Peter Blattmann
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/SWATH2stats |
| Branch: RELEASE_3_7 |
| Last Commit: 0a5ebec |
| Last Changed Date: 2018-06-15 11:08:09 -0400 (Fri, 15 Jun 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:41:14 -0400 (Wed, 17 Oct 2018).
| Package 1453/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| SWATH2stats 1.10.2 Peter Blattmann
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: SWATH2stats |
| Version: 1.10.2 |
| Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SWATH2stats.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings SWATH2stats_1.10.2.tar.gz |
| StartedAt: 2018-10-17 05:07:07 -0400 (Wed, 17 Oct 2018) |
| EndedAt: 2018-10-17 05:09:00 -0400 (Wed, 17 Oct 2018) |
| EllapsedTime: 112.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SWATH2stats.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SWATH2stats.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings SWATH2stats_1.10.2.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/SWATH2stats.Rcheck' * using R version 3.5.1 Patched (2018-07-24 r75005) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'SWATH2stats/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'SWATH2stats' version '1.10.2' * checking package namespace information ... OK * checking package dependencies ... NOTE Package which this enhances but not available for checking: 'imsbInfer' * 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 'SWATH2stats' 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 ... 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 ** running examples for arch 'x64' ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'test-all.R' OK ** running tests for arch 'x64' ... Running 'test-all.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-3.7-bioc/meat/SWATH2stats.Rcheck/00check.log' for details.
SWATH2stats.Rcheck/00install.out
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### Running command:
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### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/SWATH2stats_1.10.2.tar.gz && rm -rf SWATH2stats.buildbin-libdir && mkdir SWATH2stats.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SWATH2stats.buildbin-libdir SWATH2stats_1.10.2.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL SWATH2stats_1.10.2.zip && rm SWATH2stats_1.10.2.tar.gz SWATH2stats_1.10.2.zip
###
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install for i386
* installing *source* package 'SWATH2stats' ...
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'SWATH2stats'
finding HTML links ... done
MSstats_data html
OpenSWATH_data html
SWATH2stats-package html
Spyogenes html
Study_design html
assess_decoy_rate html
assess_fdr_byrun html
assess_fdr_overall html
convert4MSstats html
convert4PECA html
convert4aLFQ html
convert4mapDIA html
convert4pythonscript html
count_analytes html
disaggregate html
filter_all_peptides html
filter_mscore_all html
filter_mscore_fdr html
filter_on_max_peptides html
filter_on_min_peptides html
filter_proteotypic_peptides html
import_data html
mscore4assayfdr html
mscore4pepfdr html
mscore4protfdr html
plot.fdr_cube html
plot.fdr_table html
plot_correlation_between_samples html
plot_variation html
plot_variation_vs_total html
reduce_OpenSWATH_output html
removeDecoyProteins html
sample_annotation html
transform_MSstats_OpenSWATH html
unifyProteinGroupLabels html
write_matrix_peptides html
write_matrix_proteins html
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL
install for x64
* installing *source* package 'SWATH2stats' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SWATH2stats' as SWATH2stats_1.10.2.zip
* DONE (SWATH2stats)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'SWATH2stats' successfully unpacked and MD5 sums checked
In R CMD INSTALL
|
SWATH2stats.Rcheck/tests_i386/test-all.Rout
R version 3.5.1 Patched (2018-07-24 r75005) -- "Feather Spray"
Copyright (C) 2018 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)
> test_check("SWATH2stats")
Loading required package: SWATH2stats
[1] "peterb_J131223_054"
[1] "peterb_L150425_011_SW"
[1] "peterb_L150514_002_SW"
== testthat results ===========================================================
OK: 118 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
8.17 0.15 8.12
|
SWATH2stats.Rcheck/tests_x64/test-all.Rout
R version 3.5.1 Patched (2018-07-24 r75005) -- "Feather Spray"
Copyright (C) 2018 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)
> test_check("SWATH2stats")
Loading required package: SWATH2stats
[1] "peterb_J131223_054"
[1] "peterb_L150425_011_SW"
[1] "peterb_L150514_002_SW"
== testthat results ===========================================================
OK: 118 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
8.00 0.14 8.12
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SWATH2stats.Rcheck/examples_i386/SWATH2stats-Ex.timings
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SWATH2stats.Rcheck/examples_x64/SWATH2stats-Ex.timings
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