Validation Report - FuzzyM@0.1.0

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 FuzzyM

Metric based risk assessment

The following metrics are derived from the riskmetric R package.

has_news 0
exported_namespace 66
has_vignettes 0
export_help 66
has_website FALSE
has_maintainer Alina Petukhova
bugs_status package DESCRIPTION does not have a BugReports field
assess_size_codebase 1007
has_bug_reports_url 0
downloads_1yr 1952
reverse_dependencies 0
has_examples 1
dependencies 1
license MIT + file LICENSE

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 utils Imports

Package dependencies

Reverse dependencies

Overall the package has 0 reverse dependencies:

Namespace

Overall the package has 66 exported objects. 66 are documented:

                               algebraic_product_tnorm 
                                                  TRUE 
                       algebraic_product_tnorm_reverse 
                                                  TRUE 
                                   algebraic_sum_snorm 
                                                  TRUE 
                           algebraic_sum_snorm_reverse 
                                                  TRUE 
                              bounded_difference_tnorm 
                                                  TRUE 
                      bounded_difference_tnorm_reverse 
                                                  TRUE 
                                     bounded_sum_snorm 
                                                  TRUE 
                             bounded_sum_snorm_reverse 
                                                  TRUE 
                                     calc_reverse_task 
                                                  TRUE 
                                 consonanse_dissonanse 
                                                  TRUE 
                                      cross_consonanse 
                                                  TRUE 
                                      cross_dissonanse 
                                                  TRUE 
                              cross_negative_influence 
                                                  TRUE 
                              cross_positive_influence 
                                                  TRUE 
                                           direct_task 
                                                  TRUE 
                                 drastic_product_tnorm 
                                                  TRUE 
                         drastic_product_tnorm_reverse 
                                                  TRUE 
                                     drastic_sum_snorm 
                                                  TRUE 
                             drastic_sum_snorm_reverse 
                                                  TRUE 
                    dubois_intersection_operator_tnorm 
                                                  TRUE 
            dubois_intersection_operator_tnorm_reverse 
                                                  TRUE 
                                          eigen_module 
                                                  TRUE 
                                einstein_product_tnorm 
                                                  TRUE 
                        einstein_product_tnorm_reverse 
                                                  TRUE 
                                    einstein_sum_snorm 
                                                  TRUE 
                            einstein_sum_snorm_reverse 
                                                  TRUE 
                                             get_snorm 
                                                  TRUE 
                                     get_snorm_reverse 
                                                  TRUE 
                                             get_tnorm 
                                                  TRUE 
                                     get_tnorm_reverse 
                                                  TRUE 
                  hamacher_intersection_operator_tnorm 
                                                  TRUE 
          hamacher_intersection_operator_tnorm_reverse 
                                                  TRUE 
                                hamacher_product_tnorm 
                                                  TRUE 
                        hamacher_product_tnorm_reverse 
                                                  TRUE 
                                    hamacher_sum_snorm 
                                                  TRUE 
                            hamacher_sum_snorm_reverse 
                                                  TRUE 
                         hamacher_union_operator_snorm 
                                                  TRUE 
                 hamacher_union_operator_snorm_reverse 
                                                  TRUE 
                                        ik_neg_maximum 
                                                  TRUE 
                                        ik_pos_maximum 
                                                  TRUE 
                                         impuls_vector 
                                                  TRUE 
                                matrix_transitive_join 
                                                  TRUE 
                                             max_snorm 
                                                  TRUE 
                                     max_snorm_reverse 
                                                  TRUE 
                                        maximum_matrix 
                                                  TRUE 
                                             min_tnorm 
                                                  TRUE 
                                     min_tnorm_reverse 
                                                  TRUE 
                                       multiply_matrix 
                                                  TRUE 
                                  multiply_matrix_prob 
                                                  TRUE 
                                       multiply_vector 
                                                  TRUE 
        parameterized_mean_intersection_operator_tnorm 
                                                  TRUE 
parameterized_mean_intersection_operator_tnorm_reverse 
                                                  TRUE 
                                  positive_matrix_calc 
                                                  TRUE 
                         probability_matrix_transitive 
                                                  TRUE 
                                          reverse_task 
                                                  TRUE 
                                       snorm_functions 
                                                  TRUE 
                               snorm_functions_reverse 
                                                  TRUE 
                                       tnorm_functions 
                                                  TRUE 
                               tnorm_functions_reverse 
                                                  TRUE 
                                    transitive_closure 
                                                  TRUE 
                               transitive_closure_prob 
                                                  TRUE 
                           transitive_closure_prob_max 
                                                  TRUE 
                     yager_intersection_operator_tnorm 
                                                  TRUE 
             yager_intersection_operator_tnorm_reverse 
                                                  TRUE 
                            yager_union_operator_snorm 
                                                  TRUE 
                    yager_union_operator_snorm_reverse 
                                                  TRUE 

