Validation Report - geoR@1.9.4

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 geoR

Metric based risk assessment

The following metrics are derived from the riskmetric R package.

has_news 0
exported_namespace 84
has_vignettes 2
export_help 84
has_website TRUE
has_maintainer Paulo Justiniano Ribeiro Jr
bugs_status package DESCRIPTION does not have a BugReports field
assess_size_codebase 11793
has_bug_reports_url 0
downloads_1yr 60767
reverse_dependencies 19
has_examples 0.9896907
dependencies 7
license GPL (>= 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 stats Depends
2 methods Depends
3 MASS Imports
4 sp Imports
5 splancs Imports
6 graphics Imports
7 tcltk Imports

Package dependencies

Reverse dependencies

Overall the package has 19 reverse dependencies:

aqfig, BayesDissolution, CensSpatial, EcoIndR, gamair, gear, geotoolsR, GET, gstat, insight, npsp, NTSS, pompp, PrevMap, rpanel, spANOVA, SpatFD, StatDA, variosig

Namespace

Overall the package has 84 exported objects. 84 are documented:

          .bilinearformXAY           .check.locations 
                      TRUE                       TRUE 
                 .cond.sim                .cor.number 
                      TRUE                       TRUE 
     .diagquadraticformXAX                .geoR_inout 
                      TRUE                       TRUE 
                 .geoR_pip      .geoR.check.locations 
                      TRUE                       TRUE 
                .ldots.set .prepare.graph.krige.bayes 
                      TRUE                       TRUE 
               .solve.geoR                .solve.geoR 
                      TRUE                       TRUE 
                as.geodata                 as.geodata 
                      TRUE                       TRUE 
     backtransform.moments                BCtransform 
                      TRUE                       TRUE 
             boot.variofit                  boxcoxfit 
                      TRUE                       TRUE 
              coords.aniso              coords2coords 
                      TRUE                       TRUE 
               cov.spatial                    dboxcox 
                      TRUE                       TRUE 
                 diffpairs                  dinvchisq 
                      TRUE                       TRUE 
                dup.coords                     eyefit 
                      TRUE                       TRUE 
             geoRCovModels                  globalvar 
                      TRUE                       TRUE 
                       grf           hist.krige.bayes 
                      TRUE                       TRUE 
                is.geodata                   jitter2d 
                      TRUE                       TRUE 
           jitterDupCoords                krige.bayes 
                      TRUE                       TRUE 
             krige.control              krige.control 
                      TRUE                       TRUE 
                krige.conv                  krweights 
                      TRUE                       TRUE 
                    ksline               legend.krige 
                      TRUE                       TRUE 
                    likfit              likfit.limits 
                      TRUE                       TRUE 
          likfit.nospatial                likfitBGCCM 
                      TRUE                       TRUE 
          lines.variomodel           locations.inside 
                      TRUE                       TRUE 
                 loccoords                 loglik.GRF 
                      TRUE                       TRUE 
            loglik.spatial                loglikBGCCM 
                      TRUE                       TRUE 
                    matern              model.control 
                      TRUE                       TRUE 
                   nearloc             output.control 
                      TRUE                       TRUE 
               pars.limits                    plot.1d 
                      TRUE                       TRUE 
              plot.geodata             points.geodata 
                      TRUE                       TRUE 
                  polygrid                 post2prior 
                      TRUE                       TRUE 
            practicalRange                  pred_grid 
                      TRUE                       TRUE 
             prior.control                    proflik 
                      TRUE                       TRUE 
                   rboxcox               read.geodata 
                      TRUE                       TRUE 
               rect.coords                  rinvchisq 
                      TRUE                       TRUE 
            sample.geodata           sample.posterior 
                      TRUE                       TRUE 
              sample.prior            set.coords.lims 
                      TRUE                       TRUE 
     statistics.predictive                    subarea 
                      TRUE                       TRUE 
             trend.spatial             varcov.spatial 
                      TRUE                       TRUE 
               varcovBGCCM                   variofit 
                      TRUE                       TRUE 
                    variog              variog.mc.env 
                      TRUE                       TRUE 
          variog.model.env                    variog4 
                      TRUE                       TRUE 
                    xvalid                zoom.coords 
                      TRUE                       TRUE 

Examples

There are 96 help pages with examples, from 97 (98.97 %).

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 2025-03-23 03:34:26 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

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ANDROID_NDK_LATEST_HOME
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ANT_HOME                /usr/share/ant
AZURE_EXTENSION_DIR     /opt/az/azcliextensions
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PERFLOG_LOCATION_SETTING
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PHARMAPKGS_EXCLUDED_METRICS
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RUNNER_TEMP             /home/runner/work/_temp
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RUNNER_USER             runner
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STATS_D_D               true
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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) 
{
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    }
    else {
        cli_server_default(msg)
    }
}
<bytecode: 0x558e63bf1330>
<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, ...) 
{
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}
<bytecode: 0x558e630d5170>
<environment: namespace:knitr>

$device.ask.default
[1] FALSE

$digits
[1] 7

$dvipscmd
[1] "dvips"

$echo
[1] FALSE

$editor
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$encoding
[1] "native.enc"

$example.ask
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$expressions
[1] 5000

$help.search.types
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$help.try.all.packages
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$htmltools.preserve.raw
[1] TRUE

$HTTPUserAgent
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$internet.info
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[1] TRUE

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

$keep.source
[1] FALSE

$keep.source.pkgs
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$knitr.in.progress
[1] TRUE

$locatorBell
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$mailer
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$matprod
[1] "default"

$max.contour.segments
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$max.print
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$menu.graphics
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$na.action
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$Ncpus
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$nwarnings
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$OutDec
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$pager
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$papersize
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$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: 0x558e630cc688>


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

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

$tikzMetricsDictionary
[1] "validation_report_geoR_v1.9.4-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