Back to Multiple platform build/check report for BioC 3.16 |
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This page was generated on 2022-06-24 11:08:19 -0400 (Fri, 24 Jun 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" | 4331 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" | 4136 |
lconway | macOS 12.2.1 Monterey | x86_64 | 4.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" | 4147 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
To the developers/maintainers of the OncoSimulR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/OncoSimulR.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1357/2118 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
OncoSimulR 3.5.0 (landing page) Ramon Diaz-Uriarte
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.2.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
Package: OncoSimulR |
Version: 3.5.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:OncoSimulR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings OncoSimulR_3.5.0.tar.gz |
StartedAt: 2022-06-23 21:38:20 -0400 (Thu, 23 Jun 2022) |
EndedAt: 2022-06-23 21:47:33 -0400 (Thu, 23 Jun 2022) |
EllapsedTime: 552.4 seconds |
RetCode: 0 |
Status: OK |
CheckDir: OncoSimulR.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:OncoSimulR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings OncoSimulR_3.5.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/OncoSimulR.Rcheck’ * using R version 4.2.0 Patched (2022-05-29 r82424) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘OncoSimulR/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘OncoSimulR’ version ‘3.5.0’ * 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 ‘OncoSimulR’ can be installed ... OK * checking installed package size ... NOTE installed size is 9.0Mb sub-directories of 1Mb or more: libs 7.9Mb * 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking compilation flags in Makevars ... OK * checking for GNU extensions in Makefiles ... OK * checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK * checking use of PKG_*FLAGS in Makefiles ... OK * checking include directives in Makefiles ... OK * checking compiled code ... NOTE Note: information on .o files is not available * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.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: 2 NOTEs See ‘/Users/biocbuild/bbs-3.16-bioc/meat/OncoSimulR.Rcheck/00check.log’ for details.
OncoSimulR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL OncoSimulR ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’ * installing *source* package ‘OncoSimulR’ ... ** using staged installation ** libs clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/gamma.c -o FitnessLandscape/gamma.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/landscape.c -o FitnessLandscape/landscape.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/random.c -o FitnessLandscape/random.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/sort.c -o FitnessLandscape/sort.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/chain.c -o FitnessLandscape/chain.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/input.c -o FitnessLandscape/input.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/genotypes.c -o FitnessLandscape/genotypes.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/ordered_pairs.c -o FitnessLandscape/ordered_pairs.o FitnessLandscape/ordered_pairs.c:138:6: warning: variable 'tot_pairs' set but not used [-Wunused-but-set-variable] int tot_pairs=0; ^ 1 warning generated. clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/calculus.c -o FitnessLandscape/calculus.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/vector.c -o FitnessLandscape/vector.