Ines de Santiago
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/BaalChIP |
| git_branch: RELEASE_3_14 |
| git_last_commit: cd0f8f3 |
| git_last_commit_date: 2021-10-26 12:30:00 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:06:11 -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 | ||||
|
To the developers/maintainers of the BaalChIP package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BaalChIP.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 103/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| BaalChIP 1.20.0 (landing page) Ines de Santiago
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | WARNINGS | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK | | ||||||||
| Package: BaalChIP |
| Version: 1.20.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:BaalChIP.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings BaalChIP_1.20.0.tar.gz |
| StartedAt: 2022-04-12 15:48:12 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 16:06:46 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 1114.0 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: BaalChIP.Rcheck |
| Warnings: 1 |
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###
### Running command:
###
### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:BaalChIP.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings BaalChIP_1.20.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/BaalChIP.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 'BaalChIP/DESCRIPTION' ... OK
* this is package 'BaalChIP' version '1.20.0'
* 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 'BaalChIP' can be installed ... OK
* checking installed package size ... NOTE
installed size is 198.3Mb
sub-directories of 1Mb or more:
data 95.8Mb
test 101.9Mb
* 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 ... 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 LazyData ... WARNING
LazyData DB of 95.7 MB without LazyDataCompression set
See ยง1.1.6 of 'Writing R Extensions'
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
BaalChIP.run 17.70 2.19 195.51
QCfilter 11.68 1.37 13.05
filter1allele 10.83 1.45 12.28
mergePerGroup 10.92 1.32 12.23
filterIntbias 6.75 0.16 8.86
getASB 6.00 0.65 154.41
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
BaalChIP.run 17.34 1.80 157.25
mergePerGroup 12.23 1.23 13.47
QCfilter 10.56 1.56 12.13
filter1allele 9.77 1.42 11.19
getASB 6.30 0.45 154.17
filterIntbias 6.37 0.08 6.45
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'runTests.R'
OK
** running tests for arch 'x64' ...
Running 'runTests.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 WARNING, 1 NOTE
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/BaalChIP.Rcheck/00check.log'
for details.
BaalChIP.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/BaalChIP_1.20.0.tar.gz && rm -rf BaalChIP.buildbin-libdir && mkdir BaalChIP.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=BaalChIP.buildbin-libdir BaalChIP_1.20.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL BaalChIP_1.20.0.zip && rm BaalChIP_1.20.0.tar.gz BaalChIP_1.20.0.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
0 44.3M 0 357k 0 0 504k 0 0:01:29 --:--:-- 0:01:29 505k
3 44.3M 3 1606k 0 0 957k 0 0:00:47 0:00:01 0:00:46 957k
8 44.3M 8 3813k 0 0 1422k 0 0:00:31 0:00:02 0:00:29 1423k
15 44.3M 15 6943k 0 0 1887k 0 0:00:24 0:00:03 0:00:21 1887k
21 44.3M 21 9900k 0 0 2115k 0 0:00:21 0:00:04 0:00:17 2115k
28 44.3M 28 12.4M 0 0 2249k 0 0:00:20 0:00:05 0:00:15 2497k
36 44.3M 36 16.2M 0 0 2478k 0 0:00:18 0:00:06 0:00:12 2986k
45 44.3M 45 20.2M 0 0 2699k 0 0:00:16 0:00:07 0:00:09 3384k
51 44.3M 51 22.9M 0 0 2709k 0 0:00:16 0:00:08 0:00:08 3314k
60 44.3M 60 26.8M 0 0 2841k 0 0:00:15 0:00:09 0:00:06 3521k
71 44.3M 71 31.6M 0 0 3032k 0 0:00:14 0:00:10 0:00:04 3921k
84 44.3M 84 37.3M 0 0 3272k 0 0:00:13 0:00:11 0:00:02 4341k
98 44.3M 98 43.6M 0 0 3527k 0 0:00:12 0:00:12 --:--:-- 4796k
100 44.3M 100 44.3M 0 0 3557k 0 0:00:12 0:00:12 --:--:-- 5358k
install for i386
* installing *source* package 'BaalChIP' ...
** 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 'BaalChIP'
finding HTML links ... done
BaalChIP html
BaalChIP.get html
BaalChIP.report html
BaalChIP.run html
BaalObject html
ENCODEexample html
FAIREexample html
QCfilter html
UniqueMappability50bp_hg19 html
adjustmentBaalPlot html
alleleCounts html
blacklist_hg19 html
filter1allele html
filterIntbias html
getASB html
mergePerGroup html
pickrell2011cov1_hg19 html
plotQC html
plotSimul html
summaryASB html
summaryQC 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 'BaalChIP' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'BaalChIP' as BaalChIP_1.20.0.zip
* DONE (BaalChIP)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'BaalChIP' successfully unpacked and MD5 sums checked
|
BaalChIP.Rcheck/tests_i386/runTests.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.
> BiocGenerics:::testPackage("BaalChIP")
Attaching package: 'BiocGenerics'
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
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
RUNIT TEST PROTOCOL -- Tue Apr 12 16:06:20 2022
***********************************************
Number of test functions: 1
Number of errors: 0
Number of failures: 0
1 Test Suite :
BaalChIP RUnit Tests - 1 test function, 0 errors, 0 failures
Number of test functions: 1
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
8.51 0.57 9.09
|
BaalChIP.Rcheck/tests_x64/runTests.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.
> BiocGenerics:::testPackage("BaalChIP")
Attaching package: 'BiocGenerics'
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
Attaching package: 'IRanges'
The following object is masked from 'package:grDevices':
windows
Attaching package: 'Biostrings'
The following object is masked from 'package:base':
strsplit
RUNIT TEST PROTOCOL -- Tue Apr 12 16:06:30 2022
***********************************************
Number of test functions: 1
Number of errors: 0
Number of failures: 0
1 Test Suite :
BaalChIP RUnit Tests - 1 test function, 0 errors, 0 failures
Number of test functions: 1
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
9.04 0.31 9.65
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BaalChIP.Rcheck/examples_i386/BaalChIP-Ex.timings
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BaalChIP.Rcheck/examples_x64/BaalChIP-Ex.timings
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