| Back to Multiple platform build/check report for BioC 3.14 |
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This page was generated on 2022-04-13 12:06:39 -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 | ||||
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To the developers/maintainers of the GmicR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/GmicR.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 794/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| GmicR 1.8.0 (landing page) Richard Virgen-Slane
| 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: GmicR |
| Version: 1.8.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GmicR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings GmicR_1.8.0.tar.gz |
| StartedAt: 2022-04-12 20:39:35 -0400 (Tue, 12 Apr 2022) |
| EndedAt: 2022-04-12 21:10:31 -0400 (Tue, 12 Apr 2022) |
| EllapsedTime: 1856.0 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: GmicR.Rcheck |
| Warnings: 1 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:GmicR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings GmicR_1.8.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/GmicR.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 'GmicR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'GmicR' 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 'GmicR' can be installed ... WARNING
Found the following significant warnings:
Warning: replacing previous import 'ape::degree' by 'bnlearn::degree' when loading 'GmicR'
See 'C:/Users/biocbuild/bbs-3.14-bioc/meat/GmicR.Rcheck/00install.out' for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... NOTE
License components with restrictions not permitted:
GPL-2 + file LICENSE
* 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 ... NOTE
Namespace in Imports field not imported from: 'data.table'
All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
GSEAGO_Builder: no visible binding for global variable 'ex'
Undefined global functions or variables:
ex
* 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
GSEAGO_Builder 60.25 37.02 571.55
Auto_WGCNA 10.51 0.10 10.84
InverseARCs 7.18 0.02 7.46
bn_tabu_gen 0.04 0.00 196.30
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
GSEAGO_Builder 72.97 41.42 640.20
Auto_WGCNA 14.10 0.03 14.22
InverseARCs 6.38 0.05 7.39
bn_tabu_gen 0.08 0.00 142.03
* 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, 3 NOTEs
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/GmicR.Rcheck/00check.log'
for details.
GmicR.Rcheck/00install.out
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###
### Running command:
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### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/GmicR_1.8.0.tar.gz && rm -rf GmicR.buildbin-libdir && mkdir GmicR.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=GmicR.buildbin-libdir GmicR_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL GmicR_1.8.0.zip && rm GmicR_1.8.0.tar.gz GmicR_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
17 3576k 17 640k 0 0 832k 0 0:00:04 --:--:-- 0:00:04 832k
65 3576k 65 2328k 0 0 1322k 0 0:00:02 0:00:01 0:00:01 1322k
100 3576k 100 3576k 0 0 1592k 0 0:00:02 0:00:02 --:--:-- 1593k
install for i386
* installing *source* package 'GmicR' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import 'ape::degree' by 'bnlearn::degree' when loading 'GmicR'
** help
*** installing help indices
converting help for package 'GmicR'
finding HTML links ... done
Auto_WGCNA html
Batch_Net html
Data_Prep html
GO_Module_NameR html
GSEAGO_Builder html
Gmic_viz html
InverseARCs html
Query_Prep html
bn_tabu_gen html
xCell_loader html
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import 'ape::degree' by 'bnlearn::degree' when loading 'GmicR'
** testing if installed package can be loaded from final location
Warning: replacing previous import 'ape::degree' by 'bnlearn::degree' when loading 'GmicR'
** testing if installed package keeps a record of temporary installation path
install for x64
* installing *source* package 'GmicR' ...
not using staged install with --libs-only
** testing if installed package can be loaded
Warning: replacing previous import 'ape::degree' by 'bnlearn::degree' when loading 'GmicR'
* MD5 sums
packaged installation of 'GmicR' as GmicR_1.8.0.zip
* DONE (GmicR)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'GmicR' successfully unpacked and MD5 sums checked
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GmicR.Rcheck/examples_i386/GmicR-Ex.timings
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GmicR.Rcheck/examples_x64/GmicR-Ex.timings
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