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/generalized_chain.c -o FitnessLandscape/generalized_chain.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/LinearAlgebra.c -o FitnessLandscape/LinearAlgebra.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/summary_statistics.c -o FitnessLandscape/summary_statistics.o FitnessLandscape/summary_statistics.c:515:9: warning: variable 'meanVarianceNumberOfStepsFL' set but not used [-Wunused-but-set-variable] double meanVarianceNumberOfStepsFL = 0; ^ 1 warning generated. clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/epistasis_type.c -o FitnessLandscape/epistasis_type.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/decomposition.c -o FitnessLandscape/decomposition.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/models.c -o FitnessLandscape/models.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c FitnessLandscape/verbose.c -o FitnessLandscape/verbose.o ar -r liblandscape.a FitnessLandscape/gamma.o FitnessLandscape/landscape.o FitnessLandscape/random.o FitnessLandscape/sort.o FitnessLandscape/chain.o FitnessLandscape/input.o FitnessLandscape/genotypes.o FitnessLandscape/ordered_pairs.o FitnessLandscape/calculus.o FitnessLandscape/vector.o FitnessLandscape/generalized_chain.o FitnessLandscape/LinearAlgebra.o FitnessLandscape/summary_statistics.o FitnessLandscape/epistasis_type.o FitnessLandscape/decomposition.o FitnessLandscape/models.o FitnessLandscape/verbose.o ; ar: creating archive liblandscape.a ranlib liblandscape.a; clang -mmacosx-version-min=10.13 -O -Wall -o fl_statistics -I/FitnessLandscape/. -L. FitnessLandscape/main_fl_statistics.c -llandscape -lm; clang -mmacosx-version-min=10.13 -O -Wall -o fl_generate -I/FitnessLandscape/. -L. FitnessLandscape/main_fl_generate.c -llandscape -lm; clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c BNB_nr.cpp -o BNB_nr.o clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c OncoSimulR_init.c -o OncoSimulR_init.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c accessible_genotypes.cpp -o accessible_genotypes.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c bnb_common.cpp -o bnb_common.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.2/Resources/library/Rcpp/include' -I/usr/local/include -fPIC -Wall -g -O2 -c new_restrict.cpp -o new_restrict.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o OncoSimulR.so BNB_nr.o OncoSimulR_init.o RcppExports.o accessible_genotypes.o bnb_common.o new_restrict.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing via 'install.libs.R' to /Library/Frameworks/R.framework/Versions/4.2/Resources/library/00LOCK-OncoSimulR/00new/OncoSimulR [1] "" Installing fl_statistics fl_generate to /Library/Frameworks/R.framework/Versions/4.2/Resources/library/00LOCK-OncoSimulR/00new/OncoSimulR/exec Installing library OncoSimulR.so to /Library/Frameworks/R.framework/Versions/4.2/Resources/library/00LOCK-OncoSimulR/00new/OncoSimulR/libs ** R ** data ** 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 ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (OncoSimulR)
OncoSimulR.Rcheck/tests/testthat.Rout
R version 4.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" Copyright (C) 2022 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin17.0 (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(OncoSimulR) > > test_check("OncoSimulR") Starting FDF-letter-fitness-order Thu Jun 23 21:39:40 2022 exprtk parser error: Error[00] Position: 00 Type: [ Syntax Error] Msg: ERR197 - Undefined symbol: 'n_2_3' Expression: n_2_3 exprtk parser error: Error[00] Position: 00 Type: [ Syntax Error] Msg: ERR197 - Undefined symbol: 'f_2_3' Expression: f_2_3 Ending FDF-small-fitness-specs