VJ Carey
| Snapshot Date: 2019-07-21 17:01:00 -0400 (Sun, 21 Jul 2019) |
| URL: https://git.bioconductor.org/packages/HumanTranscriptomeCompendium |
| Branch: master |
| Last Commit: a687ba8 |
| Last Changed Date: 2019-05-27 09:51:14 -0400 (Mon, 27 May 2019) |
| Back to Multiple platform build/check report for BioC 3.10 |
|
This page was generated on 2019-07-22 12:18:34 -0400 (Mon, 22 Jul 2019).
| Package 774/1746 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| HumanTranscriptomeCompendium 1.1.2 VJ Carey
| malbec1 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: HumanTranscriptomeCompendium |
| Version: 1.1.2 |
| Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:HumanTranscriptomeCompendium.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings HumanTranscriptomeCompendium_1.1.2.tar.gz |
| StartedAt: 2019-07-22 02:51:33 -0400 (Mon, 22 Jul 2019) |
| EndedAt: 2019-07-22 02:56:38 -0400 (Mon, 22 Jul 2019) |
| EllapsedTime: 304.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: HumanTranscriptomeCompendium.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:HumanTranscriptomeCompendium.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings HumanTranscriptomeCompendium_1.1.2.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/HumanTranscriptomeCompendium.Rcheck'
* using R version 3.6.0 Patched (2019-05-13 r76493)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'HumanTranscriptomeCompendium/DESCRIPTION' ... OK
* this is package 'HumanTranscriptomeCompendium' version '1.1.2'
* 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 'HumanTranscriptomeCompendium' can be installed ... NOTE
Found the following notes/warnings:
Non-staged installation was used
See 'C:/Users/biocbuild/bbs-3.10-bioc/meat/HumanTranscriptomeCompendium.Rcheck/00install.out' for details.
* 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 ... 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 data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
htx_query_by_text 8.66 0.43 9.86
htx_query_by_study_accession 8.78 0.21 9.34
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
htx_query_by_study_accession 8.01 0.14 8.77
htx_query_by_text 7.16 0.17 7.44
* 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-3.10-bioc/meat/HumanTranscriptomeCompendium.Rcheck/00check.log'
for details.
HumanTranscriptomeCompendium.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/HumanTranscriptomeCompendium_1.1.2.tar.gz && rm -rf HumanTranscriptomeCompendium.buildbin-libdir && mkdir HumanTranscriptomeCompendium.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=HumanTranscriptomeCompendium.buildbin-libdir HumanTranscriptomeCompendium_1.1.2.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL HumanTranscriptomeCompendium_1.1.2.zip && rm HumanTranscriptomeCompendium_1.1.2.tar.gz HumanTranscriptomeCompendium_1.1.2.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
100 2159k 100 2159k 0 0 34.6M 0 --:--:-- --:--:-- --:--:-- 37.0M
install for i386
Warning in untar2(tarfile, files, list, exdir, restore_times) :
failed to copy 'HumanTranscriptomeCompendium/vignettes/htxcomp.Rmd' to 'HumanTranscriptomeCompendium/README.md'
* installing *source* package 'HumanTranscriptomeCompendium' ...
** 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 'HumanTranscriptomeCompendium'
finding HTML links ... done
HumanTranscriptomeCompendium.colnames html
addRD html
ca43k html
get_ds4841 html
htx_app html
htx_load html
htx_query_by_study_accession html
htx_query_by_text html
load_bigrnaFiles html
load_experTable html
load_studTable html
path_doc4842 html
procExpToGene html
tx2gene_gencode27 html
uniqueAcc_120518 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
Warning in untar2(tarfile, files, list, exdir, restore_times) :
failed to copy 'HumanTranscriptomeCompendium/vignettes/htxcomp.Rmd' to 'HumanTranscriptomeCompendium/README.md'
* installing *source* package 'HumanTranscriptomeCompendium' ...
** using non-staged installation
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'HumanTranscriptomeCompendium' as HumanTranscriptomeCompendium_1.1.2.zip
* DONE (HumanTranscriptomeCompendium)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'HumanTranscriptomeCompendium' successfully unpacked and MD5 sums checked
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HumanTranscriptomeCompendium.Rcheck/tests_i386/testthat.Rout
R version 3.6.0 Patched (2019-05-13 r76493) -- "Planting of a Tree"
Copyright (C) 2019 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(HumanTranscriptomeCompendium)
>
> test_check("HumanTranscriptomeCompendium")
== testthat results ===========================================================
OK: 8 SKIPPED: 0 WARNINGS: 0 FAILED: 0
>
> proc.time()
user system elapsed
34.40 4.14 41.20
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HumanTranscriptomeCompendium.Rcheck/tests_x64/testthat.Rout
R version 3.6.0 Patched (2019-05-13 r76493) -- "Planting of a Tree"
Copyright (C) 2019 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(HumanTranscriptomeCompendium)
>
> test_check("HumanTranscriptomeCompendium")
== testthat results ===========================================================
OK: 8 SKIPPED: 0 WARNINGS: 0 FAILED: 0
>
> proc.time()
user system elapsed
34.65 1.12 35.84
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HumanTranscriptomeCompendium.Rcheck/examples_i386/HumanTranscriptomeCompendium-Ex.timings
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HumanTranscriptomeCompendium.Rcheck/examples_x64/HumanTranscriptomeCompendium-Ex.timings
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