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This page was generated on 2017-08-16 13:35:58 -0400 (Wed, 16 Aug 2017).
| Package 1278/1410 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | |||||
| SpidermiR 1.7.3 Claudia Cava
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK |  | |||||
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | |||||
| veracruz1 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: SpidermiR |
| Version: 1.7.3 |
| Command: rm -rf SpidermiR.buildbin-libdir SpidermiR.Rcheck && mkdir SpidermiR.buildbin-libdir SpidermiR.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SpidermiR.buildbin-libdir SpidermiR_1.7.3.tar.gz >SpidermiR.Rcheck\00install.out 2>&1 && cp SpidermiR.Rcheck\00install.out SpidermiR-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=SpidermiR.buildbin-libdir --install="check:SpidermiR-install.out" --force-multiarch --no-vignettes --timings SpidermiR_1.7.3.tar.gz |
| StartedAt: 2017-08-16 02:39:17 -0400 (Wed, 16 Aug 2017) |
| EndedAt: 2017-08-16 02:48:54 -0400 (Wed, 16 Aug 2017) |
| EllapsedTime: 576.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SpidermiR.Rcheck |
| Warnings: 0 |
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### Running command:
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### rm -rf SpidermiR.buildbin-libdir SpidermiR.Rcheck && mkdir SpidermiR.buildbin-libdir SpidermiR.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SpidermiR.buildbin-libdir SpidermiR_1.7.3.tar.gz >SpidermiR.Rcheck\00install.out 2>&1 && cp SpidermiR.Rcheck\00install.out SpidermiR-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=SpidermiR.buildbin-libdir --install="check:SpidermiR-install.out" --force-multiarch --no-vignettes --timings SpidermiR_1.7.3.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/SpidermiR.Rcheck'
* using R version 3.4.1 (2017-06-30)
* 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 '1.7.3'
* 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 '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 ... NOTE
.SpidermiRvisualize_gene: possible error in simpleNetwork(NetworkData,
linkColour = "gray", textColour = "black", zoom = TRUE): unused
argument (textColour = "black")
SpidermiRvisualize_plot_target: no visible binding for global variable
'miRNAs'
SpidermiRvisualize_plot_target: no visible binding for global variable
'mRNA_target'
Undefined global functions or variables:
mRNA_target miRNAs
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
SpidermiRprepare_NET 9.88 2.43 12.72
SpidermiRdownload_net 5.91 1.30 7.75
SpidermiRanalyze_DEnetworkTCGA 5.59 0.04 5.64
SpidermiRanalyze_mirna_gene_complnet 4.89 0.49 6.16
SpidermiRanalyze_mirna_network 4.51 0.42 5.50
SpidermiRdownload_miRNAextra_cir 3.72 1.05 5.09
SpidermiRdownload_miRNAvalidate 2.56 0.17 9.01
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
SpidermiRprepare_NET 6.31 2.53 9.01
SpidermiRdownload_net 3.81 1.34 5.62
SpidermiRanalyze_mirna_gene_complnet 4.11 0.53 5.44
SpidermiRdownload_miRNAvalidate 2.69 0.10 12.24
* 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 NOTE
See
'C:/Users/biocbuild/bbs-3.6-bioc/meat/SpidermiR.Rcheck/00check.log'
for details.
SpidermiR.Rcheck/00install.out:
install for i386 * installing *source* package 'SpidermiR' ... ** R ** data *** moving datasets to lazyload DB ** inst ** preparing package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded install for x64 * installing *source* package 'SpidermiR' ... ** testing if installed package can be loaded * MD5 sums packaged installation of 'SpidermiR' as SpidermiR_1.7.3.zip * DONE (SpidermiR)
SpidermiR.Rcheck/examples_i386/SpidermiR-Ex.timings:
| name | user | system | elapsed | |
| Case_Study1_loading_1_network | 0 | 0 | 0 | |
| Case_Study1_loading_2_network | 0 | 0 | 0 | |
