Validation Report - admiraldev@1.2.0
Context
This report is fully automated and builds on rhub/ref-image image. Documents the installation of this package on an open source R environment, focusing on:
- Installation environment description
- Testing coverage
It is limited to assess whether unit tests and documentation are present and can execute without error. An assessment would be required that the tests and documentation are meaningful.
Package admiraldev
Metric based risk assessment
The following metrics are derived from the riskmetric R package.
| has_news | 1 |
| news_current | TRUE |
| exported_namespace | 64 |
| has_vignettes | 8 |
| export_help | 64 |
| has_website | TRUE |
| has_maintainer | Ben Straub ben.x.straub@gsk.com |
| bugs_status | subscript out of bounds |
| size_codebase | 1580 |
| has_source_control | https://github.com/pharmaverse/admiraldev/ |
| has_bug_reports_url | 1 |
| downloads_1yr | 13828 |
| reverse_dependencies | 9 |
| has_examples | 1 |
| dependencies | 10 |
| license | Apache License (>= 2) |
Package general assessment: Coverage, check results, size, download the last year, reverse dependencies and number of dependencies.
Dependencies
Overall the package has these dependencies:
| package | type | |
|---|---|---|
| 1 | cli (>= 3.0.0) | Imports |
| 2 | dplyr (>= 1.0.5) | Imports |
| 3 | glue (>= 1.6.0) | Imports |
| 4 | lifecycle (>= 0.1.0) | Imports |
| 5 | lubridate (>= 1.7.4) | Imports |
| 6 | purrr (>= 0.3.3) | Imports |
| 7 | rlang (>= 0.4.4) | Imports |
| 8 | stringr (>= 1.4.0) | Imports |
| 9 | tidyr (>= 1.0.2) | Imports |
| 10 | tidyselect (>= 1.0.0) | Imports |
Package dependencies
Reverse dependencies
Overall the package has 9 reverse dependencies:
acro, admiral, admiralmetabolic, admiralonco, admiralophtha, admiralpeds, admiralvaccine, datacutr, sdtm.oak
Namespace
Overall the package has 64 exported objects. 62 are documented:
%notin% %or%
FALSE FALSE
add_suffix_to_vars anti_join
TRUE TRUE
arg_name assert_atomic_vector
TRUE TRUE
assert_character_scalar assert_character_vector
TRUE TRUE
assert_data_frame assert_date_var
TRUE TRUE
assert_date_vector assert_expr
TRUE TRUE
assert_expr_list assert_filter_cond
TRUE TRUE
assert_function assert_integer_scalar
TRUE TRUE
assert_list_element assert_list_of
TRUE TRUE
assert_logical_scalar assert_named
TRUE TRUE
assert_numeric_vector assert_one_to_one
TRUE TRUE
assert_param_does_not_exist assert_s3_class
TRUE TRUE
assert_same_type assert_symbol
TRUE TRUE
assert_unit assert_vars
TRUE TRUE
assert_varval_list backquote
TRUE TRUE
contains_vars convert_dtm_to_dtc
TRUE TRUE
dataset_vignette deprecate_inform
TRUE TRUE
dquote enumerate
TRUE TRUE
expect_dfs_equal expr_c
TRUE TRUE
extract_vars filter_if
TRUE TRUE
friendly_type_of get_constant_vars
TRUE TRUE
get_dataset get_duplicates
TRUE TRUE
get_new_tmp_var get_source_vars
TRUE TRUE
inner_join is_auto
TRUE TRUE
is_order_vars is_valid_dtc
TRUE TRUE
left_join process_set_values_to
TRUE TRUE
remove_tmp_vars replace_symbol_in_expr
TRUE TRUE
replace_values_by_names squote
TRUE TRUE
suppress_warning valid_time_units
TRUE TRUE
vars2chr warn_if_incomplete_dtc
TRUE TRUE
warn_if_inconsistent_list warn_if_invalid_dtc
TRUE TRUE
warn_if_vars_exist what_is_it
TRUE TRUE Examples
There are 62 help pages with examples, from 62 (100.00 %).
NEWS
The package has NEWS file and it is current.
License
The package uses .
Installation environment
System Info
| Field | Value |
|---|---|
| Image | rhub/ref-image |
| OS | Ubuntu 24.04.1 LTS |
| Platform | x86_64-pc-linux-gnu |
| System | x86_64, linux-gnu |
| Execution Time | 2025-02-14 06:38:20 UTC |
System information. Table about the system used to check the package.
