| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:06:00 -0400 (Fri, 15 Oct 2021).
|
To the developers/maintainers of the CexoR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CexoR.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 275/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Pedro Madrigal
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | ERROR | |||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | ERROR | OK | |||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | ERROR | OK | |||||||||
| Package: CexoR |
| Version: 1.30.1 |
| Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CexoR.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings CexoR_1.30.1.tar.gz |
| StartedAt: 2021-10-14 20:53:48 -0400 (Thu, 14 Oct 2021) |
| EndedAt: 2021-10-14 20:59:30 -0400 (Thu, 14 Oct 2021) |
| EllapsedTime: 341.5 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: CexoR.Rcheck |
| Warnings: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:CexoR.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings CexoR_1.30.1.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/CexoR.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'CexoR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'CexoR' version '1.30.1'
* 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 'CexoR' can be installed ... WARNING
Found the following significant warnings:
Warning: Package 'CexoR' is deprecated and will be removed from Bioconductor
See 'C:/Users/biocbuild/bbs-3.13-bioc/meat/CexoR.Rcheck/00install.out' for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
License components with restrictions not permitted:
GPL-2 + file LICENSE
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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
cexor: no visible global function definition for 'subsetByOverlaps'
Undefined global functions or variables:
subsetByOverlaps
* 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 ...
** running examples for arch 'i386' ... ERROR
Running examples in 'CexoR-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: CexoR-package
> ### Title: An R package to uncover high-resolution protein-DNA interactions
> ### in ChIP-exo replicates
> ### Aliases: CexoR-package CexoR
>
> ### ** Examples
>
>
> ## hg19. chr2:1-1,000,000. CTCF data from Rhee and Pugh (2011)
>
> owd <- setwd(tempdir())
>
> rep1 <- "CTCF_rep1_chr2_1-1e6.bam"
> rep2 <- "CTCF_rep2_chr2_1-1e6.bam"
> rep3 <- "CTCF_rep3_chr2_1-1e6.bam"
> r1 <- system.file("extdata", rep1, package="CexoR",mustWork = TRUE)
> r2 <- system.file("extdata", rep2, package="CexoR",mustWork = TRUE)
> r3 <- system.file("extdata", rep3, package="CexoR",mustWork = TRUE)
>
> chipexo <- cexor(bam=c(r1,r2,r3), chrN="chr2", chrL=1e6, idr=0.01, p=1e-18, N=3e4)
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Error in names(x) <- value :
'names' attribute [8] must be the same length as the vector [0]
Calls: cexor -> colnames<- -> colnames<-
Execution halted
** running examples for arch 'x64' ... ERROR
Running examples in 'CexoR-Ex.R' failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: CexoR-package
> ### Title: An R package to uncover high-resolution protein-DNA interactions
> ### in ChIP-exo replicates
> ### Aliases: CexoR-package CexoR
>
> ### ** Examples
>
>
> ## hg19. chr2:1-1,000,000. CTCF data from Rhee and Pugh (2011)
>
> owd <- setwd(tempdir())
>
> rep1 <- "CTCF_rep1_chr2_1-1e6.bam"
> rep2 <- "CTCF_rep2_chr2_1-1e6.bam"
> rep3 <- "CTCF_rep3_chr2_1-1e6.bam"
> r1 <- system.file("extdata", rep1, package="CexoR",mustWork = TRUE)
> r2 <- system.file("extdata", rep2, package="CexoR",mustWork = TRUE)
> r3 <- system.file("extdata", rep3, package="CexoR",mustWork = TRUE)
>
> chipexo <- cexor(bam=c(r1,r2,r3), chrN="chr2", chrL=1e6, idr=0.01, p=1e-18, N=3e4)
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iPlus], lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Warning in pskellam(q = k[iMinus] - 1, lambda1 = lambda1[w], lambda2 = lambda2[w], :
NaNs produced
Error in names(x) <- value :
'names' attribute [8] must be the same length as the vector [0]
Calls: cexor -> colnames<- -> colnames<-
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'runTests.R'
ERROR
Running the tests in 'tests/runTests.R' failed.
Last 13 lines of output:
1 Test Suite :
CexoR RUnit Tests - 1 test function, 1 error, 0 failures
ERROR in test_cexor: Error in names(x) <- value :
'names' attribute [8] must be the same length as the vector [0]
Test files with failing tests
test_cexor.R
test_cexor
Error in BiocGenerics:::testPackage("CexoR") :
unit tests failed for package CexoR
Execution halted
** running tests for arch 'x64' ...
Running 'runTests.R'
ERROR
Running the tests in 'tests/runTests.R' failed.