Examples

There are 7 help pages with examples, from 7 (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 24.04.2 LTS
Platform x86_64-pc-linux-gnu
System x86_64, linux-gnu
Execution Time 2025-03-18 03:31:07 UTC

System information. Table about the system used to check the package.

R Session Info

Information about the R environment and capabilities:

R version 4.4.3 (2025-02-28)
Platform: x86_64-pc-linux-gnu
Running under: Ubuntu 24.04.2 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_4.4.3         fastmap_1.2.0         
 [4] cli_3.6.4              htmltools_0.5.8.1      yaml_2.3.10           
 [7] rmarkdown_2.29         knitr_1.50             jsonlite_1.9.1        
[10] xfun_0.51              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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AGENT_TOOLSDIRECTORY    /opt/hostedtoolcache
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ANDROID_NDK             /usr/local/lib/android/sdk/ndk/27.2.12479018
ANDROID_NDK_HOME        /usr/local/lib/android/sdk/ndk/27.2.12479018
ANDROID_NDK_LATEST_HOME
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ANDROID_NDK_ROOT        /usr/local/lib/android/sdk/ndk/27.2.12479018
ANDROID_SDK_ROOT        /usr/local/lib/android/sdk
ANT_HOME                /usr/share/ant
AZURE_EXTENSION_DIR     /opt/az/azcliextensions
BOOTSTRAP_HASKELL_NONINTERACTIVE
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BUNDLE_EXT              linux-amd64.deb
CHROME_BIN              /usr/bin/google-chrome
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CI                      true
CONDA                   /usr/share/miniconda
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DENO_NO_UPDATE_CHECK    1
DENO_TLS_CA_STORE       system,mozilla
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DOTNET_MULTILEVEL_LOOKUP
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DOTNET_SKIP_FIRST_TIME_EXPERIENCE
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GHCUP_INSTALL_BASE_PREFIX
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GITHUB_REPOSITORY_OWNER
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GITHUB_REPOSITORY_OWNER_ID
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GITHUB_RUN_NUMBER       138
GITHUB_SERVER_URL       https://github.com
GITHUB_SHA              a4fa9dabd8067f21222afe7a16574b59759ba8d7
GITHUB_STATE            /home/runner/work/_temp/_runner_file_commands/save_state_d7877479-a8d2-49f3-8ad7-2c0b6be4736a
GITHUB_STEP_SUMMARY     /home/runner/work/_temp/_runner_file_commands/step_summary_d7877479-a8d2-49f3-8ad7-2c0b6be4736a
GITHUB_TRIGGERING_ACTOR
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GITHUB_WORKFLOW         Update package repositories
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GITHUB_WORKFLOW_SHA     a4fa9dabd8067f21222afe7a16574b59759ba8d7
GITHUB_WORKSPACE        /home/runner/work/pharmapkgs/pharmapkgs
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GOROOT_1_23_X64         /opt/hostedtoolcache/go/1.23.7/x64
GRADLE_HOME             /usr/share/gradle-8.13
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HOMEBREW_CLEANUP_PERIODIC_FULL_DAYS
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HOMEBREW_NO_AUTO_UPDATE
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INVOCATION_ID           64ecafe1ae1944f9ae9ac6719fe25102
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JAVA_HOME_8_X64         /usr/lib/jvm/temurin-8-jdk-amd64
JOURNAL_STREAM          8:7612
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LD_LIBRARY_PATH         /opt/R/4.4.3/lib/R/lib:/usr/local/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/temurin-17-jdk-amd64/lib/server:/opt/R/4.4.3/lib/R/lib:/usr/local/lib:/usr/lib/x86_64-linux-gnu:/usr/lib/jvm/temurin-17-jdk-amd64/lib/server
LN_S                    ln -s
