Tallulah Andrews
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/M3Drop |
| Branch: RELEASE_3_9 |
| Last Commit: f2486ba |
| Last Changed Date: 2019-05-02 11:54:04 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 12:59:02 -0400 (Wed, 16 Oct 2019).
| Package 898/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| M3Drop 1.10.0 Tallulah Andrews
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | OK | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | [ OK ] | OK | |
| Package: M3Drop |
| Version: 1.10.0 |
| Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings M3Drop_1.10.0.tar.gz |
| StartedAt: 2019-10-16 04:11:09 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 04:22:01 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 651.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: M3Drop.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings M3Drop_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/M3Drop.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘M3Drop/DESCRIPTION’ ... OK
* this is package ‘M3Drop’ version ‘1.10.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘M3Drop’ 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
* 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
Package in Depends field not imported from: ‘numDeriv’
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
Missing or unexported object: ‘scater::exprs’
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
bg__filter_cells: no visible binding for global variable ‘x’
bg__get_extreme_residuals: no visible binding for global variable ‘x’
Undefined global functions or variables:
x
* checking Rd files ... NOTE
prepare_Rd: NBumi_FSOther.Rd:8-10: Dropping empty section \usage
prepare_Rd: NBumi_TradDE.Rd:7-8: Dropping empty section \usage
* 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 sizes of PDF files under ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
NewSimulations 278.670 50.514 329.265
Imputation 78.870 0.325 79.197
M3D_getmarkers 73.230 1.653 76.450
M3D_ConverData 9.589 0.696 10.321
* 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
‘/Users/biocbuild/bbs-3.9-bioc/meat/M3Drop.Rcheck/00check.log’
for details.
M3Drop.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL M3Drop ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’ * installing *source* package ‘M3Drop’ ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** 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 (M3Drop)
M3Drop.Rcheck/M3Drop-Ex.timings
| name | user | system | elapsed | |
| Brennecke_getVariableGenes | 3.667 | 0.455 | 4.132 | |
| Consensus_FS | 0.442 | 0.065 | 0.507 | |
| Fitting_Dropout_Models | 0.001 | 0.001 | 0.000 | |
| Imputation | 78.870 | 0.325 | 79.197 | |
| M3D_Clean_Data | 1.522 | 0.287 | 1.809 | |
| M3D_ConverData | 9.589 | 0.696 | 10.321 | |
| M3D_Differential_Expression | 1.620 | 0.245 | 1.879 | |
| M3D_Dropout_Models | 1.513 | 0.276 | 1.790 | |
| M3D_Expression_Heatmap | 0.368 | 0.010 | 0.379 | |
| M3D_Get_Extremes | 2.334 | 0.565 | 2.901 | |
| M3D_Get_Heatmap_Cell_Clusters | 0.376 | 0.008 | 0.386 | |
| M3D_Simulations | 0.000 | 0.001 | 0.000 | |
| M3D_Test_Shift | 1.322 | 0.156 | 1.483 | |
| M3D_ThreeSet_Venn | 0.057 | 0.005 | 0.063 | |
| M3D_TraditionalDE | 0.013 | 0.001 | 0.013 | |
| M3D_getmarkers | 73.230 | 1.653 | 76.450 | |
| M3D_horz_res | 0.001 | 0.000 | 0.000 | |
| NBumi_CheckFit | 2.815 | 0.437 | 3.253 | |
| NBumi_CompareModels | 3.591 | 0.410 | 4.002 | |
| NBumi_ConvertToInteger | 0.001 | 0.000 | 0.001 | |
| NBumi_ConvrtData | 0.968 | 0.067 | 1.034 | |
| NBumi_FSDrop | 2.705 | 0.366 | 3.071 | |
| NBumi_FSHighVar | 1.913 | 0.326 | 2.240 | |
| NBumi_FSOther | 0.021 | 0.001 | 0.022 | |
| NBumi_FitDisp | 0 | 0 | 0 | |
| NBumi_FitDispVsMean | 1.383 | 0.105 | 1.487 | |
| NBumi_FitModel | 1.465 | 0.323 | 1.787 | |
| NBumi_TradDE | 0.000 | 0.000 | 0.001 | |
| NewSimulations | 278.670 | 50.514 | 329.265 | |
| Other_FS | 0.361 | 0.028 | 0.390 | |
| PoissonUMIFeatureSelectionDropouts | 1.476 | 0.250 | 1.727 | |
| bg__fit_gamma | 0.000 | 0.000 | 0.001 | |
| bg__get_stats | 0.000 | 0.001 | 0.000 | |
| bg__mean2disp | 0 | 0 | 0 | |
| bg__shift_size | 0 | 0 | 0 | |
| bg__var_vs_drop | 0 | 0 | 0 | |