Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-08-18 11:41 -0400 (Mon, 18 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4824 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" | 4566 |
merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4604 |
kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4545 |
kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4579 |
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 915/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
graper 1.24.2 (landing page) Britta Velten
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino7 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
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: 1.24.2 |
Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:graper.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings graper_1.24.2.tar.gz |
StartedAt: 2025-08-15 02:51:53 -0400 (Fri, 15 Aug 2025) |
EndedAt: 2025-08-15 02:53:22 -0400 (Fri, 15 Aug 2025) |
EllapsedTime: 88.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: graper.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:graper.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings graper_1.24.2.tar.gz ### ############################################################################## ############################################################################## * using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/graper.Rcheck' * using R version 4.5.1 (2025-06-13 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'graper/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'graper' version '1.24.2' * 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 'graper' can be installed ... OK * used C++ compiler: 'G__~1.EXE (GCC) 14.2.0' * 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 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 for x64 is not available File 'E:/biocbuild/bbs-3.21-bioc/R/library/graper/libs/x64/graper.dll': Found '_exit', possibly from '_exit' (C) Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran) Found 'exit', possibly from 'exit' (C), 'stop' (Fortran) Compiled code should not call entry points which might terminate R nor write to stdout/stderr instead of to the console, nor use Fortran I/O nor system RNGs nor [v]sprintf. The detected symbols are linked into the code but might come from libraries and not actually be called. See 'Writing portable packages' in the 'Writing R Extensions' manual. * 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 running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See 'E:/biocbuild/bbs-3.21-bioc/meat/graper.Rcheck/00check.log' for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library' * installing *source* package 'graper' ... ** this is package 'graper' version '1.24.2' ** using staged installation ** libs using C++ compiler: 'G__~1.EXE (GCC) 14.2.0' g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppArmadillo/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/BH/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++17 -I"E:/biocbuild/bbs-3.21-bioc/R/include" -DNDEBUG -I'E:/biocbuild/bbs-3.21-bioc/R/library/Rcpp/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/RcppArmadillo/include' -I'E:/biocbuild/bbs-3.21-bioc/R/library/BH/include' -I"C:/rtools45/x86_64-w64-mingw32.static.posix/include" -O2 -Wall -mfpmath=sse -msse2 -mstackrealign -c fit_graper.cpp -o fit_graper.o g++ -std=gnu++17 -shared -s -static-libgcc -o graper.dll tmp.def RcppExports.o fit_graper.o -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lRlapack -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lRblas -lgfortran -lquadmath -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools45/x86_64-w64-mingw32.static.posix/lib -LE:/biocbuild/bbs-3.21-bioc/R/bin/x64 -lR installing to E:/biocbuild/bbs-3.21-bioc/R/library/00LOCK-graper/00new/graper/libs/x64 ** 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 ** 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 4.5.1 (2025-06-13 ucrt) -- "Great Square Root" Copyright (C) 2025 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 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=-866.69 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-570.543 ELB improved by 296.147 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-510.189 ELB improved by 60.354 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-468.766 ELB improved by 41.4223 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-449.816 ELB improved by 18.9503 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-442.137 ELB improved by 7.67929 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-437.481 ELB improved by 4.65551 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-433.659 ELB improved by 3.82222 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-430.098 ELB improved by 3.56112 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.671 ELB improved by 3.4271 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.457 ELB improved by 3.2136 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.627 ELB improved by 2.8305 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-418.319 ELB improved by 2.30784 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.562 ELB improved by 1.75723 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.28 ELB improved by 1.2819 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.354 ELB improved by 0.925513 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.671 ELB improved by 0.682874 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.144 ELB improved by 0.527482 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.713 ELB improved by 0.430551 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.343 ELB improved by 0.369898 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.012 ELB improved by 0.331364 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.705 ELB improved by 0.306679 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.414 ELB improved by 0.290991 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.133 ELB improved by 0.281238 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.858 ELB improved by 0.2753 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.586 ELB improved by 0.271601 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.317 ELB improved by 0.268954 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.051 ELB improved by 0.266496 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.787 ELB improved by 0.263665 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.527 ELB improved by 0.26018 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.271 ELB improved by 0.256004 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.02 ELB improved by 0.251287 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.773 ELB improved by 0.246295 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.532 ELB improved by 0.24134 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.295 ELB improved by 0.236715 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.063 ELB improved by 0.232658 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.833 ELB improved by 0.229328 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.606 ELB improved by 0.226828 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.381 ELB improved by 0.225239 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.156 ELB improved by 0.224689 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.931 ELB improved by 0.22544 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.703 ELB improved by 0.227986 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.47 ELB improved by 0.233205 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.227 ELB improved by 0.242546 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.969 ELB improved by 0.258164 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.687 ELB improved by 0.282004 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.376 ELB improved by 0.31093 