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MAKE                    make
MEMORY_PRESSURE_WATCH   /sys/fs/cgroup/system.slice/runner-provisioner.service/memory.pressure
MEMORY_PRESSURE_WRITE   c29tZSAyMDAwMDAgMjAwMDAwMAA=
NOT_CRAN                true
NVM_DIR                 /home/runner/.nvm
PAGER                   /usr/bin/pager
PATH                    /snap/bin:/home/runner/.local/bin:/opt/pipx_bin:/home/runner/.cargo/bin:/home/runner/.config/composer/vendor/bin:/usr/local/.ghcup/bin:/home/runner/.dotnet/tools:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin
PERFLOG_LOCATION_SETTING
                        RUNNER_PERFLOG
PHARMAPKGS_EXCLUDED_METRICS
                        assess_covr_coverage,assess_r_cmd_check
PHARMAPKGS_LIMIT        100
PHARMAPKGS_PLATFORM     ubuntu-22.04
PHARMAPKGS_R_VERSION    4.4
PHARMAPKGS_REMOTE_REPO
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PIPX_BIN_DIR            /opt/pipx_bin
PIPX_HOME               /opt/pipx
PKGCACHE_HTTP_VERSION   2
PKGLOAD_PARENT_TEMPDIR
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POWERSHELL_DISTRIBUTION_CHANNEL
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PROCESSX_PS1d1f35f6eed0_1742268663
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PWD                     /home/runner/work/pharmapkgs/pharmapkgs
QUARTO_BIN_PATH         /opt/quarto/bin
QUARTO_DENO             /opt/quarto/bin/tools/x86_64/deno
QUARTO_DOCUMENT_PATH    /home/runner/work/pharmapkgs/pharmapkgs/inst/report
QUARTO_PROFILE          
QUARTO_PROJECT_DIR      /home/runner/work/pharmapkgs/pharmapkgs
QUARTO_PROJECT_ROOT     /home/runner/work/pharmapkgs/pharmapkgs
QUARTO_ROOT             /
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R_BROWSER               xdg-open
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R_DOC_DIR               /opt/R/4.4.3/lib/R/doc
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R_PAPERSIZE             letter
R_PAPERSIZE_USER        letter
R_PDFVIEWER             /usr/bin/xdg-open
R_PLATFORM              x86_64-pc-linux-gnu
R_PRINTCMD              /usr/bin/lpr
R_RD4PDF                times,inconsolata,hyper
R_SESSION_TMPDIR        /tmp/RtmpAOiXDl
R_SHARE_DIR             /opt/R/4.4.3/lib/R/share
R_STRIP_SHARED_LIB      strip --strip-unneeded
R_STRIP_STATIC_LIB      strip --strip-debug
R_TEXI2DVICMD           /usr/bin/texi2dvi
R_UNZIPCMD              /usr/bin/unzip
R_ZIPCMD                /usr/bin/zip
RUNNER_ARCH             X64
RUNNER_ENVIRONMENT      github-hosted
RUNNER_NAME             GitHub-Actions-1000000516
RUNNER_OS               Linux
RUNNER_PERFLOG          /home/runner/perflog
RUNNER_TEMP             /home/runner/work/_temp
RUNNER_TOOL_CACHE       /opt/hostedtoolcache
RUNNER_TRACKING_ID      github_6d1022b6-ea5e-43b7-8191-15007258cbd9
RUNNER_USER             runner
RUNNER_WORKSPACE        /home/runner/work/pharmapkgs
SED                     /usr/bin/sed
SELENIUM_JAR_PATH       /usr/share/java/selenium-server.jar
SGX_AESM_ADDR           1
SHLVL                   1
STATS_D                 true
STATS_D_D               true
STATS_D_TC              true
STATS_EXT               true
STATS_EXTP              https://provjobdprod.z13.web.core.windows.net/settings/provjobdsettings-latest/provjobd.data
STATS_PIP               false
STATS_RDCL              true
STATS_TRP               true
STATS_UE                true
STATS_V3PS              true
STATS_VMD               true
STATS_VMFE              true
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TAR                     /usr/bin/tar
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VCPKG_INSTALLATION_ROOT
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XDG_CONFIG_HOME         /home/runner/.config
XDG_RUNTIME_DIR         /run/user/1001

These are the options set to generate the report:

$add.smooth
[1] TRUE

$bitmapType
[1] "cairo"

