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### Running command:
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###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:gCrisprTools.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings gCrisprTools_2.1.3.tar.gz
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* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/gCrisprTools.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'gCrisprTools/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'gCrisprTools' version '2.1.3'
* 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 ... OK
* checking for portable file names ... OK
* checking whether package 'gCrisprTools' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  8.9Mb
  sub-directories of 1Mb or more:
    data   2.6Mb
* 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 ... NOTE
ct.seas: no visible global function definition for 'ct.compileSparrow'
Undefined global functions or variables:
  ct.compileSparrow
* 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 files in 'vignettes' ... OK
* checking examples ... ERROR
Running examples in 'gCrisprTools-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: ct.seas
> ### Title: Geneset Enrichment within a CRISPR screen using 'sparrow'
> ### Aliases: ct.seas
> 
> ### ** Examples
> 
> data('resultsDF')
> gdb <- sparrow::getMSigGeneSetDb(collection = 'h', species = 'human', id.type = 'entrez')
> ct.seas(list('longer' = resultsDF, 'shorter' = resultsDF[1:10000,]), gdb)
GeneSetDb feature_ids coded as geneIDs.
Depending on the composition of your library, you might consider switching to a target-level analysis; see ?ct.GREATdb() for details.
Removed genes absent from the provided GeneSetDb.
Warning in fn(gsd, x, design, contrast, logFC = logFC, use.treat = use.treat,  :
  logical column to identify enriched genes not found: selectedsetting `significant` column manually
Warning in ora(logFC, gsd, selected = selected, groups = groups, feature.bias = feature.bias,  :
  Only 0 / 1features found in 'dat'

Warning in sparrow::seas(x = ipt, gsd = gdb, methods = c("ora", "fgsea"),  :
  The following GSEA methods failed and are removed from the downstream result: ora,fgsea

Error in names(results) <- sub("\\.all$", "", names(results)) : 
  attempt to set an attribute on NULL
Calls: ct.seas -> lapply -> FUN -> <Anonymous>
Warning in sparrow::seas(x = ipt, gsd = gdb, methods = c("ora", "fgsea"),  :
  An error in `seas` stopped it from finishing ...
Execution halted
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'unit.tests.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 ERROR, 2 NOTEs
See
  'D:/biocbuild/bbs-3.15-bioc/meat/gCrisprTools.Rcheck/00check.log'
for details.