############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:EWCE.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings EWCE_1.8.2.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.17-bioc/meat/EWCE.Rcheck' * using R version 4.3.1 (2023-06-16 ucrt) * using platform: x86_64-w64-mingw32 (64-bit) * R was compiled by gcc.exe (GCC) 12.2.0 GNU Fortran (GCC) 12.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'EWCE/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'EWCE' version '1.8.2' * 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 'EWCE' 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 ... ERROR Running examples in 'EWCE-Ex.R' failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: filter_ctd_genes > ### Title: Filter genes in a CellTypeDataset > ### Aliases: filter_ctd_genes > > ### ** Examples > > > ctd <- ewceData::ctd() see ?ewceData and browseVignettes('ewceData') for documentation downloading 1 resources retrieving 1 resource loading from cache Warning in readChar(con, 5L, useBytes = TRUE) : truncating string with embedded nuls Warning: file '16ac463f564a_5419' has magic number 'X' Use of save versions prior to 2 is deprecated Error: failed to load resource name: EH5376 title: ctd reason: error in evaluating the argument 'x' in selecting a method for function 'get': bad restore file magic number (file may be corrupted) -- no data loaded Execution halted * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'testthat.R' ERROR Running the tests in 'tests/testthat.R' failed. Last 13 lines of output: 4. └─ExperimentHub (local) .local(x, i, j = j, ...) 5. ├─methods::callNextMethod(x, i, j, ..., force = force, verbose = verbose) 6. │ └─base::eval(call, callEnv) 7. │ └─base::eval(call, callEnv) 8. └─AnnotationHub (local) .nextMethod(x, i, j, ..., force = force, verbose = verbose) 9. └─AnnotationHub (local) .local(x, i, j = j, ...) 10. └─AnnotationHub:::.Hub_get1(x[idx], force = force, verbose = verbose) 11. └─base::tryCatch(...) 12. └─base (local) tryCatchList(expr, classes, parentenv, handlers) 13. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]]) 14. └─value[[3L]](cond) [ FAIL 8 | WARN 49 | SKIP 0 | PASS 57 ] Error: Test failures Execution halted * 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: 2 ERRORs See 'F:/biocbuild/bbs-3.17-bioc/meat/EWCE.Rcheck/00check.log' for details.