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.048 ELB improved by 0.328437 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.733 ELB improved by 0.314604 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.456 ELB improved by 0.276809 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.217 ELB improved by 0.238886 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.006 ELB improved by 0.211038 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.814 ELB improved by 0.19232 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.634 ELB improved by 0.180299 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.46 ELB improved by 0.173426 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.29 ELB improved by 0.170472 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.12 ELB improved by 0.169941 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.95 ELB improved by 0.169961 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.782 ELB improved by 0.168374 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.619 ELB improved by 0.162537 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.469 ELB improved by 0.149733 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.34 ELB improved by 0.129628 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.234 ELB improved by 0.106034 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.15 ELB improved by 0.0840892 iteration 65 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.083 ELB improved by 0.0664739 iteration 66 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.03 ELB improved by 0.0531817 iteration 67 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.987 ELB improved by 0.0431822 iteration 68 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.951 ELB improved by 0.0355025 iteration 69 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.922 ELB improved by 0.0294834 iteration 70 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.897 ELB improved by 0.0247124 iteration 71 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.876 ELB improved by 0.0209178 iteration 72 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.858 ELB improved by 0.0179006 iteration 73 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.843 ELB improved by 0.0155017 iteration 74 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.829 ELB improved by 0.0135895 iteration 75 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.817 ELB improved by 0.0120557 iteration 76 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.806 ELB improved by 0.0108132 iteration 77 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.796 ELB improved by 0.00979376 ELB converged iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-874.169 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-572.07 ELB improved by 302.098 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-510.349 ELB improved by 61.7208 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-474.565 ELB improved by 35.7847 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-460.92 ELB improved by 13.6447 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-455.22 ELB improved by 5.69967 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-451.186 ELB improved by 4.03392 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.474 ELB improved by 3.71246 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-443.712 ELB improved by 3.76161 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-439.753 ELB improved by 3.9591 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-435.579 ELB improved by 4.17399 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-431.34 ELB improved by 4.23975 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.368 ELB improved by 3.97191 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.018 ELB improved by 3.34982 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-421.432 ELB improved by 2.58605 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-419.535 ELB improved by 1.89648 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-418.19 ELB improved by 1.34554 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.251 ELB improved by 0.938999 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.577 ELB improved by 0.673602 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.06 ELB improved by 0.516781 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.632 ELB improved by 0.427967 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.254 ELB improved by 0.378195 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.904 ELB improved by 0.350635 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.567 ELB improved by 0.336161 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.238 ELB improved by 0.329912 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.908 ELB improved by 0.32931 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.575 ELB improved by 0.333021 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.235 ELB improved by 0.340361 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.884 ELB improved by 0.35081 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.521 ELB improved by 0.363405 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.145 ELB improved by 0.376066 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.759 ELB improved by 0.385445 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.371 ELB improved by 0.388017 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.989 ELB improved by 0.381769 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.622 ELB improved by 0.36693 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.277 ELB improved by 0.345687 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.955 ELB improved by 0.321319 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.659 ELB improved by 0.296812 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.385 ELB improved by 0.273984 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.131 ELB improved by 0.25357 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.895 ELB improved by 0.235673 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.675 ELB improved by 0.220096 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.469 ELB improved by 0.206529 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.274 ELB improved by 0.194649 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.09 ELB improved by 0.184186 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.915 ELB improved by 0.174976 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.748 ELB improved by 0.167037 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.587 ELB improved by 0.160671 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.431 ELB improved by 0.156682 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.274 ELB improved by 0.156776 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.11 ELB improved by 0.164202 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.926 ELB improved by 0.183781 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.709 ELB improved by 0.217157 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.459 ELB improved by 0.249222 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.207 ELB improved by 0.252034 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.979 ELB improved by 0.228067 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.768 ELB improved by 0.211442 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.534 ELB improved by 0.234304 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.209 ELB improved by 0.324137 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.75 ELB improved by 0.459278 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.259 ELB improved by 0.490718 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.877 ELB improved by 0.382588 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.61 ELB improved by 0.266773 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.421 ELB improved by 0.18856 