Tiago Lubiana
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/fcoex |
| git_branch: RELEASE_3_14 |
| git_last_commit: 6ba7fe5 |
| git_last_commit_date: 2021-10-26 12:55:56 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:06:32 -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 fcoex package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/fcoex.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 631/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| fcoex 1.8.0 (landing page) Tiago Lubiana
| 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: fcoex |
| Version: 1.8.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fcoex.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings fcoex_1.8.0.tar.gz |
| StartedAt: 2022-04-12 19:34:12 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 19:41:26 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 433.8 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: fcoex.Rcheck |
| Warnings: 2 |
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###
### Running command:
###
### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fcoex.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings fcoex_1.8.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/fcoex.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 'fcoex/DESCRIPTION' ... OK
* this is package 'fcoex' version '1.8.0'
* 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 'fcoex' can be installed ... WARNING
Found the following significant warnings:
Warning: replacing previous import 'Matrix::head' by 'utils::head' when loading 'fcoex'
See 'C:/Users/biocbuild/bbs-3.14-bioc/meat/fcoex.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 ... WARNING
Documented arguments not in \usage in documentation object '.plot_one_interaction':
'...'
Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* 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
find_cbf_modules 20.42 0.62 21.04
get_nets 18.41 0.08 18.49
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
find_cbf_modules 19.04 0.05 19.08
get_nets 18.56 0.15 18.72
* 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: 2 WARNINGs
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/fcoex.Rcheck/00check.log'
for details.
fcoex.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/fcoex_1.8.0.tar.gz && rm -rf fcoex.buildbin-libdir && mkdir fcoex.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=fcoex.buildbin-libdir fcoex_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL fcoex_1.8.0.zip && rm fcoex_1.8.0.tar.gz fcoex_1.8.0.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
100 1002k 100 1002k 0 0 1577k 0 --:--:-- --:--:-- --:--:-- 1575k
100 1002k 100 1002k 0 0 1576k 0 --:--:-- --:--:-- --:--:-- 1575k
install for i386
* installing *source* package 'fcoex' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
Registered S3 method overwritten by 'ggtree':
method from
identify.gg ggfun
Warning: replacing previous import 'Matrix::head' by 'utils::head' when loading 'fcoex'
in method for 'mod_ora' with signature '"fcoex"': no definition for class "fcoex"
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'Matrix::head' by 'utils::head' when loading 'fcoex'
in method for 'mod_ora' with signature '"fcoex"': no definition for class "fcoex"
** help
*** installing help indices
converting help for package 'fcoex'
finding HTML links ... done
discretize html
dot-get_correlates html
fc html
fcoex-class html
find_cbf_modules html
get_nets html
idents html
mini_pbmc3k html
mod_colors html
mod_gene_num html
mod_names html
mod_ora html
module_genes html
new_fcoex html
nmodules html
ora_data html
plot_one_interaction html
plot_ora html
plot_ora_single html
recluster html
save_plots html
show-fcoex-method html
show_net html
show_ora html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import 'Matrix::head' by 'utils::head' when loading 'fcoex'
** testing if installed package can be loaded from final location
Warning: replacing previous import 'Matrix::head' by 'utils::head' when loading 'fcoex'
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'fcoex' ...
** testing if installed package can be loaded
Warning: replacing previous import 'Matrix::head' by 'utils::head' when loading 'fcoex'
* MD5 sums
packaged installation of 'fcoex' as fcoex_1.8.0.zip
* DONE (fcoex)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'fcoex' successfully unpacked and MD5 sums checked
|
fcoex.Rcheck/tests_i386/testthat.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.
> library(testthat)
> library(fcoex)
Warning message:
replacing previous import 'Matrix::head' by 'utils::head' when loading 'fcoex'
>
> test_check("fcoex")
[1] "Number of features features = 40"
[1] "Number of prospective features = 14"
[1] "Number of final features = 7"
[ FAIL 0 | WARN 14 | SKIP 0 | PASS 4 ]
[ FAIL 0 | WARN 14 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
9.51 1.01 10.50
|
fcoex.Rcheck/tests_x64/testthat.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.
> library(testthat)
> library(fcoex)
Warning message:
replacing previous import 'Matrix::head' by 'utils::head' when loading 'fcoex'
>
> test_check("fcoex")
[1] "Number of features features = 40"
[1] "Number of prospective features = 14"
[1] "Number of final features = 7"
[ FAIL 0 | WARN 14 | SKIP 0 | PASS 4 ]
[ FAIL 0 | WARN 14 | SKIP 0 | PASS 4 ]
>
> proc.time()
user system elapsed
11.26 0.54 11.79
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fcoex.Rcheck/examples_i386/fcoex-Ex.timings
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fcoex.Rcheck/examples_x64/fcoex-Ex.timings
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