R Session Info
Information about the R environment and capabilities:
R version 4.4.2 (2024-10-31)
Platform: x86_64-pc-linux-gnu
Running under: Ubuntu 24.04.1 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3
LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.26.so; LAPACK version 3.12.0
locale:
[1] LC_CTYPE=C.UTF-8 LC_NUMERIC=C LC_TIME=C.UTF-8
[4] LC_COLLATE=C.UTF-8 LC_MONETARY=C.UTF-8 LC_MESSAGES=C.UTF-8
[7] LC_PAPER=C.UTF-8 LC_NAME=C LC_ADDRESS=C
[10] LC_TELEPHONE=C LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C
time zone: UTC
tzcode source: system (glibc)
attached base packages:
[1] tools stats graphics grDevices utils datasets methods
[8] base
loaded via a namespace (and not attached):
[1] riskreports_0.0.0.9003 compiler_4.4.2 fastmap_1.2.0
[4] cli_3.6.4 htmltools_0.5.8.1 yaml_2.3.10
[7] rmarkdown_2.29 knitr_1.49 jsonlite_1.8.9
[10] xfun_0.50 digest_0.6.37 rlang_1.1.5
[13] evaluate_1.0.3 Platform used:
OS.type file.sep dynlib.ext GUI endian pkgType path.sep
"unix" "/" ".so" "X11" "little" "source" ":"
r_arch
"" R’s capabilities:
jpeg png tiff tcltk X11 aqua
TRUE TRUE TRUE TRUE FALSE FALSE
http/ftp sockets libxml fifo cledit iconv
TRUE TRUE FALSE TRUE FALSE TRUE
NLS Rprof profmem cairo ICU long.double
TRUE TRUE TRUE TRUE TRUE TRUE
libcurl
TRUE External software:
zlib
"1.3"
bzlib
"1.0.8, 13-Jul-2019"
xz
"5.4.5"
libdeflate
"1.19"
PCRE
"10.42 2022-12-11"
ICU
"74.2"
TRE
"TRE 0.8.0 R_fixes (BSD)"
iconv
"glibc 2.39"
readline
"8.2"
BLAS
"/usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3" Graphics external software:
cairo cairoFT pango
"1.18.0" "" "1.52.1"
libpng jpeg libtiff
"1.6.43" "8.0" "LIBTIFF, Version 4.5.1" Numerical characteristics of the machine:
double.eps double.neg.eps double.xmin
2.220446e-16 1.110223e-16 2.225074e-308
double.xmax double.base double.digits
1.797693e+308 2.000000e+00 5.300000e+01
double.rounding double.guard double.ulp.digits
5.000000e+00 0.000000e+00 -5.200000e+01
double.neg.ulp.digits double.exponent double.min.exp
-5.300000e+01 1.100000e+01 -1.022000e+03
double.max.exp integer.max sizeof.long
1.024000e+03 2.147484e+09 8.000000e+00
sizeof.longlong sizeof.longdouble sizeof.pointer
8.000000e+00 1.600000e+01 8.000000e+00
sizeof.time_t longdouble.eps longdouble.neg.eps
8.000000e+00 1.084202e-19 5.421011e-20
longdouble.digits longdouble.rounding longdouble.guard
6.400000e+01 5.000000e+00 0.000000e+00
longdouble.ulp.digits longdouble.neg.ulp.digits longdouble.exponent
-6.300000e+01 -6.400000e+01 1.500000e+01
longdouble.min.exp longdouble.max.exp
-1.638200e+04 1.638400e+04 Random number generation process:
[1] "Mersenne-Twister" "Inversion" "Rejection" Information about the environment
Environmental and options variables affect how package checks and software in it might behave. Here is the environmental variables when running this report
_R_CHECK_SYSTEM_CLOCK_
FALSE
ACCEPT_EULA Y
ACTIONS_RUNNER_ACTION_ARCHIVE_CACHE
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GITHUB_TRIGGERING_ACTOR
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MAKE make
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PERFLOG_LOCATION_SETTING
RUNNER_PERFLOG
PHARMAPKGS_EXCLUDED_METRICS
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PHARMAPKGS_REMOTE_REPO
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PKGCACHE_HTTP_VERSION 2
PKGLOAD_PARENT_TEMPDIR
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YES
PWD /home/runner/work/pharmapkgs/pharmapkgs
QUARTO_BIN_PATH /opt/quarto/bin
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QUARTO_ROOT /
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R_PLATFORM x86_64-pc-linux-gnu
R_PRINTCMD /usr/bin/lpr
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SGX_AESM_ADDR 1
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TZ UTC
USER runner
VCPKG_INSTALLATION_ROOT
/usr/local/share/vcpkg
XDG_CONFIG_HOME /home/runner/.config
XDG_RUNTIME_DIR /run/user/1001These are the options set to generate the report:
$add.smooth
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$bitmapType
[1] "cairo"
$browser
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$callr.condition_handler_cli_message
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<bytecode: 0x55c542bba910>
<environment: namespace:cli>
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"contr.treatment" "contr.poly"
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<bytecode: 0x55c543cf2ea0>
<environment: namespace:knitr>
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$rl_word_breaks
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$rlang_trace_top_env
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$scipen
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$str
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$str$list.len
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$str$drop.deparse.attr
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$str$formatNum
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<environment: 0x55c542092520>
$str.dendrogram.last
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$try.outFile
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can write "yes"
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