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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:PolySTest.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings PolySTest_1.0.2.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/PolySTest.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: x86_64-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 Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘PolySTest/DESCRIPTION’ ... OK
* this is package ‘PolySTest’ version ‘1.0.2’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib:
  cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES'
 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 ‘PolySTest’ 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 ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... WARNING
Invalid citation information in ‘inst/CITATION’:
  Error in parse(con): 11:41: unexpected ','
  10:          year="2020",
  11:          doi="10.1074/mcp.RA119.001777"),
                                              ^
* 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
perm_unpaired: no visible binding for global variable ‘NumTests’
permtest_paired: no visible binding for global variable ‘NumTests’
Undefined global functions or variables:
  NumTests
* 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
PolySTest_unpaired 0.295  0.045  18.666
perm_unpaired      0.017  0.009   9.420
FindFCandQlim      0.010  0.006   6.972
rp_unpaired        0.007  0.006   7.210
permtest_paired    0.007  0.005   7.185
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
  ══ Failed tests ════════════════════════════════════════════════════════════════
  ── Failure ('test-general.R:50:3'): overall test of full workflow ──────────────
  sum(DRFs) (`actual`) not equal to 21 (`expected`).
  
    `actual`: 23.0
  `expected`: 21.0
  ── Failure ('test-general.R:56:3'): overall test of full workflow ──────────────
  sum(DRFs) (`actual`) not equal to 21 (`expected`).
  
    `actual`: 23.0
  `expected`: 21.0
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 62 ]
  Error: Test failures
  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, 1 WARNING, 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.20-bioc/meat/PolySTest.Rcheck/00check.log’
for details.