Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-24 13:07:03 -0500 (Mon, 24 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4080
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4141
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

CHECK results for SpidermiR on tokay2


To the developers/maintainers of the SpidermiR package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SpidermiR.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1857/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SpidermiR 1.24.0  (landing page)
Claudia Cava
Snapshot Date: 2022-01-23 01:55:04 -0500 (Sun, 23 Jan 2022)
git_url: https://git.bioconductor.org/packages/SpidermiR
git_branch: RELEASE_3_14
git_last_commit: 2316683
git_last_commit_date: 2021-10-26 12:26:19 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: SpidermiR
Version: 1.24.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SpidermiR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings SpidermiR_1.24.0.tar.gz
StartedAt: 2022-01-24 02:54:55 -0500 (Mon, 24 Jan 2022)
EndedAt: 2022-01-24 03:00:11 -0500 (Mon, 24 Jan 2022)
EllapsedTime: 316.3 seconds
RetCode: 0
Status:   OK  
CheckDir: SpidermiR.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:SpidermiR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings SpidermiR_1.24.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/SpidermiR.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'SpidermiR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'SpidermiR' version '1.24.0'
* 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 'SpidermiR' can be installed ... OK
* checking installed package size ... OK
* checking package 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 ... NOTE
Namespaces in Imports field not imported from:
  'MAGeCKFlute' 'TCGAbiolinks' 'ggplot2' 'gplots' 'grDevices'
  'gridExtra' 'lattice' 'latticeExtra'
  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 ... 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 examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                 user system elapsed
SpidermiRquery_disease          20.75   7.36   29.33
SpidermiRdownload_drug_gene     16.00   0.08   16.85
SpidermiRprepare_NET             9.39   1.28   11.50
SpidermiRdownload_net            6.22   0.97    7.97
SpidermiRdownload_miRNAvalidate  0.27   0.00   17.53
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                 user system elapsed
SpidermiRquery_disease          17.41   9.79   31.02
SpidermiRdownload_drug_gene     13.37   0.27   14.25
SpidermiRprepare_NET             6.80   2.81   10.13
SpidermiRdownload_net            4.32   2.10    7.01
SpidermiRdownload_miRNAvalidate  0.19   0.01   16.74
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.14-bioc/meat/SpidermiR.Rcheck/00check.log'
for details.



Installation output

SpidermiR.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/SpidermiR_1.24.0.tar.gz && rm -rf SpidermiR.buildbin-libdir && mkdir SpidermiR.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=SpidermiR.buildbin-libdir SpidermiR_1.24.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL SpidermiR_1.24.0.zip && rm SpidermiR_1.24.0.tar.gz SpidermiR_1.24.0.zip
###
##############################################################################
##############################################################################


  % 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  9673  100  9673    0     0   116k      0 --:--:-- --:--:-- --:--:--  118k

install for i386

* installing *source* package 'SpidermiR' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'SpidermiR'
    finding HTML links ... done
    SpidermiRanalyze_degree_centrality      html  
    SpidermiRanalyze_direct_net             html  
    SpidermiRanalyze_direct_subnetwork      html  
    SpidermiRanalyze_subnetwork_neigh       html  
    SpidermiRdownload_drug_gene             html  
    SpidermiRdownload_miRNAextra_cir        html  
    SpidermiRdownload_miRNAprediction       html  
    SpidermiRdownload_miRNAvalidate         html  
    SpidermiRdownload_net                   html  
    SpidermiRprepare_NET                    html  
    SpidermiRquery_disease                  html  
    SpidermiRquery_networks_type            html  
    SpidermiRquery_spec_networks            html  
    SpidermiRquery_species                  html  
** building package indices
** 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 'SpidermiR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'SpidermiR' as SpidermiR_1.24.0.zip
* DONE (SpidermiR)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'SpidermiR' successfully unpacked and MD5 sums checked

Tests output


Example timings

SpidermiR.Rcheck/examples_i386/SpidermiR-Ex.timings

nameusersystemelapsed
SpidermiRanalyze_degree_centrality000
SpidermiRanalyze_direct_net0.010.000.02
SpidermiRanalyze_direct_subnetwork0.020.000.01
SpidermiRanalyze_subnetwork_neigh000
SpidermiRdownload_drug_gene16.00 0.0816.85
SpidermiRdownload_miRNAextra_cir3.670.664.76
SpidermiRdownload_miRNAprediction4.010.464.52
SpidermiRdownload_miRNAvalidate 0.27 0.0017.53
SpidermiRdownload_net6.220.977.97
SpidermiRprepare_NET 9.39 1.2811.50
SpidermiRquery_disease20.75 7.3629.33
SpidermiRquery_networks_type0.330.040.78
SpidermiRquery_spec_networks0.090.000.39
SpidermiRquery_species0.030.000.22

SpidermiR.Rcheck/examples_x64/SpidermiR-Ex.timings

nameusersystemelapsed
SpidermiRanalyze_degree_centrality000
SpidermiRanalyze_direct_net0.010.000.02
SpidermiRanalyze_direct_subnetwork0.020.000.01
SpidermiRanalyze_subnetwork_neigh000
SpidermiRdownload_drug_gene13.37 0.2714.25
SpidermiRdownload_miRNAextra_cir2.851.194.36
SpidermiRdownload_miRNAprediction3.920.254.17
SpidermiRdownload_miRNAvalidate 0.19 0.0116.74
SpidermiRdownload_net4.322.107.01
SpidermiRprepare_NET 6.80 2.8110.13
SpidermiRquery_disease17.41 9.7931.02
SpidermiRquery_networks_type0.250.080.73
SpidermiRquery_spec_networks0.070.000.44
SpidermiRquery_species0.00.00.2