############################################################################## ############################################################################## ### ### Running command: ### ### C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ISAnalytics.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings ISAnalytics_1.2.1.tar.gz ### ############################################################################## ############################################################################## * using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/ISAnalytics.Rcheck' * using R version 4.1.1 (2021-08-10) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'ISAnalytics/DESCRIPTION' ... OK * this is package 'ISAnalytics' version '1.2.1' * 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 'ISAnalytics' 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 * loading checks for arch 'i386' ** 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 * loading checks for arch 'x64' ** 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 ... ** running examples for arch 'i386' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed CIS_grubbs 4.25 0.21 16.25 CIS_volcano_plot 4.22 0.13 14.39 sample_statistics 2.34 0.12 12.41 realign_after_collisions 1.58 0.27 20.32 HSC_population_plot 1.55 0.08 20.77 remove_collisions 1.52 0.11 19.61 HSC_population_size_estimate 1.47 0.08 18.75 separate_quant_matrices 1.23 0.16 10.75 import_parallel_Vispa2Matrices_auto 1.14 0.11 13.74 compute_near_integrations 1.05 0.18 16.75 cumulative_count_union 1.17 0.04 10.78 comparison_matrix 0.94 0.11 20.97 aggregate_values_by_key 0.94 0.03 11.06 import_Vispa2_stats 0.81 0.12 8.26 import_single_Vispa2Matrix 0.72 0.08 8.78 compute_abundance 0.73 0.06 7.88 as_sparse_matrix 0.51 0.18 8.44 ** running examples for arch 'x64' ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed CIS_grubbs 5.38 0.19 15.74 CIS_volcano_plot 4.44 0.09 14.90 sample_statistics 2.47 0.22 12.53 realign_after_collisions 1.86 0.11 20.88 remove_collisions 1.80 0.09 21.69 HSC_population_size_estimate 1.62 0.09 19.18 HSC_population_plot 1.50 0.07 19.94 compute_near_integrations 1.28 0.09 15.61 separate_quant_matrices 1.22 0.05 10.84 aggregate_values_by_key 1.20 0.06 11.28 cumulative_count_union 1.14 0.11 11.47 comparison_matrix 1.08 0.13 11.14 import_parallel_Vispa2Matrices_auto 1.11 0.03 11.65 import_Vispa2_stats 0.78 0.06 8.15 as_sparse_matrix 0.70 0.09 7.43 compute_abundance 0.70 0.05 8.23 import_single_Vispa2Matrix 0.64 0.08 7.90 * checking for unstated dependencies in 'tests' ... OK * checking tests ... ** running tests for arch 'i386' ... Running 'testthat.R' ERROR Running the tests in 'tests/testthat.R' failed. Last 13 lines of output: == Failed tests ================================================================ -- Error (test-import-im-single.R:155:5): import_single_Vispa2Matrix reads type NEW different params -- Error: Cannot open file for writing: * 'C:\Users\biocbuild\bbs-3.13-bioc\tmpdir\Rtmp0SHftc\filee68363848ca.tsv' Backtrace: x 1. \-readr::write_tsv(...) test-import-im-single.R:155:4 2. \-readr::write_delim(...) 3. \-vroom::vroom_write(...) 4. \-vroom:::vroom_write_(...) [ FAIL 1 | WARN 0 | SKIP 0 | PASS 810 ] Error: Test failures Execution halted ** running tests for arch 'x64' ... Running 'testthat.R' ERROR Running the tests in 'tests/testthat.R' failed. Last 13 lines of output: == Failed tests ================================================================ -- Error (test-import-im-single.R:155:5): import_single_Vispa2Matrix reads type NEW different params -- Error: Cannot open file for writing: * 'C:\Users\biocbuild\bbs-3.13-bioc\tmpdir\Rtmp4ExIrF\file2278176d1ab8.tsv' Backtrace: x 1. \-readr::write_tsv(...) test-import-im-single.R:155:4 2. \-readr::write_delim(...) 3. \-vroom::vroom_write(...) 4. \-vroom:::vroom_write_(...) [ FAIL 1 | WARN 0 | SKIP 0 | PASS 810 ] 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 'C:/Users/biocbuild/bbs-3.13-bioc/meat/ISAnalytics.Rcheck/00check.log' for details.