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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:HIPPO.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings HIPPO_1.2.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/HIPPO.Rcheck'
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'HIPPO/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'HIPPO' version '1.2.0'
* 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 'HIPPO' can be installed ... OK
* checking installed package size ... OK
* checking package 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 ... NOTE
ensg_to_hgnc: no visible global function definition for 'data'
ensg_to_hgnc: no visible binding for global variable 'ensg_hgnc'
hippo: no visible global function definition for 'is'
hippo_feature_heatmap: no visible binding for global variable 'zvalue'
hippo_tsne_plot: no visible binding for global variable 'K'
hippo_umap_plot: no visible binding for global variable 'K'
preprocess_homogeneous: no visible global function definition for 'is'
zero_proportion_plot: no visible binding for global variable 'K'
zero_proportion_plot: no visible binding for global variable 'zvalue'
zero_proportion_plot: no visible binding for global variable
  'featurecount'
Undefined global functions or variables:
  K data ensg_hgnc featurecount is zvalue
Consider adding
  importFrom("methods", "is")
  importFrom("utils", "data")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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 data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... 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-3.12-bioc/meat/HIPPO.Rcheck/00check.log'
for details.

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/HIPPO_1.2.0.tar.gz && rm -rf HIPPO.buildbin-libdir && mkdir HIPPO.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=HIPPO.buildbin-libdir HIPPO_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL HIPPO_1.2.0.zip && rm HIPPO_1.2.0.tar.gz HIPPO_1.2.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  464k  100  464k    0     0  21.2M      0 --:--:-- --:--:-- --:--:-- 22.7M

install for i386

* installing *source* package 'HIPPO' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'HIPPO'
    finding HTML links ... done
    ensg_hgnc                               html  
    get_data_from_sce                       html  
    get_hippo                               html  
    get_hippo_diffexp                       html  
    hippo                                   html  
    hippo_diagnostic_plot                   html  
    hippo_diffexp                           html  
    hippo_dimension_reduction               html  
    hippo_feature_heatmap                   html  
    hippo_pca_plot                          html  
    hippo_tsne_plot                         html  
    hippo_umap_plot                         html  
    nb_prob_zero                            html  
    pipe                                    html  
    pois_prob_zero                          html  
    preprocess_heterogeneous                html  
    preprocess_homogeneous                  html  
    toydata                                 html  
    zero_proportion_plot                    html  
    zinb_prob_zero                          html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'HIPPO' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'HIPPO' as HIPPO_1.2.0.zip
* DONE (HIPPO)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'HIPPO' successfully unpacked and MD5 sums checked