Last 13 lines of output:
1 Test Suite :
CexoR RUnit Tests - 1 test function, 1 error, 0 failures
ERROR in test_cexor: Error in names(x) <- value :
'names' attribute [8] must be the same length as the vector [0]
Test files with failing tests
test_cexor.R
test_cexor
Error in BiocGenerics:::testPackage("CexoR") :
unit tests failed for package CexoR
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 4 ERRORs, 1 WARNING, 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.13-bioc/meat/CexoR.Rcheck/00check.log'
for details.
CexoR.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/CexoR_1.30.1.tar.gz && rm -rf CexoR.buildbin-libdir && mkdir CexoR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=CexoR.buildbin-libdir CexoR_1.30.1.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL CexoR_1.30.1.zip && rm CexoR_1.30.1.tar.gz CexoR_1.30.1.zip
###
##############################################################################
##############################################################################
% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
100 1521k 100 1521k 0 0 2688k 0 --:--:-- --:--:-- --:--:-- 2693k
install for i386
* installing *source* package 'CexoR' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'genomation'
** help
*** installing help indices
converting help for package 'CexoR'
finding HTML links ... done
CexoR-internal html
CexoR-package html
cexor html
REDIRECT:topic Previous alias or file overwritten by alias: C:/Users/biocbuild/bbs-3.13-bioc/meat/CexoR.buildbin-libdir/00LOCK-CexoR/00new/CexoR/help/cexor.html
plotcexor html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'genomation'
Warning: Package 'CexoR' is deprecated and will be removed from Bioconductor
version 3.14
** testing if installed package can be loaded from final location
Warning: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'genomation'
Warning: Package 'CexoR' is deprecated and will be removed from Bioconductor
version 3.14
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'CexoR' ...
** testing if installed package can be loaded
Warning: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'genomation'
Warning: Package 'CexoR' is deprecated and will be removed from Bioconductor
version 3.14
* MD5 sums
packaged installation of 'CexoR' as CexoR_1.30.1.zip
* DONE (CexoR)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'CexoR' successfully unpacked and MD5 sums checked
|
CexoR.Rcheck/tests_i386/runTests.Rout.fail
R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)
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.
> require("CexoR") || stop("unable to load CexoR")
Loading required package: CexoR
Loading required package: S4Vectors
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which.max, which.min
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
I, expand.grid, unname
Loading required package: IRanges
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
[1] TRUE
Warning messages:
1: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'genomation'
2: Package 'CexoR' is deprecated and will be removed from Bioconductor
version 3.14
> BiocGenerics:::testPackage("CexoR")
Timing stopped at: 1.63 0.08 1.71
Error in names(x) <- value :
'names' attribute [8] must be the same length as the vector [0]
In addition: There were 50 or more warnings (use warnings() to see the first 50)
RUNIT TEST PROTOCOL -- Thu Oct 14 20:58:56 2021
***********************************************
Number of test functions: 1
Number of errors: 1
Number of failures: 0
1 Test Suite :
CexoR RUnit Tests - 1 test function, 1 error, 0 failures
ERROR in test_cexor: Error in names(x) <- value :
'names' attribute [8] must be the same length as the vector [0]
Test files with failing tests
test_cexor.R
test_cexor
Error in BiocGenerics:::testPackage("CexoR") :
unit tests failed for package CexoR
Execution halted
|
CexoR.Rcheck/tests_x64/runTests.Rout.fail
R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)
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.
> require("CexoR") || stop("unable to load CexoR")
Loading required package: CexoR
Loading required package: S4Vectors
Loading required package: stats4
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, sd, var, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table,
tapply, union, unique, unsplit, which.max, which.min
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
I, expand.grid, unname
Loading required package: IRanges
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
[1] TRUE
Warning messages:
1: replacing previous import 'Biostrings::pattern' by 'grid::pattern' when loading 'genomation'
2: Package 'CexoR' is deprecated and will be removed from Bioconductor
version 3.14
> BiocGenerics:::testPackage("CexoR")
Timing stopped at: 1.83 0.08 1.91
Error in names(x) <- value :
'names' attribute [8] must be the same length as the vector [0]
In addition: There were 50 or more warnings (use warnings() to see the first 50)
RUNIT TEST PROTOCOL -- Thu Oct 14 20:59:09 2021
***********************************************
Number of test functions: 1
Number of errors: 1
Number of failures: 0
1 Test Suite :
CexoR RUnit Tests - 1 test function, 1 error, 0 failures
ERROR in test_cexor: Error in names(x) <- value :
'names' attribute [8] must be the same length as the vector [0]
Test files with failing tests
test_cexor.R
test_cexor
Error in BiocGenerics:::testPackage("CexoR") :
unit tests failed for package CexoR
Execution halted
|
|
CexoR.Rcheck/examples_i386/CexoR-Ex.timings
|
CexoR.Rcheck/examples_x64/CexoR-Ex.timings
|