Claudia Cava
| Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017) |
| URL: https://git.bioconductor.org/packages/SpidermiR |
| Branch: RELEASE_3_5 |
| Last Commit: 5b0ea33 |
| Last Changed Date: 2017-09-20 05:26:58 -0400 (Wed, 20 Sep 2017) |
| Back to the "Multiple platform build/check report" | A B C D E F G H I J K L M N O P Q R [S] T U V W X Y Z |
This page was generated on 2017-10-18 14:25:47 -0400 (Wed, 18 Oct 2017).
| Package 1252/1381 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| SpidermiR 1.7.4 Claudia Cava
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | [ OK ] | OK | | ||||||
| veracruz2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: SpidermiR |
| Version: 1.7.4 |
| Command: rm -rf SpidermiR.buildbin-libdir SpidermiR.Rcheck && mkdir SpidermiR.buildbin-libdir SpidermiR.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SpidermiR.buildbin-libdir SpidermiR_1.7.4.tar.gz >SpidermiR.Rcheck\00install.out 2>&1 && cp SpidermiR.Rcheck\00install.out SpidermiR-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=SpidermiR.buildbin-libdir --install="check:SpidermiR-install.out" --force-multiarch --no-vignettes --timings SpidermiR_1.7.4.tar.gz |
| StartedAt: 2017-10-18 03:11:44 -0400 (Wed, 18 Oct 2017) |
| EndedAt: 2017-10-18 03:22:11 -0400 (Wed, 18 Oct 2017) |
| EllapsedTime: 627.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: SpidermiR.Rcheck |
| Warnings: 0 |
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### Running command:
###
### rm -rf SpidermiR.buildbin-libdir SpidermiR.Rcheck && mkdir SpidermiR.buildbin-libdir SpidermiR.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=SpidermiR.buildbin-libdir SpidermiR_1.7.4.tar.gz >SpidermiR.Rcheck\00install.out 2>&1 && cp SpidermiR.Rcheck\00install.out SpidermiR-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=SpidermiR.buildbin-libdir --install="check:SpidermiR-install.out" --force-multiarch --no-vignettes --timings SpidermiR_1.7.4.tar.gz
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* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/SpidermiR.Rcheck'
* using R version 3.4.2 Patched (2017-10-07 r73498)
* 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 '1.7.4'
* 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 11.87 2.93 15.12
SpidermiRdownload_miRNALNC_RNA 6.15 2.38 9.27
SpidermiRdownload_net 6.59 1.77 8.69
SpidermiRanalyze_mirna_gene_complnet 5.00 0.59 6.37
SpidermiRdownload_miRNAextra_cir 3.54 1.36 5.17
SpidermiRanalyze_mirna_network 3.99 0.64 5.22
SpidermiRdownload_miRNAvalidate 2.86 0.19 14.87
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
SpidermiRprepare_NET 6.86 2.67 9.81
SpidermiRdownload_miRNALNC_RNA 4.63 1.77 7.16
SpidermiRdownload_net 4.72 1.45 6.50
SpidermiRanalyze_mirna_gene_complnet 4.64 0.69 6.06
SpidermiRanalyze_mirna_network 4.15 0.59 5.42
SpidermiRdownload_miRNAvalidate 2.95 0.25 11.10
* 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-3.5-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_1.7.4.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 | 0.01 | 0.03 | 0.05 | |
| SpidermiRanalyze_Community_detection_bi | 0.26 | 0.02 | 0.28 | |
| SpidermiRanalyze_Community_detection_net | 0.02 | 0.00 | 0.02 | |
