Tiago Lubiana
| Snapshot Date: 2020-10-16 14:40:19 -0400 (Fri, 16 Oct 2020) |
| URL: https://git.bioconductor.org/packages/fcoex |
| Branch: RELEASE_3_11 |
| Last Commit: ddcb71e |
| Last Changed Date: 2020-04-27 15:32:20 -0400 (Mon, 27 Apr 2020) |
| Back to Multiple platform build/check report for BioC 3.11 |
|
This page was generated on 2020-10-17 11:56:33 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE fcoex PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 589/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| fcoex 1.2.0 Tiago Lubiana
| malbec2 | Linux (Ubuntu 18.04.4 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: 1.2.0 |
| Command: C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fcoex.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings fcoex_1.2.0.tar.gz |
| StartedAt: 2020-10-17 04:01:05 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 04:09:35 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 510.1 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: fcoex.Rcheck |
| Warnings: 1 |
##############################################################################
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###
### Running command:
###
### C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:fcoex.install-out.txt --library=C:\Users\biocbuild\bbs-3.11-bioc\R\library --no-vignettes --timings fcoex_1.2.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory 'C:/Users/biocbuild/bbs-3.11-bioc/meat/fcoex.Rcheck'
* using R version 4.0.3 (2020-10-10)
* 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 '1.2.0'
* 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 ... 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 ... 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 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
get_nets 18.03 0.10 18.13
find_cbf_modules 15.50 0.48 15.98
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
find_cbf_modules 17.75 0.25 18.00
get_nets 16.41 0.14 16.54
save_plots 3.02 0.08 6.85
* 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 WARNING
See
'C:/Users/biocbuild/bbs-3.11-bioc/meat/fcoex.Rcheck/00check.log'
for details.
fcoex.Rcheck/00install.out
##############################################################################
##############################################################################
###
### Running command:
###
### C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.11/bioc/src/contrib/fcoex_1.2.0.tar.gz && rm -rf fcoex.buildbin-libdir && mkdir fcoex.buildbin-libdir && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=fcoex.buildbin-libdir fcoex_1.2.0.tar.gz && C:\Users\biocbuild\bbs-3.11-bioc\R\bin\R.exe CMD INSTALL fcoex_1.2.0.zip && rm fcoex_1.2.0.tar.gz fcoex_1.2.0.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 1572k 100 1572k 0 0 18.9M 0 --:--:-- --:--:-- --:--:-- 20.7M
install for i386
* installing *source* package 'fcoex' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** 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
** 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 'fcoex' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'fcoex' as fcoex_1.2.0.zip
* DONE (fcoex)
* installing to library 'C:/Users/biocbuild/bbs-3.11-bioc/R/library'
package 'fcoex' successfully unpacked and MD5 sums checked
|
fcoex.Rcheck/tests_i386/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 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)
>
> test_check("fcoex")
[1] "Number of prospective features = 101"
Round 1
[1] "first_prime round ( |s_prime| = 101 )"
0.03194653 0.02800735 Removed feature 3
0.02763913 0.02414231 Removed feature 193
0.02353948 0.01790847 Removed feature 50
0.0521341 0.01786321 Removed feature 62
0.02041323 0.01599553 Removed feature 51
0.02088483 0.01396718 Removed feature 93
0.01706161 0.01390786 Removed feature 77
0.01910361 0.01224877 Removed feature 83
0.01476756 0.01207179 Removed feature 74
0.01254876 0.01152678 Removed feature 49
0.01843079 0.01152678 Removed feature 76
0.01179206 0.0112316 Removed feature 16
0.02550237 0.01067603 Removed feature 75
0.02027304 0.01050465 Removed feature 195
0.01186175 0.00940938 Removed feature 27
0.01277121 0.00940938 Removed feature 168
0.01593592 0.008943111 Removed feature 10
0.01513814 0.007429651 Removed feature 118
0.02010306 0.007429651 Removed feature 176
