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### Running command:
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###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:scTreeViz.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings scTreeViz_1.13.0.tar.gz
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* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/scTreeViz.Rcheck'
* using R Under development (unstable) (2024-10-26 r87273 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'scTreeViz/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'scTreeViz' version '1.13.0'
* 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 'scTreeViz' can be installed ... OK
* checking installed package size ... OK
* 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 code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* 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
.generate_hierarchy_tree: no visible binding for global variable
  'otu_index'
.generate_leaf_of_table: no visible binding for global variable 'leaf'
.generate_leaf_of_table: no visible binding for global variable
  'otu_index'
.generate_leaf_of_table: no visible binding for global variable 'id'
.generate_node_ids : <anonymous>: no visible global function definition
  for '.'
.generate_node_ids : <anonymous>: no visible binding for global
  variable 'otu_index'
.generate_nodes_table: no visible binding for global variable 'id'
.generate_nodes_table: no visible binding for global variable 'lineage'
.generate_nodes_table: no visible binding for global variable
  'node_label'
.generate_nodes_table: no visible binding for global variable 'level'
.preprocessAndCreateTreeViz: no visible global function definition for
  'chracter'
getNodes,TreeIndex: no visible binding for global variable 'level'
getNodes,TreeIndex: no visible binding for global variable 'id'
splitAt,TreeIndex: no visible binding for global variable 'level'
splitAt,TreeIndex: no visible binding for global variable 'id'
splitAt,TreeIndex: no visible binding for global variable 'lineage'
splitAt,TreeIndex: no visible binding for global variable 'leaf'
splitAt,TreeIndex: no visible binding for global variable 'otu_index'
splitAt,TreeIndex: no visible global function definition for '.'
splitAt,TreeIndex: no visible binding for global variable 'node_label'
Undefined global functions or variables:
  . chracter id leaf level lineage node_label otu_index
* 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 files in 'vignettes' ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
TreeIndex-methods 26.54   1.17   27.81
TreeViz           11.79   0.80   12.58
TreeIndex         11.53   0.58   12.10
createFromSCE      9.41   0.12    9.60
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... 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
  'E:/biocbuild/bbs-3.21-bioc/meat/scTreeViz.Rcheck/00check.log'
for details.