| SpidermiRanalyze_DEnetworkTCGA | 4.72 | 0.00 | 4.72 | |
| SpidermiRanalyze_degree_centrality | 0 | 0 | 0 | |
| SpidermiRanalyze_direct_net | 0.03 | 0.00 | 0.03 | |
| SpidermiRanalyze_direct_subnetwork | 0.03 | 0.00 | 0.03 | |
| SpidermiRanalyze_mirna_gene_complnet | 5.00 | 0.59 | 6.37 | |
| SpidermiRanalyze_mirna_network | 3.99 | 0.64 | 5.22 | |
| SpidermiRanalyze_mirnanet_pharm | 0 | 0 | 0 | |
| SpidermiRanalyze_subnetwork_neigh | 0 | 0 | 0 | |
| SpidermiRdownload_miRNALNC_RNA | 6.15 | 2.38 | 9.27 | |
| SpidermiRdownload_miRNALNC_miRNA | 1.56 | 0.28 | 2.47 | |
| SpidermiRdownload_miRNAextra_cir | 3.54 | 1.36 | 5.17 | |
| SpidermiRdownload_miRNAprediction | 3.62 | 0.23 | 3.86 | |
| SpidermiRdownload_miRNAvalidate | 2.86 | 0.19 | 14.87 | |
| SpidermiRdownload_net | 6.59 | 1.77 | 8.69 | |
| SpidermiRdownload_pharmacomir | 0.32 | 0.22 | 0.77 | |
| SpidermiRprepare_NET | 11.87 | 2.93 | 15.12 | |
| SpidermiRquery_disease | 1.67 | 0.44 | 2.17 | |
| SpidermiRquery_networks_type | 0.21 | 0.05 | 0.50 | |
| SpidermiRquery_spec_networks | 0.07 | 0.00 | 0.24 | |
| SpidermiRquery_species | 0.02 | 0.00 | 0.12 | |
| SpidermiRvisualize_3Dbarplot | 0.17 | 0.00 | 0.18 | |
| SpidermiRvisualize_BI | 0.35 | 0.01 | 0.65 | |
| SpidermiRvisualize_adj_matrix | 0.14 | 0.00 | 0.14 | |
| SpidermiRvisualize_degree_dist | 0.01 | 0.00 | 0.02 | |
| SpidermiRvisualize_direction | 0.25 | 0.08 | 2.17 | |
| SpidermiRvisualize_mirnanet | 0.08 | 0.00 | 0.08 | |
| SpidermiRvisualize_plot_target | 0.94 | 0.02 | 0.95 | |
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 | 0.08 | 0.00 | 0.08 | |
| SpidermiRanalyze_Community_detection_bi | 0.3 | 0.0 | 0.3 | |
| SpidermiRanalyze_Community_detection_net | 0 | 0 | 0 | |
| SpidermiRanalyze_DEnetworkTCGA | 3.47 | 0.06 | 3.53 | |
| SpidermiRanalyze_degree_centrality | 0 | 0 | 0 | |
| SpidermiRanalyze_direct_net | 0.03 | 0.00 | 0.03 | |
| SpidermiRanalyze_direct_subnetwork | 0.04 | 0.00 | 0.03 | |
| SpidermiRanalyze_mirna_gene_complnet | 4.64 | 0.69 | 6.06 | |
| SpidermiRanalyze_mirna_network | 4.15 | 0.59 | 5.42 | |
| SpidermiRanalyze_mirnanet_pharm | 0 | 0 | 0 | |
| SpidermiRanalyze_subnetwork_neigh | 0 | 0 | 0 | |
| SpidermiRdownload_miRNALNC_RNA | 4.63 | 1.77 | 7.16 | |
| SpidermiRdownload_miRNALNC_miRNA | 0.81 | 0.42 | 1.45 | |
| SpidermiRdownload_miRNAextra_cir | 2.66 | 1.28 | 4.17 | |
| SpidermiRdownload_miRNAprediction | 4.12 | 0.30 | 4.43 | |
| SpidermiRdownload_miRNAvalidate | 2.95 | 0.25 | 11.10 | |
| SpidermiRdownload_net | 4.72 | 1.45 | 6.50 | |
| SpidermiRdownload_pharmacomir | 0.25 | 0.11 | 0.57 | |
| SpidermiRprepare_NET | 6.86 | 2.67 | 9.81 | |
| SpidermiRquery_disease | 1.21 | 0.54 | 1.81 | |
| SpidermiRquery_networks_type | 0.17 | 0.04 | 0.41 | |
| SpidermiRquery_spec_networks | 0.09 | 0.00 | 0.25 | |
| SpidermiRquery_species | 0.00 | 0.00 | 0.11 | |
| SpidermiRvisualize_3Dbarplot | 0.17 | 0.00 | 0.17 | |
| SpidermiRvisualize_BI | 0.31 | 0.00 | 0.31 | |
| SpidermiRvisualize_adj_matrix | 0.10 | 0.00 | 0.09 | |
| SpidermiRvisualize_degree_dist | 0.01 | 0.00 | 0.02 | |
| SpidermiRvisualize_direction | 0.24 | 0.00 | 0.23 | |
| SpidermiRvisualize_mirnanet | 0.04 | 0.02 | 0.07 | |
| SpidermiRvisualize_plot_target | 1.08 | 0.00 | 1.07 | |