| Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:06:58 -0400 (Wed, 13 Apr 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
| tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
| machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
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To the developers/maintainers of the multiHiCcompare package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/multiHiCcompare.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1244/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| multiHiCcompare 1.12.0 (landing page) John Stansfield
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK |  | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: multiHiCcompare |
| Version: 1.12.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:multiHiCcompare.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings multiHiCcompare_1.12.0.tar.gz |
| StartedAt: 2022-04-12 23:27:38 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 23:33:43 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 365.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: multiHiCcompare.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:multiHiCcompare.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings multiHiCcompare_1.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/multiHiCcompare.Rcheck' * using R version 4.1.3 (2022-03-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'multiHiCcompare/DESCRIPTION' ... OK * this is package 'multiHiCcompare' version '1.12.0' * 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 whether package 'multiHiCcompare' 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 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 .count_manhattan: no visible global function definition for 'textxy' cyclic_loess: no visible binding for global variable 'chr' cyclic_loess: no visible binding for global variable 'region1' cyclic_loess: no visible binding for global variable 'region2' exportJuicebox: no visible binding for global variable 'logCPM' exportJuicebox: no visible binding for global variable 'logFC' exportJuicebox: no visible binding for global variable 'p.adj' fastlo: no visible binding for global variable 'chr' fastlo: no visible binding for global variable 'region1' fastlo: no visible binding for global variable 'region2' hic_exactTest: no visible binding for global variable 'chr' hic_exactTest: no visible binding for global variable 'region1' hic_exactTest: no visible binding for global variable 'region2' hic_filter: no visible binding for global variable 'hg19_cyto' hic_glm: no visible binding for global variable 'chr' hic_glm: no visible binding for global variable 'region1' hic_glm: no visible binding for global variable 'region2' make_hicexp: no visible binding for global variable 'hg19_cyto' make_hicexp: no visible binding for global variable 'region2' make_hicexp: no visible binding for global variable 'region1' make_hicexp: no visible binding for global variable 'chr' perm_test: no visible binding for global variable 'chr' perm_test: no visible global function definition for 'IRanges' topDirs: no visible binding for global variable 'logCPM' topDirs: no visible binding for global variable 'logFC' topDirs: no visible binding for global variable 'p.adj' Undefined global functions or variables: IRanges chr hg19_cyto logCPM logFC p.adj region1 region2 textxy * 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 LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking files in 'vignettes' ... OK * checking examples ... ** running examples for arch 'i386' ... OK ** running examples for arch 'x64' ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'testthat.R' OK ** running tests for arch 'x64' ... Running 'testthat.R' OK * 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: 1 NOTE See 'C:/Users/biocbuild/bbs-3.14-bioc/meat/multiHiCcompare.Rcheck/00check.log' for details.
multiHiCcompare.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/multiHiCcompare_1.12.0.tar.gz && rm -rf multiHiCcompare.buildbin-libdir && mkdir multiHiCcompare.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=multiHiCcompare.buildbin-libdir multiHiCcompare_1.12.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL multiHiCcompare_1.12.0.zip && rm multiHiCcompare_1.12.0.tar.gz multiHiCcompare_1.12.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
5 2554k 5 152k 0 0 369k 0 0:00:06 --:--:-- 0:00:06 369k
45 2554k 45 1173k 0 0 828k 0 0:00:03 0:00:01 0:00:02 827k
100 2554k 100 2554k 0 0 1179k 0 0:00:02 0:00:02 --:--:-- 1179k
install for i386
* installing *source* package 'multiHiCcompare' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'multiHiCcompare'
finding HTML links ... done
HCT116_r1 html
HCT116_r2 html
HCT116_r3 html
HCT116_r4 html
HCT116_r5 html
HCT116_r6 html
Hicexp-class html
MD_composite html
MD_hicexp html
cyclic_loess html
exportJuicebox html
fastlo html
hg19_cyto html
hg38_cyto html
hic_exactTest html
hic_filter html
hic_glm html
hic_scale html
hic_table html
hicexp2 html
hicexp_diff html
make_hicexp html
manhattan_hicexp html
meta html
normalized html
perm_test html
plot_counts html
plot_pvals html
pval_heatmap html
resolution html
results html
show html
smartApply html
topDirs html
** 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
install for x64
* installing *source* package 'multiHiCcompare' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'multiHiCcompare' as multiHiCcompare_1.12.0.zip
* DONE (multiHiCcompare)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'multiHiCcompare' successfully unpacked and MD5 sums checked
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multiHiCcompare.Rcheck/tests_i386/testthat.Rout
R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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.
> library(testthat)
> library(multiHiCcompare)
>
> test_check("multiHiCcompare")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 17 ]
>
> proc.time()
user system elapsed
39.39 1.50 40.85
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multiHiCcompare.Rcheck/tests_x64/testthat.Rout
R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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.
> library(testthat)
> library(multiHiCcompare)
>
> test_check("multiHiCcompare")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 17 ]
>
> proc.time()
user system elapsed
38.15 0.53 38.68
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multiHiCcompare.Rcheck/examples_i386/multiHiCcompare-Ex.timings
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multiHiCcompare.Rcheck/examples_x64/multiHiCcompare-Ex.timings
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