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This page was generated on 2017-04-15 16:20:52 -0400 (Sat, 15 Apr 2017).
| Package 1177/1296 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | |||||
| SpidermiR 1.4.8 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 | | |||||
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | OK | OK | |
| Package: SpidermiR |
| Version: 1.4.8 |
| Command: rm -rf SpidermiR.buildbin-libdir SpidermiR.Rcheck && mkdir SpidermiR.buildbin-libdir SpidermiR.Rcheck && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SpidermiR.buildbin-libdir SpidermiR_1.4.8.tar.gz >SpidermiR.Rcheck\00install.out 2>&1 && cp SpidermiR.Rcheck\00install.out SpidermiR-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=SpidermiR.buildbin-libdir --install="check:SpidermiR-install.out" --force-multiarch --no-vignettes --timings SpidermiR_1.4.8.tar.gz |
| StartedAt: 2017-04-15 00:59:09 -0400 (Sat, 15 Apr 2017) |
| EndedAt: 2017-04-15 01:09:33 -0400 (Sat, 15 Apr 2017) |
| EllapsedTime: 624.5 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-3.4-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SpidermiR.buildbin-libdir SpidermiR_1.4.8.tar.gz >SpidermiR.Rcheck\00install.out 2>&1 && cp SpidermiR.Rcheck\00install.out SpidermiR-install.out && C:\Users\biocbuild\bbs-3.4-bioc\R\bin\R.exe CMD check --library=SpidermiR.buildbin-libdir --install="check:SpidermiR-install.out" --force-multiarch --no-vignettes --timings SpidermiR_1.4.8.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.4-bioc/meat/SpidermiR.Rcheck'
* using R version 3.3.3 (2017-03-06)
* 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 '1.4.8'
* 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 '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 11.43 3.28 15.23
SpidermiRanalyze_mirna_gene_complnet 9.56 0.95 11.67
SpidermiRanalyze_mirna_network 7.17 0.41 8.23
SpidermiRdownload_net 5.67 1.65 7.96
SpidermiRdownload_miRNAprediction 6.61 0.58 7.19
SpidermiRdownload_miRNAvalidate 4.50 0.42 5.58
SpidermiRdownload_miRNAextra_cir 3.79 0.98 5.23
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
SpidermiRanalyze_mirna_gene_complnet 10.06 0.60 11.32
SpidermiRprepare_NET 6.80 2.34 9.67
SpidermiRdownload_miRNAprediction 6.86 0.63 7.50
SpidermiRanalyze_mirna_network 6.50 0.53 7.71
SpidermiRdownload_net 3.70 1.31 5.61
* 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-3.4-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_1.4.8.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 | 0 | 0 | |
| SpidermiRanalyze_Community_detection_bi | 0.01 | 0.00 | 0.01 | |
| SpidermiRanalyze_Community_detection_net | 0.02 | 0.00 | 0.02 | |
| SpidermiRanalyze_DEnetworkTCGA | 4.39 | 0.03 | 4.42 | |
| SpidermiRanalyze_degree_centrality | 0 | 0 | 0 | |
| SpidermiRanalyze_direct_net | 0 | 0 | 0 | |