0.02186843 0.007075971 Removed feature 96
0.009289338 0.007075971 Removed feature 120
0.009289338 0.007075971 Removed feature 151
0.006958987 0.006187113 Removed feature 12
0.009413964 0.006187113 Removed feature 170
0.01513646 0.00564683 Removed feature 69
0.01311565 0.005575571 Removed feature 8
0.006945529 0.004975612 Removed feature 199
0.009216964 0.004506593 Removed feature 143
0.005033393 0.004391526 Removed feature 24
0.006670359 0.004391526 Removed feature 58
0.02353948 0.004391526 Removed feature 129
0.005033393 0.004391526 Removed feature 172
0.01843079 0.004132786 Removed feature 127
Round 2
[1] "first_prime round ( |s_prime| = 68 )"
0.04955578 0.03501836 Removed feature 2
0.03399187 0.02538638 Removed feature 152
0.05492921 0.02414231 Removed feature 91
0.0372539 0.01964875 Removed feature 72
0.02092332 0.01790847 Removed feature 97
0.02567026 0.01786321 Removed feature 99
0.02493902 0.01599553 Removed feature 7
0.0170391 0.01484275 Removed feature 60
0.01441766 0.01258098 Removed feature 192
0.01453786 0.00940938 Removed feature 162
0.07300363 0.009373247 Removed feature 57
0.03399187 0.008943111 Removed feature 150
0.02567026 0.006362556 Removed feature 189
0.007788437 0.006362556 Removed feature 190
0.02502602 0.005575571 Removed feature 48
0.03506221 0.005575571 Removed feature 80
0.03164244 0.005353485 Removed feature 184
0.01425104 0.004975612 Removed feature 116
0.006060038 0.004391526 Removed feature 147
0.00997331 0.004132786 Removed feature 106
0.008824937 0.004132786 Removed feature 132
Round 3
[1] "first_prime round ( |s_prime| = 47 )"
0.03141805 0.01396718 Removed feature 40
0.01402804 0.009981355 Removed feature 4
0.01402804 0.009981355 Removed feature 14
0.01675354 0.00821823 Removed feature 135
0.01042599 0.007848506 Removed feature 21
0.01115035 0.006587856 Removed feature 25
0.01954098 0.005575571 Removed feature 161
0.009555687 0.004975612 Removed feature 117
0.007476548 0.004506593 Removed feature 43
Round 4
[1] "first_prime round ( |s_prime| = 38 )"
0.04126492 0.0249483 Removed feature 95
0.03895043 0.02267899 Removed feature 149
0.02373101 0.01964875 Removed feature 141
0.04980472 0.01224877 Removed feature 154
0.02706361 0.01152678 Removed feature 110
0.01151253 0.009981355 Removed feature 115
0.01618401 0.00940938 Removed feature 53
0.02715013 0.008943111 Removed feature 134
0.03918037 0.007075971 Removed feature 103
0.01639507 0.006587856 Removed feature 34
Round 5
[1] "first_prime round ( |s_prime| = 28 )"
0.02978142 0.02094474 Removed feature 67
0.03454568 0.0173703 Removed feature 52
0.01976844 0.0173703 Removed feature 186
0.05403675 0.01453744 Removed feature 155
0.02862218 0.01224877 Removed feature 196
Round 6
[1] "first_prime round ( |s_prime| = 23 )"
0.04487146 0.02660303 Removed feature 6
0.06539919 0.02660303 Removed feature 136
0.07098213 0.02485001 Removed feature 88
0.03613477 0.01453744 Removed feature 140
0.02522445 0.01258914 Removed feature 87
0.0424457 0.006362556 Removed feature 68
Round 7
[1] "first_prime round ( |s_prime| = 17 )"
0.06273034 0.02414231 Removed feature 167
0.05963869 0.006362556 Removed feature 19
Round 8
[1] "first_prime round ( |s_prime| = 15 )"
Round 9
[1] "first_prime round ( |s_prime| = 15 )"
0.02476948 0.01679217 Removed feature 177
Round 10
[1] "first_prime round ( |s_prime| = 14 )"
0.02981448 0.01851095 Removed feature 138
0.01964847 0.0173703 Removed feature 70
Round 11
[1] "first_prime round ( |s_prime| = 12 )"
0.03826502 0.0112316 Removed feature 54
== testthat results ===========================================================
[ OK: 3 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
>
> proc.time()
user system elapsed
18.40 1.28 19.65
|
fcoex.Rcheck/tests_x64/testthat.Rout
R version 4.0.3 (2020-10-10) -- "Bunny-Wunnies Freak Out"
Copyright (C) 2020 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)
>
> test_check("fcoex")
[1] "Number of prospective features = 102"
Round 1
[1] "first_prime round ( |s_prime| = 102 )"
0.03541429 0.03501836 Removed feature 144
0.0440913 0.03347788 Removed feature 161
0.03444473 0.03230742 Removed feature 40
0.02808656 0.02786455 Removed feature 119
0.1007877 0.0249483 Removed feature 42
0.02330924 0.0196221 Removed feature 126
0.01910361 0.01851095 Removed feature 195
0.02515003 0.01757082 Removed feature 156