iteration 65 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.282 ELB improved by 0.139005 iteration 66 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.174 ELB improved by 0.108415 iteration 67 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.083 ELB improved by 0.0910919 iteration 68 Updating parameters of variational distributions... Calculating ELB.. ELB=-403 ELB improved by 0.0831917 iteration 69 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.918 ELB improved by 0.0814538 iteration 70 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.836 ELB improved by 0.0820306 iteration 71 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.757 ELB improved by 0.0796956 iteration 72 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.687 ELB improved by 0.0699851 iteration 73 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.632 ELB improved by 0.0541884 iteration 74 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.594 ELB improved by 0.0387589 iteration 75 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.566 ELB improved by 0.0280583 iteration 76 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.544 ELB improved by 0.0219446 iteration 77 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.525 ELB improved by 0.0187128 iteration 78 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.508 ELB improved by 0.0170494 iteration 79 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.492 ELB improved by 0.0162287 iteration 80 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.476 ELB improved by 0.0158712 iteration 81 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.46 ELB improved by 0.0157606 iteration 82 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.444 ELB improved by 0.0157525 iteration 83 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.429 ELB improved by 0.0157333 iteration 84 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.413 ELB improved by 0.0156083 iteration 85 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.398 ELB improved by 0.0153034 iteration 86 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.383 ELB improved by 0.014775 iteration 87 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.369 ELB improved by 0.0140179 iteration 88 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.356 ELB improved by 0.0130646 iteration 89 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.344 ELB improved by 0.0119763 iteration 90 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.333 ELB improved by 0.0108266 iteration 91 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.323 ELB improved by 0.00968556 ELB converged iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-878.412 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-563.961 ELB improved by 314.451 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-505.22 ELB improved by 58.7403 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-474.504 ELB improved by 30.7168 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-462.106 ELB improved by 12.398 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-456.888 ELB improved by 5.21805 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-453.712 ELB improved by 3.17586 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-451.074 ELB improved by 2.6377 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-448.652 ELB improved by 2.42227 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.345 ELB improved by 2.30688 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-444.108 ELB improved by 2.23722 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-441.921 ELB improved by 2.18671 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-439.788 ELB improved by 2.13337 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-437.729 ELB improved by 2.05889 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-435.779 ELB improved by 1.94928 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-433.997 ELB improved by 1.78238 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-432.474 ELB improved by 1.52336 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-431.292 ELB improved by 1.18141 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-430.451 ELB improved by 0.84147 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-429.871 ELB improved by 0.5796 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-429.463 ELB improved by 0.408154 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-429.159 ELB improved by 0.303842 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.918 ELB improved by 0.241206 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.715 ELB improved by 0.203119 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.535 ELB improved by 0.179767 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.369 ELB improved by 0.165782 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.211 ELB improved by 0.158241 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.055 ELB improved by 0.15557 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.898 ELB improved by 0.156995 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.736 ELB improved by 0.162268 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.565 ELB improved by 0.171539 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.379 ELB improved by 0.185287 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.175 ELB improved by 0.204271 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.946 ELB improved by 0.229417 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.684 ELB improved by 0.261549 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.383 ELB improved by 0.300954 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.036 ELB improved by 0.347039 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.637 ELB improved by 0.398643 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.182 ELB improved by 0.455028 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.666 ELB improved by 0.516402 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.083 ELB improved by 0.583278 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.427 ELB improved by 0.655625 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-422.694 ELB improved by 0.73273 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-421.881 ELB improved by 0.813431 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.985 ELB improved by 0.895728 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.01 ELB improved by 0.975013 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-418.968 ELB improved by 1.04242 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.879 ELB improved by 1.08837 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.762 ELB improved by 1.11712 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.59 ELB improved by 1.17271 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.227 ELB improved by 1.36258 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.467 ELB improved by 1.75998 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.595 ELB improved by 1.87223 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.325 ELB improved by 1.27028 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.627 ELB improved by 0.697819 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.233 ELB improved by 0.393661 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.989 ELB improved by 0.243953 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.823 ELB improved by 0.166112 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.701 ELB improved by 0.121696 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.607 ELB improved by 0.0939334 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.532 ELB improved by 0.0752227 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.47 ELB improved by 0.0618555 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.418 ELB improved by 0.0518781 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.374 ELB improved