Back to Multiple platform build/check report for BioC 3.19: simplified long |
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This page was generated on 2024-05-04 11:36:38 -0400 (Sat, 04 May 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4753 |
palomino3 | Windows Server 2022 Datacenter | x64 | 4.4.0 beta (2024-04-15 r86425 ucrt) -- "Puppy Cup" | 4486 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.0 beta (2024-04-14 r86421) -- "Puppy Cup" | 4519 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" | 4479 |
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 |
Package 908/2300 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
graper 1.20.0 (landing page) Britta Velten
| nebbiolo1 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | WARNINGS | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | see weekly results here | ||||||||||||
To the developers/maintainers of the graper package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/graper.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: graper |
Version: 1.20.0 |
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings graper_1.20.0.tar.gz |
StartedAt: 2024-05-03 23:51:52 -0400 (Fri, 03 May 2024) |
EndedAt: 2024-05-03 23:53:14 -0400 (Fri, 03 May 2024) |
EllapsedTime: 81.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: graper.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings graper_1.20.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/graper.Rcheck’ * using R version 4.4.0 beta (2024-04-15 r86425) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0 * running under: Ubuntu 22.04.4 LTS * using session charset: UTF-8 * checking for file ‘graper/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘graper’ version ‘1.20.0’ * 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 for sufficient/correct file permissions ... OK * checking whether package ‘graper’ can be installed ... OK * used C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ * checking C++ specification ... NOTE Specified C++11: please drop specification unless essential * 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 code 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 loading without being on the library search path ... 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 ... NOTE checkRd: (-1) predict.graper.Rd:19-21: Lost braces in \itemize; meant \describe ? checkRd: (-1) predict.graper.Rd:22: Lost braces in \itemize; meant \describe ? checkRd: (-1) predict.graper.Rd:23-24: Lost braces in \itemize; meant \describe ? * 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 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 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 ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: 3 NOTEs See ‘/home/biocbuild/bbs-3.19-bioc/meat/graper.Rcheck/00check.log’ for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’ * installing *source* package ‘graper’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’ using C++11 g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I/usr/local/include -fpic -g -O2 -Wall -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I/usr/local/include -fpic -g -O2 -Wall -c fit_graper.cpp -o fit_graper.o In file included from /home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include/boost/math/special_functions/detail/round_fwd.hpp:11, from /home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include/boost/math/special_functions/math_fwd.hpp:29, from /home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include/boost/math/special_functions/digamma.hpp:15, from graper_linear_dense_ff.h:2, from fit_graper.cpp:4: /home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp] 23 | # warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" | ^~~~~~~ g++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.19-bioc/R/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -llapack -L/home/biocbuild/bbs-3.19-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.19-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.19-bioc/R/site-library/00LOCK-graper/00new/graper/libs ** R ** 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 (graper)
graper.Rcheck/tests/testthat.Rout
R version 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu 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(graper) > > test_check("graper") iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-851.116 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-583.216 ELB improved by 267.901 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-524.14 ELB improved by 59.0759 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-479.046 ELB improved by 45.0937 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-456.716 ELB improved by 22.3301 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-448.676 ELB improved by 8.04006 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-445.228 ELB improved by 3.44765 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-443.143 ELB improved by 2.08546 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-441.578 ELB improved by 1.56418 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-440.251 ELB improved by 1.32718 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-439.039 ELB improved by 1.21203 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-437.881 ELB improved by 1.15792 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-436.74 ELB improved by 1.14149 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-435.585 ELB improved by 1.15458 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-434.391 ELB improved by 1.19457 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-433.132 ELB improved by 1.2591 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-431.789 ELB improved by 1.34251 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-430.356 ELB improved by 1.43349 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.839 ELB improved by 1.5162 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.262 ELB improved by 1.57704 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.647 ELB improved by 1.61507 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.999 ELB improved by 1.64849 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-422.291 ELB improved by 1.70781 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.496 ELB improved by 1.79466 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-418.653 ELB improved by 1.84315 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.842 ELB improved by 1.81162 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.109 ELB improved by 1.73206 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.478 ELB improved by 1.6317 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.956 ELB improved by 1.52143 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.55 ELB improved by 1.40625 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.264 ELB improved by 1.28591 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.106 ELB improved by 1.15811 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.083 ELB improved by 1.02292 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.199 ELB improved by 0.884328 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.45 ELB improved by 0.748722 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.827 ELB improved by 0.623009 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.313 ELB improved by 0.513705 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.888 ELB improved by 0.425242 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.531 