| Case_Study1_loading_3_network | 0 | 0 | 0 | |
| Case_Study1_loading_4_network | 0 | 0 | 0 | |
| Case_Study2_loading_1_network | 0 | 0 | 0 | |
| Case_Study2_loading_2_network | 0 | 0 | 0 | |
| Case_Study2_loading_3_network | 0 | 0 | 0 | |
| SpidermiRanalyze_Community_detection | 0.13 | 0.00 | 0.12 | |
| SpidermiRanalyze_Community_detection_bi | 0.37 | 0.00 | 0.38 | |
| SpidermiRanalyze_Community_detection_net | 0.02 | 0.00 | 0.02 | |
| SpidermiRanalyze_DEnetworkTCGA | 5.59 | 0.04 | 5.64 | |
| SpidermiRanalyze_degree_centrality | 0 | 0 | 0 | |
| SpidermiRanalyze_direct_net | 0.02 | 0.00 | 0.01 | |
| SpidermiRanalyze_direct_subnetwork | 0.03 | 0.00 | 0.03 | |
| SpidermiRanalyze_mirna_gene_complnet | 4.89 | 0.49 | 6.16 | |
| SpidermiRanalyze_mirna_network | 4.51 | 0.42 | 5.50 | |
| SpidermiRanalyze_mirnanet_pharm | 0 | 0 | 0 | |
| SpidermiRanalyze_subnetwork_neigh | 0 | 0 | 0 | |
| SpidermiRdownload_miRNAextra_cir | 3.72 | 1.05 | 5.09 | |
| SpidermiRdownload_miRNAprediction | 3.97 | 0.36 | 4.33 | |
| SpidermiRdownload_miRNAvalidate | 2.56 | 0.17 | 9.01 | |
| SpidermiRdownload_net | 5.91 | 1.30 | 7.75 | |
| SpidermiRdownload_pharmacomir | 0.15 | 0.11 | 0.53 | |
| SpidermiRprepare_NET | 9.88 | 2.43 | 12.72 | |
| SpidermiRquery_disease | 1.44 | 0.36 | 1.83 | |
| SpidermiRquery_networks_type | 0.15 | 0.00 | 0.70 | |
| SpidermiRquery_spec_networks | 0.03 | 0.00 | 0.58 | |
| SpidermiRquery_species | 0.00 | 0.00 | 0.27 | |
| SpidermiRvisualize_3Dbarplot | 0.08 | 0.00 | 0.08 | |
| SpidermiRvisualize_BI | 0.20 | 0.00 | 4.36 | |
| SpidermiRvisualize_adj_matrix | 0.06 | 0.00 | 0.06 | |
| SpidermiRvisualize_degree_dist | 0.02 | 0.00 | 0.02 | |
| SpidermiRvisualize_direction | 0.64 | 0.00 | 2.42 | |
| SpidermiRvisualize_mirnanet | 0.05 | 0.00 | 0.05 | |
| SpidermiRvisualize_plot_target | 0.67 | 0.00 | 0.67 | |
SpidermiR.Rcheck/examples_x64/SpidermiR-Ex.timings:
| name | user | system | elapsed | |
| Case_Study1_loading_1_network | 0 | 0 | 0 | |
| Case_Study1_loading_2_network | 0 | 0 | 0 | |
| Case_Study1_loading_3_network | 0 | 0 | 0 | |
| Case_Study1_loading_4_network | 0 | 0 | 0 | |
| Case_Study2_loading_1_network | 0 | 0 | 0 | |
| Case_Study2_loading_2_network | 0 | 0 | 0 | |
| Case_Study2_loading_3_network | 0 | 0 | 0 | |
| SpidermiRanalyze_Community_detection | 0.04 | 0.00 | 0.05 | |
| SpidermiRanalyze_Community_detection_bi | 0.32 | 0.00 | 0.31 | |
| SpidermiRanalyze_Community_detection_net | 0 | 0 | 0 | |
| SpidermiRanalyze_DEnetworkTCGA | 4.17 | 0.00 | 4.17 | |
| SpidermiRanalyze_degree_centrality | 0 | 0 | 0 | |
| SpidermiRanalyze_direct_net | 0.04 | 0.00 | 0.03 | |
| SpidermiRanalyze_direct_subnetwork | 0.06 | 0.00 | 0.06 | |
| SpidermiRanalyze_mirna_gene_complnet | 4.11 | 0.53 | 5.44 | |
| SpidermiRanalyze_mirna_network | 3.50 | 0.53 | 4.37 | |
| SpidermiRanalyze_mirnanet_pharm | 0 | 0 | 0 | |
| SpidermiRanalyze_subnetwork_neigh | 0.01 | 0.00 | 0.02 | |
| SpidermiRdownload_miRNAextra_cir | 2.49 | 1.08 | 3.91 | |
| SpidermiRdownload_miRNAprediction | 3.84 | 0.45 | 4.29 | |
| SpidermiRdownload_miRNAvalidate | 2.69 | 0.10 | 12.24 | |
| SpidermiRdownload_net | 3.81 | 1.34 | 5.62 | |
| SpidermiRdownload_pharmacomir | 0.13 | 0.06 | 0.41 | |
| SpidermiRprepare_NET | 6.31 | 2.53 | 9.01 | |
| SpidermiRquery_disease | 0.87 | 0.41 | 1.33 | |
| SpidermiRquery_networks_type | 0.08 | 0.01 | 0.38 | |
| SpidermiRquery_spec_networks | 0.05 | 0.02 | 0.40 | |
| SpidermiRquery_species | 0.00 | 0.00 | 0.25 | |
| SpidermiRvisualize_3Dbarplot | 0.09 | 0.00 | 0.10 | |
| SpidermiRvisualize_BI | 0.25 | 0.02 | 0.26 | |
| SpidermiRvisualize_adj_matrix | 0.06 | 0.00 | 0.06 | |
| SpidermiRvisualize_degree_dist | 0.02 | 0.00 | 0.02 | |
| SpidermiRvisualize_direction | 0.17 | 0.01 | 2.13 | |
| SpidermiRvisualize_mirnanet | 0.06 | 0.00 | 0.06 | |
| SpidermiRvisualize_plot_target | 0.85 | 0.02 | 0.86 | |