| SpidermiRanalyze_direct_subnetwork | 0.02 | 0.00 | 0.02 | |
| SpidermiRanalyze_mirna_gene_complnet | 9.56 | 0.95 | 11.67 | |
| SpidermiRanalyze_mirna_network | 7.17 | 0.41 | 8.23 | |
| SpidermiRanalyze_mirnanet_pharm | 0 | 0 | 0 | |
| SpidermiRanalyze_subnetwork_neigh | 0.02 | 0.00 | 0.02 | |
| SpidermiRdownload_miRNAextra_cir | 3.79 | 0.98 | 5.23 | |
| SpidermiRdownload_miRNAprediction | 6.61 | 0.58 | 7.19 | |
| SpidermiRdownload_miRNAvalidate | 4.50 | 0.42 | 5.58 | |
| SpidermiRdownload_net | 5.67 | 1.65 | 7.96 | |
| SpidermiRdownload_pharmacomir | 0.02 | 0.00 | 0.02 | |
| SpidermiRprepare_NET | 11.43 | 3.28 | 15.23 | |
| SpidermiRquery_disease | 1.44 | 0.40 | 1.88 | |
| SpidermiRquery_networks_type | 0.17 | 0.05 | 0.72 | |
| SpidermiRquery_spec_networks | 0.08 | 0.00 | 0.48 | |
| SpidermiRquery_species | 0.02 | 0.00 | 0.31 | |
| SpidermiRvisualize_3Dbarplot | 0.09 | 0.00 | 0.10 | |
| SpidermiRvisualize_BI | 0.05 | 0.02 | 0.70 | |
| SpidermiRvisualize_adj_matrix | 0.09 | 0.00 | 0.10 | |
| SpidermiRvisualize_degree_dist | 0.02 | 0.00 | 0.01 | |
| SpidermiRvisualize_direction | 0.06 | 0.00 | 2.28 | |
| SpidermiRvisualize_mirnanet | 0.02 | 0.01 | 0.03 | |
| SpidermiRvisualize_plot_target | 0.19 | 0.02 | 0.20 | |
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 | 0.02 | 0.00 | 0.01 | |
| SpidermiRanalyze_Community_detection_bi | 0.01 | 0.00 | 0.02 | |
| SpidermiRanalyze_Community_detection_net | 0 | 0 | 0 | |
| SpidermiRanalyze_DEnetworkTCGA | 3.44 | 0.01 | 3.45 | |
| SpidermiRanalyze_degree_centrality | 0 | 0 | 0 | |
| SpidermiRanalyze_direct_net | 0 | 0 | 0 | |
| SpidermiRanalyze_direct_subnetwork | 0 | 0 | 0 | |
| SpidermiRanalyze_mirna_gene_complnet | 10.06 | 0.60 | 11.32 | |
| SpidermiRanalyze_mirna_network | 6.50 | 0.53 | 7.71 | |
| SpidermiRanalyze_mirnanet_pharm | 0 | 0 | 0 | |
| SpidermiRanalyze_subnetwork_neigh | 0.00 | 0.00 | 0.03 | |
| SpidermiRdownload_miRNAextra_cir | 2.36 | 1.19 | 3.91 | |
| SpidermiRdownload_miRNAprediction | 6.86 | 0.63 | 7.50 | |
| SpidermiRdownload_miRNAvalidate | 4.13 | 0.17 | 4.93 | |
| SpidermiRdownload_net | 3.70 | 1.31 | 5.61 | |
| SpidermiRdownload_pharmacomir | 0 | 0 | 0 | |
| SpidermiRprepare_NET | 6.80 | 2.34 | 9.67 | |
| SpidermiRquery_disease | 0.90 | 0.49 | 1.44 | |
| SpidermiRquery_networks_type | 0.11 | 0.00 | 0.47 | |
| SpidermiRquery_spec_networks | 0.03 | 0.01 | 0.45 | |
| SpidermiRquery_species | 0.0 | 0.0 | 0.3 | |
| SpidermiRvisualize_3Dbarplot | 0.09 | 0.00 | 0.09 | |
| SpidermiRvisualize_BI | 0.00 | 0.05 | 0.05 | |
| SpidermiRvisualize_adj_matrix | 0.07 | 0.00 | 0.06 | |
| SpidermiRvisualize_degree_dist | 0.01 | 0.00 | 0.02 | |
| SpidermiRvisualize_direction | 0.03 | 0.02 | 0.04 | |
| SpidermiRvisualize_mirnanet | 0.02 | 0.01 | 0.03 | |
| SpidermiRvisualize_plot_target | 0.20 | 0.00 | 0.21 | |