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### Running command:
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###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:hipathia.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings hipathia_2.8.0.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/hipathia.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'hipathia/DESCRIPTION' ... OK
* this is package 'hipathia' version '2.8.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'hipathia' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  9.9Mb
  sub-directories of 1Mb or more:
    data      4.9Mb
    extdata   4.3Mb
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* loading checks for arch 'x64'
** checking whether the package can be loaded ... OK
** checking whether the package can be loaded with stated dependencies ... OK
** checking whether the package can be unloaded cleanly ... OK
** checking whether the namespace can be loaded with stated dependencies ... OK
** checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                          user system elapsed
quantify_terms           42.81   2.07   47.97
get_pathways_annotations 32.43   1.01   35.00
create_report            27.44   2.63   34.00
get_node_names           24.01   1.40   25.99
hipathia                 23.06   0.86   24.59
load_pathways            23.37   0.34   25.83
get_pathways_summary     22.82   0.53   24.10
get_path_names           21.94   0.75   23.38
get_pathways_list        21.79   0.44   22.75
node_color               20.14   0.55   21.34
visualize_report         19.42   0.48   20.56
node_color_per_de        19.19   0.48   20.31
save_results             19.08   0.41   26.42
normalize_paths          18.87   0.48   20.01
pathway_comparison_plot  18.91   0.36   19.93
normalize_data           15.30   0.46   18.71
translate_data           12.81   1.35   14.89
get_go_names              8.47   0.60    9.97
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                          user system elapsed
quantify_terms           43.73   1.77   48.00
get_pathways_annotations 27.76   0.87   29.94
create_report            23.83   0.81   25.81
hipathia                 21.73   0.54   22.97
load_pathways            20.53   0.53   21.78
get_pathways_list        20.33   0.56   21.42
save_results             20.28   0.56   26.54
get_path_names           20.18   0.54   21.39
normalize_paths          20.18   0.50   21.37
pathway_comparison_plot  20.14   0.37   21.12
get_pathways_summary     19.89   0.52   21.08
get_node_names           19.72   0.52   20.73
node_color               19.14   0.57   20.37
visualize_report         18.39   0.40   19.69
node_color_per_de        18.11   0.40   19.19
normalize_data           14.06   0.52   15.38
translate_data           12.86   0.44   13.97
get_go_names              7.99   0.65    9.36
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.13-bioc/meat/hipathia.Rcheck/00check.log'
for details.