by 0.0441845 iteration 65 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.336 ELB improved by 0.0381066 iteration 66 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.303 ELB improved by 0.0332158 iteration 67 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.274 ELB improved by 0.0292229 iteration 68 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.248 ELB improved by 0.0259241 iteration 69 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.225 ELB improved by 0.0231716 iteration 70 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.204 ELB improved by 0.020855 iteration 71 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.185 ELB improved by 0.0188908 iteration 72 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.168 ELB improved by 0.0172149 iteration 73 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.152 ELB improved by 0.0157775 iteration 74 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.137 ELB improved by 0.0145397 iteration 75 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.124 ELB improved by 0.0134709 iteration 76 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.111 ELB improved by 0.0125471 iteration 77 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.1 ELB improved by 0.0117492 iteration 78 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.088 ELB improved by 0.0110626 iteration 79 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.078 ELB improved by 0.0104757 iteration 80 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.068 ELB improved by 0.00997989 ELB converged iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-851.55 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-567.301 ELB improved by 284.25 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-507.806 ELB improved by 59.4942 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-470.123 ELB improved by 37.6838 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-453.205 ELB improved by 16.9179 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-445.923 ELB improved by 7.28131 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-442.072 ELB improved by 3.85086 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-439.435 ELB improved by 2.63751 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-437.266 ELB improved by 2.16857 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-435.313 ELB improved by 1.95378 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-433.49 ELB improved by 1.82286 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-431.777 ELB improved by 1.71322 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-430.175 ELB improved by 1.60169 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.696 ELB improved by 1.47848 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.355 ELB improved by 1.34092 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.161 ELB improved by 1.19412 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.111 ELB improved by 1.05067 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.185 ELB improved by 0.925404 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.358 ELB improved by 0.827646 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-422.599 ELB improved by 0.758278 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-421.887 ELB improved by 0.712761 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-421.201 ELB improved by 0.685601 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.528 ELB improved by 0.672637 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-419.857 ELB improved by 0.671137 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-419.178 ELB improved by 0.679198 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-418.483 ELB improved by 0.695237 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.765 ELB improved by 0.717682 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.02 ELB improved by 0.74481 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.246 ELB improved by 0.774067 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-415.448 ELB improved by 0.79831 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.65 ELB improved by 0.798319 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.901 ELB improved by 0.74839 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.253 ELB improved by 0.648163 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.724 ELB improved by 0.528534 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.306 ELB improved by 0.418722 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.974 ELB improved by 0.331784 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.704 ELB improved by 0.270363 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.469 ELB improved by 0.234231 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.244 ELB improved by 0.225881 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.991 ELB improved by 0.252628 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.675 ELB improved by 0.31545 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.292 ELB improved by 0.3832 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.871 ELB improved by 0.421099 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.438 ELB improved by 0.433032 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.024 ELB improved by 0.41453 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.628 ELB improved by 0.395698 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.214 ELB improved by 0.41386 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.773 ELB improved by 0.440688 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.356 ELB improved by 0.41768 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.026 ELB improved by 0.329355 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.804 ELB improved by 0.222507 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.663 ELB improved by 0.140674 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.572 ELB improved by 0.0908415 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.509 ELB improved by 0.0629955 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.462 ELB improved by 0.0473218 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.424 ELB improved by 0.0379377 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.392 ELB improved by 0.0318252 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.365 ELB improved by 0.0274979 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.34 ELB improved by 0.0242151 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.319 ELB improved by 0.0215931 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.299 ELB improved by 0.0194221 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.282 ELB improved by 0.01758 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.266 ELB improved by 0.0159908 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.251 ELB improved by 0.014604 iteration 65 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.238 ELB improved by 0.0133837 iteration 66 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.226 ELB improved by 0.0123036 iteration 67 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.214 ELB improved by 0.0113429 iteration 68 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.204 ELB improved by 0.0104854 iteration 69 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.194 ELB improved by 0.00971742 ELB converged [ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ] > > proc.time() user system elapsed 2.96 0.28 3.25
graper.Rcheck/graper-Ex.timings
name | user | system | elapsed | |
coef.graper | 0.05 | 0.01 | 0.06 | |
getPIPs | 0.04 | 0.01 | 0.07 | |
graper | 0.09 | 0.02 | 0.11 | |
makeExampleData | 0.02 | 0.00 | 0.02 | |
makeExampleDataWithUnequalGroups | 0.01 | 0.00 | 0.01 | |
plotELBO | 0.22 | 0.00 | 0.22 | |
plotGroupPenalties | 0.72 | 0.03 | 0.75 | |
plotPosterior | 0.59 | 0.00 | 0.59 | |
predict.graper | 1.97 | 0.05 | 2.02 | |
print.graper | 0.07 | 0.00 | 0.06 | |