ELB improved by 0.357105 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.228 ELB improved by 0.303191 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.972 ELB improved by 0.255843 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.761 ELB improved by 0.211427 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.589 ELB improved by 0.171104 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.452 ELB improved by 0.137052 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.343 ELB improved by 0.109864 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.254 ELB improved by 0.0887419 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.181 ELB improved by 0.072473 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.121 ELB improved by 0.0599496 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.071 ELB improved by 0.0502786 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.028 ELB improved by 0.0427552 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.992 ELB improved by 0.0368299 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.959 ELB improved by 0.0320864 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.931 ELB improved by 0.0282198 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.906 ELB improved by 0.0250126 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.884 ELB improved by 0.022312 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.864 ELB improved by 0.0200098 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.846 ELB improved by 0.0180285 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.83 ELB improved by 0.0163108 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.815 ELB improved by 0.0148133 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.801 ELB improved by 0.013502 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.789 ELB improved by 0.0123495 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.778 ELB improved by 0.0113333 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.767 ELB improved by 0.0104349 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.757 ELB improved by 0.00963853 ELB converged iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-882.752 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-587.804 ELB improved by 294.947 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-526.346 ELB improved by 61.4576 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-486.105 ELB improved by 40.2417 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-467.971 ELB improved by 18.1336 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-460.796 ELB improved by 7.17489 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-456.626 ELB improved by 4.17029 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-453.05 ELB improved by 3.57565 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-449.542 ELB improved by 3.50828 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-445.923 ELB improved by 3.61909 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-442.172 ELB improved by 3.75092 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-438.452 ELB improved by 3.72026 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-435.093 ELB improved by 3.35894 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-432.41 ELB improved by 2.68323 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-430.477 ELB improved by 1.93255 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-429.139 ELB improved by 1.33779 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.187 ELB improved by 0.951934 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.469 ELB improved by 0.718306 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.894 ELB improved by 0.574634 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.41 ELB improved by 0.484399 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.981 ELB improved by 0.428763 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.585 ELB improved by 0.396295 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.206 ELB improved by 0.379364 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.832 ELB improved by 0.373162 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.458 ELB improved by 0.374835 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.075 ELB improved by 0.382598 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.68 ELB improved by 0.395081 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.269 ELB improved by 0.411063 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-422.839 ELB improved by 0.429647 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-422.389 ELB improved by 0.450528 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-421.915 ELB improved by 0.473712 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-421.416 ELB improved by 0.49871 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.892 ELB improved by 0.524297 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.342 ELB improved by 0.549618 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-419.767 ELB improved by 0.575314 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-419.164 ELB improved by 0.60276 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-418.533 ELB improved by 0.631706 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.875 ELB improved by 0.657469 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.204 ELB improved by 0.671527 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.533 ELB improved by 0.670681 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.87 ELB improved by 0.662494 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.213 ELB improved by 0.657509 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.547 ELB improved by 0.665785 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.849 ELB improved by 0.698255 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.103 ELB improved by 0.74612 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.363 ELB improved by 0.739918 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.725 ELB improved by 0.638264 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.215 ELB improved by 0.509807 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.83 ELB improved by 0.385178 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.56 ELB improved by 0.269336 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.378 ELB improved by 0.182558 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.25 ELB improved by 0.127617 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.156 ELB improved by 0.0940792 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.083 ELB improved by 0.0729317 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.024 ELB improved by 0.0588367 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.975 ELB improved by 0.048849 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.934 ELB improved by 0.041366 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.898 ELB improved by 0.0355137 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.868 ELB improved by 0.0308025 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.841 ELB improved by 0.0269422 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.817 ELB improved by 0.0237456 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.796 ELB improved by 0.0210803 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.777 ELB improved by 0.0188454 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.76 ELB improved by 0.0169608 iteration 65 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.745 ELB improved by 0.0153614 