VJ Carey
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/ldblock |
| git_branch: RELEASE_3_14 |
| git_last_commit: e757bbd |
| git_last_commit_date: 2021-10-26 12:22:15 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:06:47 -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 ldblock package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ldblock.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 990/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ldblock 1.24.0 (landing page) VJ Carey
| 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: ldblock |
| Version: 1.24.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ldblock.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings ldblock_1.24.0.tar.gz |
| StartedAt: 2022-04-12 21:56:29 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 22:04:41 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 492.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ldblock.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ldblock.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings ldblock_1.24.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/ldblock.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 'ldblock/DESCRIPTION' ... OK
* this is package 'ldblock' version '1.24.0'
* 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 'ldblock' can be installed ... OK
* checking installed package size ... NOTE
installed size is 40.6Mb
sub-directories of 1Mb or more:
hapmap 39.9Mb
* 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 ... NOTE
downloadPopByChr: no visible global function definition for
'download.file'
hmld: no visible global function definition for 'read.delim'
ldmat: no visible global function definition for 'read.delim'
Undefined global functions or variables:
download.file read.delim
Consider adding
importFrom("utils", "download.file", "read.delim")
to your NAMESPACE file.
* 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
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
expandSnpSet 26.28 0.81 27.36
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
expandSnpSet 25.29 0.79 26.1
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
Running 'ldblock_unit_tests.R'
OK
** running tests for arch 'x64' ...
Running 'ldblock_unit_tests.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: 2 NOTEs
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/ldblock.Rcheck/00check.log'
for details.
ldblock.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/ldblock_1.24.0.tar.gz && rm -rf ldblock.buildbin-libdir && mkdir ldblock.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=ldblock.buildbin-libdir ldblock_1.24.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL ldblock_1.24.0.zip && rm ldblock_1.24.0.tar.gz ldblock_1.24.0.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
5 39.7M 5 2077k 0 0 2421k 0 0:00:16 --:--:-- 0:00:16 2421k
14 39.7M 14 5734k 0 0 3096k 0 0:00:13 0:00:01 0:00:12 3096k
18 39.7M 18 7579k 0 0 2657k 0 0:00:15 0:00:02 0:00:13 2657k
21 39.7M 21 8882k 0 0 2305k 0 0:00:17 0:00:03 0:00:14 2306k
26 39.7M 26 10.7M 0 0 2260k 0 0:00:18 0:00:04 0:00:14 2260k
31 39.7M 31 12.5M 0 0 2198k 0 0:00:18 0:00:05 0:00:13 2159k
37 39.7M 37 14.8M 0 0 2221k 0 0:00:18 0:00:06 0:00:12 1896k
45 39.7M 45 18.0M 0 0 2360k 0 0:00:17 0:00:07 0:00:10 2190k
54 39.7M 54 21.6M 0 0 2511k 0 0:00:16 0:00:08 0:00:08 2668k
65 39.7M 65 25.9M 0 0 2697k 0 0:00:15 0:00:09 0:00:06 3122k
71 39.7M 71 28.5M 0 0 2688k 0 0:00:15 0:00:10 0:00:05 3261k
77 39.7M 77 30.7M 0 0 2661k 0 0:00:15 0:00:11 0:00:04 3263k
85 39.7M 85 34.0M 0 0 2713k 0 0:00:15 0:00:12 0:00:03 3266k
96 39.7M 96 38.2M 0 0 2830k 0 0:00:14 0:00:13 0:00:01 3396k
100 39.7M 100 39.7M 0 0 2878k 0 0:00:14 0:00:14 --:--:-- 3292k
install for i386
* installing *source* package 'ldblock' ...
** 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 'ldblock'
finding HTML links ... done
EUR_singletons html
downloadPopByChr html
expandSnpSet html
hmld html
ldByGene html
finding level-2 HTML links ... done
ldblock-package html
ldmat-ldstruct-method html
ldmat html
ldstruct-class html
s3_1kg html
sampinf_1kg html
stack1kg 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 'ldblock' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ldblock' as ldblock_1.24.0.zip
* DONE (ldblock)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'ldblock' successfully unpacked and MD5 sums checked
|
ldblock.Rcheck/tests_i386/ldblock_unit_tests.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('ldblock')
RUNIT TEST PROTOCOL -- Tue Apr 12 22:04:17 2022
***********************************************
Number of test functions: 0
Number of errors: 0
Number of failures: 0
1 Test Suite :
ldblock RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
13.31 1.40 14.71
|
ldblock.Rcheck/tests_x64/ldblock_unit_tests.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('ldblock')
RUNIT TEST PROTOCOL -- Tue Apr 12 22:04:33 2022
***********************************************
Number of test functions: 0
Number of errors: 0
Number of failures: 0
1 Test Suite :
ldblock RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0
Number of errors: 0
Number of failures: 0
>
> proc.time()
user system elapsed
14.64 0.57 15.20
|
|
ldblock.Rcheck/examples_i386/ldblock-Ex.timings
|
ldblock.Rcheck/examples_x64/ldblock-Ex.timings
|