##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:mslp.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings mslp_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/mslp.Rcheck’
* using R version 4.4.2 (2024-10-31)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘mslp/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘mslp’ version ‘1.8.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘mslp’ 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 ... 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 data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
            user system elapsed
est_im    20.551  0.623  17.442
merge_slp  9.272  0.286   7.563
corr_slp   7.965  0.210   7.287
comp_slp   6.524  0.348   7.078
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘tinytest.R’
 ERROR
Running the tests in ‘tests/tinytest.R’ failed.
Last 13 lines of output:
  
  test_corr_slp.R...............    0 tests    
  test_corr_slp.R...............    0 tests    
  test_corr_slp.R...............    0 tests    (II) Number of mutations: 5.
  
  test_corr_slp.R...............    0 tests    
  test_corr_slp.R...............    1 tests 1 fails 6.5s
  ----- FAILED[data]: test_corr_slp.R<5--5>
   call| expect_equal(head(res$slp_entrez), c("751071", "10395", "57864", 
   call| -->    "54629", "54898", "1778"))
   diff| 6 string mismatches
  Error: 1 out of 2 tests failed
  In addition: Warning message:
  executing %dopar% sequentially: no parallel backend registered 
  Execution halted
* 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 ERROR
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/mslp.Rcheck/00check.log’
for details.

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL mslp
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’
* installing *source* package ‘mslp’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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
* DONE (mslp)

R version 4.4.2 (2024-10-31) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> if (requireNamespace("tinytest", quietly = TRUE)) {
+   tinytest::test_package("mslp")
+ }

test_comp_slp.R...............    0 tests    
test_comp_slp.R...............    0 tests    (==) Number of mutations: 5.


test_comp_slp.R...............    0 tests    
test_comp_slp.R...............    1 tests OK 6.0s

test_corr_slp.R...............    0 tests    
test_corr_slp.R...............    0 tests    
test_corr_slp.R...............    0 tests    (II) Number of mutations: 5.

test_corr_slp.R...............    0 tests    
test_corr_slp.R...............    1 tests 1 fails 6.5s
----- FAILED[data]: test_corr_slp.R<5--5>
 call| expect_equal(head(res$slp_entrez), c("751071", "10395", "57864", 
 call| -->    "54629", "54898", "1778"))
 diff| 6 string mismatches
Error: 1 out of 2 tests failed
In addition: Warning message:
executing %dopar% sequentially: no parallel backend registered 
Execution halted