VJ Carey
| Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021) |
| git_url: https://git.bioconductor.org/packages/ldblock |
| git_branch: RELEASE_3_13 |
| git_last_commit: 6c98ba3 |
| git_last_commit_date: 2021-07-28 17:02:28 -0400 (Wed, 28 Jul 2021) |
| Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:06:09 -0400 (Fri, 15 Oct 2021).
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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? 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 978/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ldblock 1.22.1 (landing page) VJ Carey
| nebbiolo1 | Linux (Ubuntu 20.04.2 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: 1.22.1 |
| Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ldblock.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings ldblock_1.22.1.tar.gz |
| StartedAt: 2021-10-15 01:06:05 -0400 (Fri, 15 Oct 2021) |
| EndedAt: 2021-10-15 01:13:56 -0400 (Fri, 15 Oct 2021) |
| EllapsedTime: 470.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ldblock.Rcheck |
| Warnings: 0 |
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### Running command:
###
### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ldblock.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings ldblock_1.22.1.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/ldblock.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 'ldblock/DESCRIPTION' ... OK
* this is package 'ldblock' version '1.22.1'
* 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 26.6 0.77 27.6
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
expandSnpSet 25.41 0.9 26.31
* 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-3.13-bioc/meat/ldblock.Rcheck/00check.log'
for details.
ldblock.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/ldblock_1.22.1.tar.gz && rm -rf ldblock.buildbin-libdir && mkdir ldblock.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=ldblock.buildbin-libdir ldblock_1.22.1.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL ldblock_1.22.1.zip && rm ldblock_1.22.1.tar.gz ldblock_1.22.1.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
2 39.7M 2 817k 0 0 1256k 0 0:00:32 --:--:-- 0:00:32 1257k
6 39.7M 6 2458k 0 0 1505k 0 0:00:27 0:00:01 0:00:26 1505k
12 39.7M 12 5038k 0 0 1921k 0 0:00:21 0:00:02 0:00:19 1920k
19 39.7M 19 7950k 0 0 2180k 0 0:00:18 0:00:03 0:00:15 2180k
25 39.7M 25 10.2M 0 0 2258k 0 0:00:18 0:00:04 0:00:14 2258k
33 39.7M 33 13.2M 0 0 2406k 0 0:00:16 0:00:05 0:00:11 2556k
42 39.7M 42 17.0M 0 0 2638k 0 0:00:15 0:00:06 0:00:09 3008k
54 39.7M 54 21.4M 0 0 2885k 0 0:00:14 0:00:07 0:00:07 3390k
58 39.7M 58 23.1M 0 0 2745k 0 0:00:14 0:00:08 0:00:06 3156k
69 39.7M 69 27.5M 0 0 2926k 0 0:00:13 0:00:09 0:00:04 3545k
85 39.7M 85 33.8M 0 0 3256k 0 0:00:12 0:00:10 0:00:02 4213k
100 39.7M 100 39.7M 0 0 3550k 0 0:00:11 0:00:11 --:--:-- 4800k
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_1.22.1.zip
* DONE (ldblock)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'ldblock' successfully unpacked and MD5 sums checked
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ldblock.Rcheck/tests_i386/ldblock_unit_tests.Rout
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.
> BiocGenerics:::testPackage('ldblock')
RUNIT TEST PROTOCOL -- Fri Oct 15 01:13:26 2021
***********************************************
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
13.71 1.01 14.71
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ldblock.Rcheck/tests_x64/ldblock_unit_tests.Rout
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.
> BiocGenerics:::testPackage('ldblock')
RUNIT TEST PROTOCOL -- Fri Oct 15 01:13:43 2021
***********************************************
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
16.25 0.56 16.79
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ldblock.Rcheck/examples_i386/ldblock-Ex.timings
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ldblock.Rcheck/examples_x64/ldblock-Ex.timings
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