Package: signatureSearchData

Version: 1.0.0

Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:signatureSearchData.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings signatureSearchData_1.0.0.tar.gz

StartedAt: 2020-04-14 14:06:11 -0400 (Tue, 14 Apr 2020)

EndedAt: 2020-04-14 14:08:56 -0400 (Tue, 14 Apr 2020)

EllapsedTime: 165.6 seconds

RetCode: 0

Status:  OK

CheckDir: signatureSearchData.Rcheck

Warnings: 0

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:signatureSearchData.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings signatureSearchData_1.0.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.10-data-experiment/meat/signatureSearchData.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘signatureSearchData/DESCRIPTION’ ... OK
* this is package ‘signatureSearchData’ version ‘1.0.0’
* package encoding: UTF-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 ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘signatureSearchData’ 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
         user system elapsed
GO_DATA 0.844  0.028   5.979
* 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
  ‘/home/biocbuild/bbs-3.10-data-experiment/meat/signatureSearchData.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL signatureSearchData
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* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’
* installing *source* package ‘signatureSearchData’ ...
** 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 (signatureSearchData)

name	user	system	elapsed
ES_NULL	2.968	0.140	3.849
GO_DATA	0.844	0.028	5.979
GO_DATA_drug	0.836	0.012	0.998
cmap	0.040	0.000	0.041
cmap_expr	0.040	0.000	0.038
cmap_rank	0.040	0.000	0.039
combineNormRes	0.000	0.000	0.001
combineResults	0	0	0
dtlink_db_clue_sti	0.764	0.024	0.850
getCmapCEL	0	0	0
goAnno	0.564	0.012	0.634
goAnno_drug	0.580	0.004	0.669
inst_filter	0.004	0.000	0.006
lincs	0.032	0.004	0.040
lincs_expr	0.040	0.000	0.039
meanExpr	0.036	0.000	0.047
meanExpr2h5	0.340	0.048	0.418
normalizeCel	0	0	0
probe2gene	0.000	0.000	0.002
runLimma	1.332	0.004	1.335
sampleList	1.320	0.000	1.322
sig_filter	0.004	0.000	0.004
signatureSearchData	0.828	0.032	0.980
taurefList	0.612	0.012	0.692