Package: hgu2beta7

Version: 1.24.0

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:hgu2beta7.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings hgu2beta7_1.24.0.tar.gz

StartedAt: 2019-10-17 13:20:20 -0400 (Thu, 17 Oct 2019)

EndedAt: 2019-10-17 13:20:40 -0400 (Thu, 17 Oct 2019)

EllapsedTime: 19.7 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: hgu2beta7.Rcheck

Warnings: 3

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:hgu2beta7.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings hgu2beta7_1.24.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.9-data-experiment/meat/hgu2beta7.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 ‘hgu2beta7/DESCRIPTION’ ... OK
* this is package ‘hgu2beta7’ version ‘1.24.0’
* 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 ‘hgu2beta7’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  7.0Mb
  sub-directories of 1Mb or more:
    data   6.9Mb
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... WARNING
Subdirectory ‘data’ contains no data sets.
* 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 ... NOTE
hgu2beta7: no visible binding for global variable ‘hgu2beta7QC’
Undefined global functions or variables:
  hgu2beta7QC
* 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 ... WARNING
'library' or 'require' call not declared from: ‘annotate’
* checking contents of ‘data’ directory ... WARNING
Files not of a type allowed in a ‘data’ directory:
  ‘Rdata.rdb’ ‘Rdata.rds’ ‘Rdata.rdx’
Please use e.g. ‘inst/extdata’ for non-R data files

* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE

Status: 3 WARNINGs, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.9-data-experiment/meat/hgu2beta7.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL hgu2beta7
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘hgu2beta7’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (hgu2beta7)

name	user	system	elapsed
hgu2beta7ACCNUM	0.085	0.008	0.093
hgu2beta7CHR	0.041	0.000	0.041
hgu2beta7CHRLENGTHS	0.001	0.000	0.000
hgu2beta7CHRLOC	0.085	0.000	0.085
hgu2beta7ENZYME	0.02	0.00	0.02
hgu2beta7ENZYME2PROBE	0.002	0.000	0.001
hgu2beta7GENENAME	0.030	0.005	0.034
hgu2beta7GO	0.151	0.031	0.182
hgu2beta7GO2ALLPROBES	0.194	0.008	0.202
hgu2beta7GO2PROBE	0.028	0.004	0.033
hgu2beta7GRIF	0.019	0.000	0.019
hgu2beta7LOCUSID	0.016	0.004	0.020
hgu2beta7MAP	0.072	0.000	0.072
hgu2beta7OMIM	0.132	0.000	0.132
hgu2beta7ORGANISM	0	0	0
hgu2beta7PATH	0.018	0.000	0.018
hgu2beta7PATH2PROBE	0.002	0.000	0.002
hgu2beta7PMID	0.072	0.000	0.072
hgu2beta7PMID2PROBE	0.197	0.008	0.205
hgu2beta7REFSEQ	0.114	0.004	0.119
hgu2beta7SUMFUNC	0.050	0.000	0.049
hgu2beta7SYMBOL	0.031	0.000	0.030
hgu2beta7UNIGENE	0.025	0.008	0.033