iteration 66 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.731 ELB improved by 0.0139945 iteration 67 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.718 ELB improved by 0.0128174 iteration 68 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.706 ELB improved by 0.0117959 iteration 69 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.695 ELB improved by 0.0109027 iteration 70 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.685 ELB improved by 0.0101157 iteration 71 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.676 ELB improved by 0.00941753 ELB converged iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-881.222 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-579.139 ELB improved by 302.083 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-517.315 ELB improved by 61.8237 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-475.014 ELB improved by 42.3005 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-457.049 ELB improved by 17.9659 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-450.247 ELB improved by 6.80168 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-445.73 ELB improved by 4.51722 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-441.636 ELB improved by 4.09371 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-437.475 ELB improved by 4.16132 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-433.009 ELB improved by 4.46602 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.193 ELB improved by 4.81522 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.242 ELB improved by 4.95173 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-418.629 ELB improved by 4.61243 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.854 ELB improved by 3.77489 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.128 ELB improved by 2.72678 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.335 ELB improved by 1.7927 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.205 ELB improved by 1.13022 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.47 ELB improved by 0.734575 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.952 ELB improved by 0.518341 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.552 ELB improved by 0.399798 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.222 ELB improved by 0.330233 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.937 ELB improved by 0.284531 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.687 ELB improved by 0.250082 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.466 ELB improved by 0.221081 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.27 ELB improved by 0.195769 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.096 ELB improved by 0.174222 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.939 ELB improved by 0.156603 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.797 ELB improved by 0.142542 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.666 ELB improved by 0.131354 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.543 ELB improved by 0.122364 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.428 ELB improved by 0.115045 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.319 ELB improved by 0.10902 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.215 ELB improved by 0.104016 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.115 ELB improved by 0.0998342 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.019 ELB improved by 0.0963189 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.926 ELB improved by 0.0933482 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.835 ELB improved by 0.0908245 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.746 ELB improved by 0.0886692 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.659 ELB improved by 0.0868202 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.574 ELB improved by 0.0852294 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.49 ELB improved by 0.0838616 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.408 ELB improved by 0.0826933 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.326 ELB improved by 0.0817113 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.245 ELB improved by 0.0809122 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.165 ELB improved by 0.0803007 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.085 ELB improved by 0.0798894 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.005 ELB improved by 0.0796975 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.925 ELB improved by 0.0797503 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.845 ELB improved by 0.0800791 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.764 ELB improved by 0.0807218 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.683 ELB improved by 0.0817242 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.6 ELB improved by 0.0831429 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.515 ELB improved by 0.0850489 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.427 ELB improved by 0.0875343 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.336 ELB improved by 0.0907197 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.242 ELB improved by 0.0947649 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.142 ELB improved by 0.0998798 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.035 ELB improved by 0.106335 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.921 ELB improved by 0.114467 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.796 ELB improved by 0.124674 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.659 ELB improved by 0.137395 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.506 ELB improved by 0.153012 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.334 ELB improved by 0.171544 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.142 ELB improved by 0.191802 iteration 65 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.932 ELB improved by 0.210124 iteration 66 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.712 ELB improved by 0.220625 iteration 67 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.492 ELB improved by 0.219331 iteration 68 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.284 ELB improved by 0.208213 iteration 69 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.091 ELB improved by 0.192641 iteration 70 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.915 ELB improved by 0.176463 iteration 71 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.754 ELB improved by 0.161004 iteration 72 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.608 ELB improved by 0.146381 iteration 73 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.475 ELB improved by 0.132476 iteration 74 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.356 ELB improved by 0.119236 iteration 75 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.249 ELB improved by 0.106697 iteration 76 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.154 ELB improved by 0.0949423 iteration 77 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.07 ELB improved by 0.0840608 iteration 78 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.996 ELB improved by 0.0741127 iteration 79 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.931 ELB improved by 0.0651196 iteration 80 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.874 ELB improved by 0.0570654 iteration 81 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.824 ELB improved by 0.0499063 iteration 82 