0.04471297 0.01488066 Removed feature 130
0.01535332 0.01453744 Removed feature 38
0.01705592 0.01396718 Removed feature 174
0.0257225 0.01258914 Removed feature 106
0.02505543 0.01258098 Removed feature 72
0.02983705 0.01224877 Removed feature 29
0.05652965 0.01224877 Removed feature 79
0.0301355 0.01152678 Removed feature 22
0.02600396 0.01067603 Removed feature 12
0.02483855 0.01062181 Removed feature 111
0.0677995 0.009981355 Removed feature 160
0.04700393 0.008943111 Removed feature 102
0.02028984 0.008943111 Removed feature 107
0.05544204 0.00821823 Removed feature 44
0.01143034 0.007429651 Removed feature 37
0.05339441 0.007429651 Removed feature 113
0.05339441 0.007429651 Removed feature 171
0.05339441 0.007429651 Removed feature 176
0.009705588 0.007075971 Removed feature 96
0.05963869 0.006362556 Removed feature 137
0.01114797 0.006362556 Removed feature 199
0.01705592 0.006187113 Removed feature 142
0.02839767 0.005855937 Removed feature 54
0.1678458 0.00564683 Removed feature 26
0.01094371 0.00564683 Removed feature 190
0.07021178 0.005581295 Removed feature 124
0.06581241 0.005575571 Removed feature 87
0.009957042 0.004975612 Removed feature 162
0.02505543 0.004506593 Removed feature 68
0.0265206 0.004391526 Removed feature 17
0.0265206 0.004391526 Removed feature 197
Round 2
[1] "first_prime round ( |s_prime| = 63 )"
0.03116066 0.02538638 Removed feature 98
0.03502467 0.02094474 Removed feature 141
0.09848811 0.01908965 Removed feature 134
0.02916532 0.01790847 Removed feature 25
0.03862882 0.01786321 Removed feature 175
0.03877896 0.01786321 Removed feature 200
0.1022712 0.01561809 Removed feature 24
0.03311042 0.01453744 Removed feature 180
0.06334644 0.01396718 Removed feature 9
0.06334644 0.01396718 Removed feature 62
0.04616065 0.01390786 Removed feature 81
0.09568612 0.0112316 Removed feature 94
0.04800737 0.008424484 Removed feature 43
0.04800737 0.008424484 Removed feature 95
0.008893097 0.00821823 Removed feature 198
0.03502467 0.007429651 Removed feature 177
0.01111218 0.006587856 Removed feature 45
0.05937515 0.006587856 Removed feature 153
0.03877896 0.006362556 Removed feature 167
0.06676549 0.005353485 Removed feature 125
0.02150074 0.004975612 Removed feature 69
0.02916532 0.004391526 Removed feature 76
Round 3
[1] "first_prime round ( |s_prime| = 41 )"
0.05938641 0.04613449 Removed feature 73
0.05445084 0.03099085 Removed feature 123
0.04700393 0.02800735 Removed feature 61
0.03933544 0.02538638 Removed feature 143
0.0181835 0.01152678 Removed feature 185
0.02391217 0.006587856 Removed feature 92
0.007825161 0.005575571 Removed feature 10
0.007825161 0.005575571 Removed feature 34
0.007825161 0.005575571 Removed feature 182
0.03668537 0.004391526 Removed feature 53
0.01161533 0.004391526 Removed feature 100
Round 4
[1] "first_prime round ( |s_prime| = 30 )"
0.02715013 0.02103363 Removed feature 35
0.05198037 0.01060396 Removed feature 127
0.02009678 0.007075971 Removed feature 140
0.006794482 0.006187113 Removed feature 7
0.01161533 0.004391526 Removed feature 56
Round 5
[1] "first_prime round ( |s_prime| = 25 )"
0.06273034 0.04368795 Removed feature 20
0.05339441 0.0420584 Removed feature 52
0.03274996 0.02862863 Removed feature 150
0.0440913 0.01453744 Removed feature 39
Round 6
[1] "first_prime round ( |s_prime| = 21 )"
0.05493955 0.03267455 Removed feature 170
0.03973628 0.03099085 Removed feature 51
0.05109974 0.01786321 Removed feature 165
Round 7
[1] "first_prime round ( |s_prime| = 18 )"
0.03028915 0.01786321 Removed feature 13
0.05223124 0.01679217 Removed feature 151
Round 8
[1] "first_prime round ( |s_prime| = 16 )"
0.02055416 0.01599553 Removed feature 32
0.02372755 0.007429651 Removed feature 63
Round 9
[1] "first_prime round ( |s_prime| = 14 )"
0.04119998 0.02273447 Removed feature 57
0.01567146 0.01060396 Removed feature 132
Round 10
[1] "first_prime round ( |s_prime| = 12 )"
Round 11
[1] "first_prime round ( |s_prime| = 12 )"
0.03427804 0.01786321 Removed feature 16
== testthat results ===========================================================
[ OK: 3 | SKIPPED: 0 | WARNINGS: 0 | FAILED: 0 ]
>
>
> proc.time()
user system elapsed
21.34 0.73 22.06
|
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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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