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 12:09:54 -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: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings M3Drop_1.10.0.tar.gz |
| StartedAt: 2019-10-16 02:48:24 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 02:55:41 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 437.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: M3Drop.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:M3Drop.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings M3Drop_1.10.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/M3Drop.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
NewSimulations 182.082 0.796 183.076
Imputation 83.032 0.016 83.351
M3D_getmarkers 54.472 0.059 54.775
M3D_ConverData 7.359 0.223 8.204
* 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
‘/home/biocbuild/bbs-3.9-bioc/meat/M3Drop.Rcheck/00check.log’
for details.
M3Drop.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL M3Drop ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/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 | 2.537 | 0.123 | 2.761 | |
| Consensus_FS | 0.27 | 0.00 | 0.27 | |
| Fitting_Dropout_Models | 0.000 | 0.000 | 0.001 | |
| Imputation | 83.032 | 0.016 | 83.351 | |
| M3D_Clean_Data | 1.267 | 0.024 | 1.299 | |
| M3D_ConverData | 7.359 | 0.223 | 8.204 | |
| M3D_Differential_Expression | 1.438 | 0.036 | 1.482 | |
| M3D_Dropout_Models | 1.340 | 0.056 | 1.397 | |
| M3D_Expression_Heatmap | 0.305 | 0.004 | 0.310 | |
| M3D_Get_Extremes | 2.020 | 0.024 | 2.054 | |
| M3D_Get_Heatmap_Cell_Clusters | 0.250 | 0.004 | 0.254 | |
| M3D_Simulations | 0 | 0 | 0 | |
| M3D_Test_Shift | 1.213 | 0.004 | 1.220 | |
| M3D_ThreeSet_Venn | 0.079 | 0.000 | 0.078 | |
| M3D_TraditionalDE | 0.007 | 0.004 | 0.012 | |
| M3D_getmarkers | 54.472 | 0.059 | 54.775 | |
| M3D_horz_res | 0 | 0 | 0 | |
| NBumi_CheckFit | 2.217 | 0.024 | 2.249 | |
| NBumi_CompareModels | 3.179 | 0.076 | 3.261 | |
| NBumi_ConvertToInteger | 0.000 | 0.000 | 0.001 | |
| NBumi_ConvrtData | 0.752 | 0.000 | 0.763 | |
| NBumi_FSDrop | 2.117 | 0.008 | 2.142 | |
| NBumi_FSHighVar | 1.184 | 0.000 | 1.194 | |
| NBumi_FSOther | 0.014 | 0.000 | 0.013 | |
| NBumi_FitDisp | 0 | 0 | 0 | |
| NBumi_FitDispVsMean | 0.902 | 0.000 | 0.908 | |
| NBumi_FitModel | 1.179 | 0.000 | 1.190 | |
| NBumi_TradDE | 0 | 0 | 0 | |
| NewSimulations | 182.082 | 0.796 | 183.076 | |
| Other_FS | 0.303 | 0.004 | 0.307 | |
| PoissonUMIFeatureSelectionDropouts | 1.219 | 0.000 | 1.218 | |
| bg__fit_gamma | 0 | 0 | 0 | |
| bg__get_stats | 0 | 0 | 0 | |
| bg__mean2disp | 0 | 0 | 0 | |
| bg__shift_size | 0 | 0 | 0 | |
| bg__var_vs_drop | 0 | 0 | 0 | |