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.78 ELB improved by 0.0435823 iteration 83 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.742 ELB improved by 0.0380253 iteration 84 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.709 ELB improved by 0.0331654 iteration 85 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.68 ELB improved by 0.0289336 iteration 86 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.655 ELB improved by 0.0252626 iteration 87 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.633 ELB improved by 0.0220884 iteration 88 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.614 ELB improved by 0.0193503 iteration 89 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.597 ELB improved by 0.0169919 iteration 90 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.582 ELB improved by 0.0149621 iteration 91 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.568 ELB improved by 0.013215 iteration 92 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.557 ELB improved by 0.0117103 iteration 93 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.546 ELB improved by 0.0104131 iteration 94 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.537 ELB improved by 0.00929314 ELB converged iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-836.977 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-610.542 ELB improved by 226.435 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-550.77 ELB improved by 59.7718 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-498.544 ELB improved by 52.2264 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-468.376 ELB improved by 30.1675 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-456.046 ELB improved by 12.3302 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-449.835 ELB improved by 6.21071 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-445.311 ELB improved by 4.52461 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-441.387 ELB improved by 3.92392 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-437.878 ELB improved by 3.5088 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-434.853 ELB improved by 3.02526 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-432.404 ELB improved by 2.44819 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-430.562 ELB improved by 1.84246 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-429.26 ELB improved by 1.30141 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.355 ELB improved by 0.905847 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.699 ELB improved by 0.65534 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.194 ELB improved by 0.50493 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.78 ELB improved by 0.414288 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.422 ELB improved by 0.358231 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.099 ELB improved by 0.32257 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.8 ELB improved by 0.299356 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.516 ELB improved by 0.284057 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.242 ELB improved by 0.274204 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.973 ELB improved by 0.268743 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.705 ELB improved by 0.267564 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.434 ELB improved by 0.27109 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.154 ELB improved by 0.280092 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.858 ELB improved by 0.295746 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.539 ELB improved by 0.319583 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.186 ELB improved by 0.352739 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-422.792 ELB improved by 0.393963 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-422.354 ELB improved by 0.437701 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-421.878 ELB improved by 0.4761 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-421.374 ELB improved by 0.504623 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.85 ELB improved by 0.524 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.313 ELB improved by 0.537089 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-419.767 ELB improved by 0.546076 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-419.215 ELB improved by 0.551911 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-418.66 ELB improved by 0.554434 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-418.108 ELB improved by 0.552222 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.565 ELB improved by 0.542693 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.042 ELB improved by 0.523339 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.548 ELB improved by 0.493899 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.09 ELB improved by 0.457764 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.669 ELB improved by 0.421149 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.279 ELB improved by 0.38976 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.916 ELB improved by 0.363849 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.579 ELB improved by 0.336136 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.281 ELB improved by 0.298151 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.032 ELB improved by 0.248879 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.836 ELB improved by 0.196013 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.686 ELB improved by 0.149945 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.57 ELB improved by 0.116567 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.473 ELB improved by 0.0967523 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.383 ELB improved by 0.0903747 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.283 ELB improved by 0.0992193 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.159 ELB improved by 0.124966 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.003 ELB improved by 0.15546 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.847 ELB improved by 0.155847 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.732 ELB improved by 0.115646 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.662 ELB improved by 0.0696934 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.622 ELB improved by 0.0401638 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.597 ELB improved by 0.0250747 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.579 ELB improved by 0.0177965 iteration 65 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.565 ELB improved by 0.0141033 iteration 66 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.553 ELB improved by 0.0119809 iteration 67 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.542 ELB improved by 0.0105686 iteration 68 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.533 ELB improved by 0.00951091 ELB converged [ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ] > > proc.time() user system elapsed 2.135 0.169 2.293
graper.Rcheck/graper-Ex.timings
name | user | system | elapsed | |
coef.graper | 0.058 | 0.013 | 0.070 | |
getPIPs | 0.056 | 0.006 | 0.063 | |
graper | 0.079 | 0.028 | 0.107 | |
makeExampleData | 0.007 | 0.004 | 0.011 | |
makeExampleDataWithUnequalGroups | 0.009 | 0.004 | 0.013 | |
plotELBO | 0.219 | 0.032 | 0.251 | |
plotGroupPenalties | 0.844 | 0.044 | 0.888 | |
plotPosterior | 0.463 | 0.015 | 0.479 | |
predict.graper | 2.058 | 0.071 | 2.130 | |
print.graper | 0.051 | 0.012 | 0.063 | |