Thu Jun 23 21:39:41 2022 Took 0.42 Starting LOD_POM at Thu Jun 23 21:39:41 2022 Ending LOD_POM at Thu Jun 23 21:40:00 2022 Took 19.31 Starting test.Z-all-fitness at Thu Jun 23 21:40:00 2022 Ending test.Z-all-fitness at Thu Jun 23 21:40:00 2022 Took 0.1 Starting test.Z-driver-counts at Thu Jun 23 21:40:00 2022 Ending test.Z-driver-counts at Thu Jun 23 21:40:00 2022 Took 0.17 Starting test.Z-fixation at Thu Jun 23 21:40:00 2022 Ending test.Z-fixation at Thu Jun 23 21:40:01 2022 Took 0.84 Starting test.Z-magellan at Thu Jun 23 21:40:01 2022 Ended test.Z-magellan at Thu Jun 23 21:40:03 2022 Starting test.Z-mutator at Thu Jun 23 21:40:03 2022 Ending test.Z-mutator at Thu Jun 23 21:40:03 2022 Took 0.32 Starting test.Z-mutatorFDF at Thu Jun 23 21:40:03 2022 Ending test.Z-mutatorFDF at Thu Jun 23 21:40:03 2022 Took 0.08 Starting test.Z-oncoSimulIndiv at Thu Jun 23 21:40:03 2022 Ending test.Z-oncoSimulIndiv at Thu Jun 23 21:40:05 2022 Took 1.57 Starting test.Z-oncoSimulIndivFDF at Thu Jun 23 21:40:05 2022 Ending test.Z-oncoSimulIndivFDF at Thu Jun 23 21:40:05 2022 Took 0.13 Starting test.Z-rfitness-landscape at Thu Jun 23 21:40:05 2022 Ending test.Z-rfitness-landscape at Thu Jun 23 21:40:05 2022 Took 0.12 Starting Z-sample-only-last tests Thu Jun 23 21:40:05 2022 Ending Z-sample-only-last tests Thu Jun 23 21:40:05 2022 Took 0 Starting Z-total-present-drivers tests Thu Jun 23 21:40:05 2022 Ending Z-total-present-drivers tests Thu Jun 23 21:40:07 2022 Took 1.24 Dummy empty test Thu Jun 23 21:40:07 2022 Starting accessible_genotypes at Thu Jun 23 21:40:07 2022 Ending accessible_genotypes at Thu Jun 23 21:40:12 2022 Took 5.66 Starting all fitness at Thu Jun 23 21:40:12 2022 Ending all-fitness at Thu Jun 23 21:40:17 2022 Took 4.73 Starting test.allFitnessEffectsFDF at Thu Jun 23 21:40:17 2022 Ending test.allFitnessEffectsFDF at Thu Jun 23 21:40:17 2022 Took 0.26 Starting test.allFitnessEffectsFDF at Thu Jun 23 21:40:17 2022 Ending test.allFitnessEffectsFDF at Thu Jun 23 21:40:18 2022 Took 0.27 Starting driverCounts at Thu Jun 23 21:40:18 2022 Ending driverCounts at Thu Jun 23 21:40:30 2022 Took 11.97 Starting epist-order-modules at Thu Jun 23 21:40:30 2022 Ending epist-order-modules at Thu Jun 23 21:40:30 2022 Took 0.03 Starting test.evaluatingGenotypesFDF at Thu Jun 23 21:40:30 2022 Ending test.evaluatingGenotypesFDF at Thu Jun 23 21:40:30 2022 Took 0.17 Starting exercise-plotting-code at Thu Jun 23 21:40:30 2022 Ending exercise-plotting-code at Thu Jun 23 21:40:39 2022 Took 8.83 Starting exercise-rfitness at Thu Jun 23 21:40:39 2022 Ending exercise-rfitness at Thu Jun 23 21:40:47 2022 Took 8.23 Starting to_Magella at Thu Jun 23 21:40:47 2022 Ending to_Magella at Thu Jun 23 21:40:47 2022 Took 0.03 Starting fitness preds at Thu Jun 23 21:40:47 2022 Observed vs expected, case III done tries 1 Ending fitness preds long at Thu Jun 23 21:41:02 2022 Took 15.45 Starting fixation at Thu Jun 23 21:41:02 2022 Ending fixation at Thu Jun 23 21:41:36 2022 Took 33.71 Starting test.flfast-additional.R test at Thu Jun 23 21:41:36 2022 Ending test.flfast-additional.R test at Thu Jun 23 21:41:38 2022 Took 1.79 Starting test.flfast-mutator.R test at Thu Jun 23 21:41:38 2022 Finished test.flfast-mutator.R test at Thu Jun 23 21:41:41 2022 Took 2.82 Starting genotFitness at Thu Jun 23 21:41:41 2022 Ending genotFitness at Thu Jun 23 21:41:41 2022 Took 0.14 Starting genot_fitness_to_epistasis at Thu Jun 23 21:41:41 2022 Ending genot_fitness_to_epistasis at Thu Jun 23 21:41:41 2022 Took 0.03 Starting init-mutant tests Thu Jun 23 21:41:41 2022 exprtk parser error: Error[00] Position: 18 Type: [ Syntax Error] Msg: ERR197 - Undefined symbol: 'f_2' Expression: 1.1 + 0.7*((f_1 + f_2) > 0.3) Ending init-mutant tests Thu Jun 23 21:41:51 2022 Took 10.16 Starting test.magellan at Thu Jun 23 21:41:51 2022 Ending test.magellan at Thu Jun 23 21:41:51 2022 Took 0.22 Starting test.modules-root-no-root at Thu Jun 23 21:41:51 2022 Ending test.modules-root-no-root at Thu Jun 23 21:41:51 2022 Took 0.06 Starting at mutPropGrowth Thu Jun 23 21:41:51 2022 Ended test.mutPropGrowth: Thu Jun 23 21:42:11 2022 Took 20.19 Starting test.mutator-oncoSimulSample.R test at Thu Jun 23 21:42:11 2022 Finished test.mutator-oncoSimulSample.R test at Thu Jun 23 21:42:23 2022 Took 11.62 seconds Starting test.mutator.R test at Thu Jun 23 21:42:23 2022[1] 2.138322e-10 [1] 6.398358e-13 Finished test.mutator.R test at Thu Jun 23 21:43:56 2022 Took 92.93 Starting test.mutatorFDF.R test at Thu Jun 23 21:43:56 2022 Starting test.no-v1 at Thu Jun 23 21:43:58 2022 Ending test.no-v1 at Thu Jun 23 21:43:58 2022 Took 0.02 Starting oncoSimulIndiv-miscell tests Thu Jun 23 21:43:58 2022 Ending oncoSimulIndiv-miscell tests Thu Jun 23 21:45:06 2022 Took 68.42 Starting oncoSimulSample-failures tests Thu Jun 23 21:45:06 2022 Ending oncoSimulSample-failures tests Thu Jun 23 21:45:11 2022 Took 4.13 Starting oncoSimulSample-limits tests Thu Jun 23 21:45:11 2022 Ending oncoSimulSample-limits tests Thu Jun 23 21:45:11 2022 Took 0.14 Starting per-gene-mutation rates at Thu Jun 23 21:45:11 2022 Ending per-gene-mutation rates at Thu Jun 23 21:46:00 2022 Took 49.09 Starting plotFitnessLandscape at Thu Jun 23 21:46:00 2022 Ending plotFitnessLandscape at Thu Jun 23 21:46:03 2022 Took 2.73 Starting poset-transformations tests Thu Jun 23 21:46:03 2022 Ending poset-transformations tests Thu Jun 23 21:46:10 2022 Took 7.41 Starting sample-prob Thu Jun 23 21:46:10 2022 [1] 6.560428e-27 [1] 3.425714e-16 [1] 2.474418e-08 [1] 1.273206e-11 [1] 1.42582e-13 [1] 2.486467e-12 [1] 1.464325e-11 [1] 3.41021e-15 [1] 8.947644e-09 [1] 2.297256e-09 [1] 8.716311e-12 [1] 7.014664e-10 Ending sample-prob tests Thu Jun 23 21:46:22 2022 Took 11.8 Starting samplePop tests Thu Jun 23 21:46:22 2022 Ending samplePop tests Thu Jun 23 21:46:40 2022 Took 17.7 Starting simuls-runs-examples tests Thu Jun 23 21:46:40 2022 Ending simuls-runs-examples tests Thu Jun 23 21:47:19 2022 Took 39.59 Starting warning-mutPropGrowth tests Thu Jun 23 21:47:19 2022 Ending warning-mutPropGrowth tests Thu Jun 23 21:47:20 2022 Took 1.26 Starting wide2long tests Thu Jun 23 21:47:20 2022 Ending wide2long tests Thu Jun 23 21:47:21 2022 Took 0.24 [ FAIL 0 | WARN 1 | SKIP 7 | PASS 8174 ] ══ Skipped tests ═══════════════════════════════════════════════════════════════ • On Mac (2) • empty test (5) [ FAIL 0 | WARN 1 | SKIP 7 | PASS 8174 ] > > proc.time() user system elapsed 365.885 129.132 464.568
OncoSimulR.Rcheck/OncoSimulR-Ex.timings
name | user | system | elapsed | |
OncoSimulWide2Long | 0.441 | 0.123 | 0.567 | |
POM | 1.038 | 0.154 | 0.776 | |
allFitnessEffects | 1.394 | 0.053 | 1.451 | |
benchmarks | 0.007 | 0.004 | 0.012 | |
evalAllGenotypes | 0.174 | 0.010 | 0.185 | |
example-missing-drivers | 0.198 | 0.014 | 0.213 | |
examplePosets | 0.311 | 0.011 | 0.322 | |
examplesFitnessEffects | 0.044 | 0.002 | 0.046 | |
freq-dep-simul-examples | 0.007 | 0.001 | 0.009 | |
mcfLs | 0.000 | 0.000 | 0.001 | |
oncoSimulIndiv | 2.707 | 0.764 | 2.910 | |
plot.fitnessEffects | 0.257 | 0.023 | 0.283 | |
plot.oncosimul | 0.694 | 0.100 | 0.798 | |
plotClonePhylog | 2.419 | 0.270 | 2.697 | |
plotFitnessLandscape | 1.078 | 0.011 | 1.095 | |
plotPoset | 0.107 | 0.006 | 0.115 | |
poset | 0.137 | 0.006 | 0.146 | |
rfitness | 0.671 | 0.013 | 1.054 | |
samplePop | 1.181 | 0.679 | 1.027 | |
simOGraph | 0.071 | 0.013 | 0.085 | |
to_Magellan | 0.190 | 0.062 | 0.852 | |