Simone Pallotta
| Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021) |
| URL: https://git.bioconductor.org/packages/RGMQL |
| Branch: RELEASE_3_12 |
| Last Commit: 61091e1 |
| Last Changed Date: 2020-10-27 11:31:01 -0400 (Tue, 27 Oct 2020) |
| Back to Multiple platform build/check report for BioC 3.12 |
|
This page was generated on 2021-05-06 12:33:14 -0400 (Thu, 06 May 2021).
|
To the developers/maintainers of the RGMQL package: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1515/1974 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| RGMQL 1.10.0 (landing page) Simone Pallotta
| malbec1 | Linux (Ubuntu 18.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| Package: RGMQL |
| Version: 1.10.0 |
| Command: C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe --arch x64 CMD check --no-multiarch --install=check:RGMQL.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings RGMQL_1.10.0.tar.gz |
| StartedAt: 2021-05-06 06:10:45 -0400 (Thu, 06 May 2021) |
| EndedAt: 2021-05-06 06:15:33 -0400 (Thu, 06 May 2021) |
| EllapsedTime: 288.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: RGMQL.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe --arch x64 CMD check --no-multiarch --install=check:RGMQL.install-out.txt --library=C:\Users\biocbuild\bbs-3.12-bioc\R\library --no-vignettes --timings RGMQL_1.10.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.12-bioc/meat/RGMQL.Rcheck'
* using R version 4.0.5 (2021-03-31)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'RGMQL/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'RGMQL' version '1.10.0'
* 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 ... NOTE
Found the following hidden files and directories:
.BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'RGMQL' can be installed ... OK
* checking installed package size ... NOTE
installed size is 20.4Mb
sub-directories of 1Mb or more:
example 19.5Mb
* 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
* 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 ... NOTE
File 'RGMQL/R/onLoad.R':
.onLoad calls:
packageStartupMessage("Check if GMQL credentials are expired... \n")
See section 'Good practice' in '?.onAttach'.
* 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 ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
aggr-class 5.09 0.69 19.72
take 4.59 0.33 6.77
show_dataset 0.05 0.00 6.10
* 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: 3 NOTEs
See
'C:/Users/biocbuild/bbs-3.12-bioc/meat/RGMQL.Rcheck/00check.log'
for details.
RGMQL.Rcheck/00install.out
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###
### Running command:
###
### C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe --arch x64 CMD INSTALL --no-multiarch RGMQL
###
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* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
* installing *source* package 'RGMQL' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'RGMQL'
finding HTML links ... done
aggr-class html
aggregate html
arrange html
collect html
compile_query html
condition_eval_func html
cover-param-class html
cover html
delete_dataset html
distal-class html
download_dataset html
execute html
export_gmql html
extend html
filter html
filter_and_extract html
group_by html
import_gmql html
init_gmql html
log_job html
login_gmql html
logout_gmql html
map html
merge html
operator-class html
ordering-class html
read-function html
register_gmql html
remote_processing html
run_query html
sample_metadata html
sample_region html
save_query html
select html
semijoin html
setdiff html
show_dataset html
show_jobs_list html
show_queries_list html
show_samples_list html
show_schema html
stop_gmql html
stop_job html
take html
union html
upload_dataset 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
* DONE (RGMQL)
Making 'packages.html' ... done
RGMQL.Rcheck/RGMQL-Ex.timings
| name | user | system | elapsed | |
| aggr-class | 5.09 | 0.69 | 19.72 | |
| aggregate | 0.05 | 0.01 | 0.02 | |
| arrange | 0.03 | 0.00 | 0.03 | |
| collect | 0.03 | 0.00 | 0.03 | |
| compile_query | 0.32 | 0.00 | 2.64 | |
| cover-param-class | 0.06 | 0.00 | 0.05 | |
| cover | 0.01 | 0.00 | 0.03 | |
| delete_dataset | 0 | 0 | 0 | |
| distal-class | 0.02 | 0.04 | 0.04 | |
| download_dataset | 0 | 0 | 0 | |
| execute | 0.03 | 0.00 | 0.02 | |
| export_gmql | 0.44 | 0.07 | 0.52 | |
| extend | 0.05 | 0.00 | 0.03 | |
| filter | 0.15 | 0.00 | 0.07 | |
| filter_and_extract | 0.44 | 0.02 | 0.46 | |
| group_by | 0.05 | 0.00 | 0.04 | |
| import_gmql | 0.11 | 0.02 | 0.13 | |
| init_gmql | 0.01 | 0.00 | 0.70 | |
| log_job | 0.01 | 0.00 | 0.55 | |
| login_gmql | 0.00 | 0.00 | 0.67 | |
| logout_gmql | 0.03 | 0.00 | 1.62 | |
| map | 0.07 | 0.01 | 0.03 | |
| merge | 0.04 | 0.00 | 0.05 | |
| operator-class | 0.13 | 0.00 | 0.11 | |
| ordering-class | 0.20 | 0.00 | 0.05 | |
| read-function | 1.33 | 0.02 | 1.03 | |
| register_gmql | 0 | 0 | 0 | |
| remote_processing | 0.02 | 0.01 | 0.01 | |
| run_query | 0 | 0 | 0 | |
| sample_metadata | 0.00 | 0.00 | 2.11 | |
| sample_region | 0 | 0 | 0 | |
| save_query | 0.01 | 0.02 | 1.92 | |
| select | 0.02 | 0.00 | 0.07 | |
| semijoin | 0.04 | 0.00 | 0.04 | |
| setdiff | 0.02 | 0.01 | 0.04 | |
| show_dataset | 0.05 | 0.00 | 6.10 | |
| show_jobs_list | 0.00 | 0.00 | 0.79 | |
| show_queries_list | 0.01 | 0.00 | 0.81 | |
| show_samples_list | 0.03 | 0.00 | 1.22 | |
| show_schema | 0.00 | 0.00 | 1.06 | |
| stop_gmql | 0.35 | 0.22 | 0.25 | |
| stop_job | 0 | 0 | 0 | |
| take | 4.59 | 0.33 | 6.77 | |
| union | 0.03 | 0.00 | 0.17 | |
| upload_dataset | 0 | 0 | 0 | |