$browser
[1] "xdg-open"

$browserNLdisabled
[1] FALSE

$callr.condition_handler_cli_message
function (msg) 
{
    custom_handler <- getOption("cli.default_handler")
    if (is.function(custom_handler)) {
        custom_handler(msg)
    }
    else {
        cli_server_default(msg)
    }
}
<bytecode: 0x5644112d4330>
<environment: namespace:cli>

$catch.script.errors
[1] FALSE

$CBoundsCheck
[1] FALSE

$check.bounds
[1] FALSE

$citation.bibtex.max
[1] 1

$continue
[1] "+ "

$contrasts
        unordered           ordered 
"contr.treatment"      "contr.poly" 

$covr.record_tests
[1] TRUE

$defaultPackages
[1] "datasets"  "utils"     "grDevices" "graphics"  "stats"     "methods"  

$demo.ask
[1] "default"

$deparse.cutoff
[1] 60

$device
function (width = 7, height = 7, ...) 
{
    grDevices::pdf(NULL, width, height, ...)
}
<bytecode: 0x5644108dd088>
<environment: namespace:knitr>

$device.ask.default
[1] FALSE

$digits
[1] 7

$dvipscmd
[1] "dvips"

$echo
[1] FALSE

$editor
[1] "vi"

$encoding
[1] "native.enc"

$example.ask
[1] "default"

$expressions
[1] 5000

$help.search.types
[1] "vignette" "demo"     "help"    

$help.try.all.packages
[1] FALSE

$htmltools.preserve.raw
[1] TRUE

$HTTPUserAgent
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$internet.info
[1] 2

$keep.parse.data
[1] TRUE

$keep.parse.data.pkgs
[1] FALSE

$keep.source
[1] FALSE

$keep.source.pkgs
[1] FALSE

$knitr.in.progress
[1] TRUE

$locatorBell
[1] TRUE

$mailer
[1] "mailto"

$matprod
[1] "default"

$max.contour.segments
[1] 25000

$max.print
[1] 99999

$menu.graphics
[1] TRUE

$na.action
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$Ncpus
[1] 1

$nwarnings
[1] 50

$OutDec
[1] "."

$pager
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$papersize
[1] "letter"

$PCRE_limit_recursion
[1] NA

$PCRE_study
[1] FALSE

$PCRE_use_JIT
[1] TRUE

$pdfviewer
[1] "/usr/bin/xdg-open"

$pkgType
[1] "source"

$printcmd
[1] "/usr/bin/lpr"

$prompt
[1] "> "

$repos
                      CRAN 
"https://cran.rstudio.com" 

$rl_word_breaks
[1] " \t\n\"\\'`><=%;,|&{()}"

$rlang_trace_top_env
<environment: R_GlobalEnv>

$scipen
[1] 0

$show.coef.Pvalues
[1] TRUE

$show.error.messages
[1] TRUE

$show.signif.stars
[1] TRUE

$showErrorCalls
[1] TRUE

$showNCalls
[1] 50

$showWarnCalls
[1] FALSE

$str
$str$strict.width
[1] "no"

$str$digits.d
[1] 3

$str$vec.len
[1] 4

$str$list.len
[1] 99

$str$deparse.lines
NULL

$str$drop.deparse.attr
[1] TRUE

$str$formatNum
function (x, ...) 
format(x, trim = TRUE, drop0trailing = TRUE, ...)
<environment: 0x5644107af688>


$str.dendrogram.last
[1] "`"

$texi2dvi
[1] "/usr/bin/texi2dvi"

$tikzMetricsDictionary
[1] "validation_report_FuzzyM_v0.1.0-tikzDictionary"

$timeout
[1] 60

$try.outFile
A connection with                    
description ""      
class       "file"  
mode        "w+b"   
text        "binary"
opened      "opened"
can read    "yes"   
can write   "yes"   

$ts.eps
[1] 1e-05

$ts.S.compat
[1] FALSE

$unzip
[1] "/usr/bin/unzip"

$useFancyQuotes
[1] FALSE

$verbose
[1] FALSE

$warn
[1] 0

$warning.length
[1] 1000

$warnPartialMatchArgs
[1] FALSE

$warnPartialMatchAttr
[1] FALSE

$warnPartialMatchDollar
[1] FALSE

$width
[1] 80