL
objects.rtablulate family of functions do not support the
row_*_data_args arguments anymore. Instead, the
col_wise_args argument is introduced.order_rrows, sort_rrows,
order_rtables, and sort_rtables are
introduced.rtables from being unlisted with
unlist.rtables.Viewer now also accepts objects of class
shiny.tag (defined in package htmltools).as.html accepts class.table,
class.tr, class.th, and class.td
as an argument.sprintf_format for formatting rcells
(thanks to Doug Kelkhoff for the suggestion)."(N=xx)" and ">999.9" format
labels.rtabulate has now an argument col_N and
the function col_N().0.1.0 is a major re-design with lots of
internal refactoring and the following API changes:
rtable has now header argument
instead of col.names. A header can be created
with rheader and is a collection of rrows. If
header is set to c("A", "B") then
rtable will create the rheader with a single
rrow and by setting row.name to
NULL.header and header<- function
added.get_rcell_formats to
list_rcell_format_labels.rcell format is NULL then the cell
content will be converted to a string with
paste(as.character(x), collapse = ', ').[i,] works now to subset a table.rbind method for rtables.row.names<-.rtable method.rtabulate added for creating tables.indented_row.names function added.These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.