* using log directory ‘/srv/hornik/tmp/CRAN_pretest/tcc.Rcheck’
* using R Under development (unstable) (2026-03-07 r89568)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    Debian clang version 21.1.8 (3+b1)
    Debian flang version 21.1.8 (3+b1)
* running under: Debian GNU/Linux forky/sid
* using session charset: UTF-8
* current time: 2026-03-08 03:00:05 UTC
* checking for file ‘tcc/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘tcc’ version ‘1.0’
* package encoding: UTF-8
* checking CRAN incoming feasibility ... [2s/3s] ERROR
Maintainer: ‘Chun-Xiao Nie <niechunxiao2009@163.com>’

New submission

Conflicting package names (submitted: tcc, existing: TCC [file:///data/Repositories/Bioconductor/3.22/bioc/src/contrib])

Conflicting package names (submitted: tcc, existing: TCC [CRAN archive])

The Description field should not start with the package name,
  'This package' or similar.
The Description field contains
  Similarity (DOI: 10.1142/S0218127420502259).
Please write DOIs as <doi:prefix/suffix>.
* 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 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 ‘tcc’ can be installed ... [1s/1s] 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 ... [0s/0s] OK
* checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the package can be unloaded cleanly ... [0s/0s] OK
* checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
* checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
* checking loading without being on the library search path ... [0s/0s] 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 ... [2s/2s] NOTE
paralleltopcortest: no visible global function definition for ‘sd’
paralleltopcortest: no visible global function definition for ‘pnorm’
sliding_window_tcc_test: no visible global function definition for
  ‘dist’
sliding_window_tcc_test : <anonymous>: no visible global function
  definition for ‘sd’
tcc_local_shuffle: no visible global function definition for ‘dist’
topcortest: no visible global function definition for ‘sd’
topcortest: no visible global function definition for ‘pnorm’
Undefined global functions or variables:
  dist pnorm sd
Consider adding
  importFrom("stats", "dist", "pnorm", "sd")
to your NAMESPACE file.
* checking Rd files ... [0s/0s] OK
* checking Rd metadata ... OK
* checking Rd line widths ... NOTE
Rd file 'paralleltopcortest.Rd':
  \examples lines wider than 100 characters:
     result <- paralleltopcortest(as.matrix(dist(r[,1])), as.matrix(dist(r[,2])), c(1,519,3),100, ncores = 2)
     result_repro <- paralleltopcortest(as.matrix(dist(r[,1])), as.matrix(dist(r[,2])), c(1,519,3), 100,ncores = 2, seed = 123)

Rd file 'sliding_window_tcc_test.Rd':
  \examples lines wider than 100 characters:
     result <- sliding_window_tcc_test(s1, s2, l1 = 50, l2 = 10,k = c(1, 99, 2), nrand = 100, ncores = 2, seed = 123)

Rd file 'tcc_local_shuffle_dist_parallel.Rd':
  \examples lines wider than 100 characters:
     tcc_dist <- tcc_local_shuffle_dist_parallel(s1, s2, w = c(30, 70), k = c(1, 99, 2), nrand = 100, ncores = 4)

These lines will be truncated in the PDF manual.
* checking Rd cross-references ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘indextest’
Undocumented data sets:
  ‘indextest’
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* 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 ... [0s/0s] OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... [111s/221s] NOTE
Examples with CPU (user + system) or elapsed time > 5s
                      user system elapsed
topcortest         106.825  0.099 106.984
paralleltopcortest   2.213  0.035 111.871
* 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, 3 NOTEs