* using log directory ‘/srv/hornik/tmp/CRAN_pretest/ClusterGVis.Rcheck’
* using R Under development (unstable) (2025-02-05 r87692)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 19.1.6 (1+b1)
    Debian flang-new version 19.1.6 (1+b1)
* running under: Debian GNU/Linux trixie/sid
* using session charset: UTF-8
* checking for file ‘ClusterGVis/DESCRIPTION’ ... OK
* this is package ‘ClusterGVis’ version ‘0.1.2’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [4s/6s] NOTE
Maintainer: ‘Jun Zhang <3219030654@stu.cpu.edu.cn>’

New submission

Possibly misspelled words in DESCRIPTION:
  ClusterGVis (7:14)

Suggests or Enhances not in mainstream repositories:
  monocle3, jjAnno

The Description field should not start with the package name,
  'This package' or similar.
* checking package namespace information ... OK
* checking package dependencies ... INFO
Packages suggested but not available for checking: 'monocle3', 'jjAnno'
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for executable files ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking serialization versions ... OK
* checking whether package ‘ClusterGVis’ can be installed ... [15s/15s] OK
* checking package directory ... OK
* checking for future file timestamps ... 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 ... [4s/4s] OK
* checking whether the package can be loaded with stated dependencies ... [4s/4s] OK
* checking whether the package can be unloaded cleanly ... [4s/4s] OK
* checking whether the namespace can be loaded with stated dependencies ... [4s/4s] OK
* checking whether the namespace can be unloaded cleanly ... [4s/4s] OK
* checking loading without being on the library search path ... [4s/4s] OK
* checking use of S3 registration ... 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 ... [20s/20s] NOTE
Warning: <anonymous>: ... may be used in an incorrect context: ‘list(cds_obj = obj, assays = "counts", ...)’

getClusters: ... may be used in an incorrect context: ‘list(cds_obj =
  obj, assays = "counts", ...)’

Warning: <anonymous>: ... may be used in an incorrect context: ‘list(cds_obj = obj, assays = "counts", ...)’

* checking Rd files ... [0s/0s] OK
* checking Rd metadata ... OK
* checking Rd line widths ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... WARNING
Documented arguments not in \usage in Rd file 'getClusters.Rd':
  ‘...’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [5s/5s] ERROR
Running examples in ‘ClusterGVis-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: clusterData
> ### Title: Cluster Data Based on Different Methods
> ### Aliases: clusterData
> 
> ### ** Examples
> 
> 
> data("exps")
> # mfuzz
> cm <- clusterData(obj = exps,
+                   cluster.method = "mfuzz",
+                   cluster.num = 8)
Error in exprs(eset) : could not find function "exprs"
Calls: clusterData -> <Anonymous> -> logical
Execution halted
* checking PDF version of manual ... [3s/3s] OK
* checking HTML version of manual ... [0s/0s] OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE
Status: 1 ERROR, 1 WARNING, 2 NOTEs