Back to Multiple platform build/check report for BioC 3.13 |
|
This page was generated on 2021-10-15 15:06:38 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the graper package: - Please 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 How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 804/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
graper 1.8.0 (landing page) Britta Velten
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: graper |
Version: 1.8.0 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings graper_1.8.0.tar.gz |
StartedAt: 2021-10-14 19:45:30 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 19:46:48 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 77.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: graper.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings graper_1.8.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/graper.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘graper/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘graper’ version ‘1.8.0’ * 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 ... NOTE Found the following hidden files and directories: .git_fetch_output.txt .git_merge_output.txt These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘graper’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking 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 in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 2 NOTEs See ‘/Users/biocbuild/bbs-3.13-bioc/meat/graper.Rcheck/00check.log’ for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘graper’ ... ** using staged installation ** libs clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c RcppExports.cpp -o RcppExports.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include' -I/usr/local/include -fPIC -Wall -g -O2 -c fit_graper.cpp -o fit_graper.o clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation installing to /Library/Frameworks/R.framework/Versions/4.1/Resources/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 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin17.0 (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > library(graper) > > test_check("graper") iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-892.34 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-574.099 ELB improved by 318.241 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-509.682 ELB improved by 64.4169 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-467.011 ELB improved by 42.6706 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-448.881 ELB improved by 18.1305 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-441.202 ELB improved by 7.67881 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-436.582 ELB improved by 4.62002 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-433.251 ELB improved by 3.33074 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-430.543 ELB improved by 2.7078 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.085 ELB improved by 2.45799 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.654 ELB improved by 2.43144 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.101 ELB improved by 2.55283 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-420.315 ELB improved by 2.78661 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.217 ELB improved by 3.09739 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.827 ELB improved by 3.38997 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.344 ELB improved by 3.4832 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.098 ELB improved by 3.24574 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.341 ELB improved by 2.75687 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.125 ELB improved by 2.21625 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.39 ELB improved by 1.73485 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.085 ELB improved by 1.30486 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-398.149 ELB improved by 0.935917 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-397.493 ELB improved by 0.65646 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-397.027 ELB improved by 0.466235 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-396.68 ELB improved by 0.346561 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-396.406 ELB improved by 0.273988 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-396.177 ELB improved by 0.229658 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-395.975 ELB improved by 0.20175 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-395.791 ELB improved by 0.183665 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-395.619 ELB improved by 0.171846 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-395.455 ELB improved by 0.164369 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-395.295 ELB improved by 0.160174 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-395.136 ELB improved by 0.15867 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-394.977 ELB improved by 0.159538 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-394.814 ELB improved by 0.162632 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-394.646 ELB improved by 0.167927 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-394.47 ELB improved by 0.175503 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-394.285 ELB improved by 0.185539 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-394.087 ELB improved by 0.198307 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-393.872 ELB improved by 0.214178 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-393.639 ELB improved by 0.233579 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-393.382 ELB improved by 0.256891 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-393.098 ELB improved by 0.284233 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-392.783 ELB improved by 0.315188 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-392.434 ELB improved by 0.348747 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-392.05 ELB improved by 0.383891 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-391.629 ELB improved by 0.420641 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-391.169 ELB improved by 0.460235 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-390.666 ELB improved by 0.503021 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-390.121 ELB improved by 0.544595 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-389.547 ELB improved by 0.574404 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-388.965 ELB improved by 0.581648 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-388.402 ELB improved by 0.56321 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-387.878 ELB improved by 0.524434 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-387.402 ELB improved by 0.47573 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-386.972 ELB improved by 0.430068 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-386.57 ELB improved by 0.401847 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-386.163 ELB improved by 0.407438 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.704 ELB improved by 0.458351 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.19 ELB improved by 0.514075 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-384.723 ELB improved by 0.467486 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-384.387 ELB improved by 0.335351 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-384.167 ELB improved by 0.220658 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-384.019 ELB improved by 0.147555 iteration 65 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.916 ELB improved by 0.103192 iteration 66 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.841 ELB improved by 0.0753701 iteration 67 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.784 ELB improved by 0.0569088 iteration 68 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.74 ELB improved by 0.0439965 iteration 69 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.705 ELB improved by 0.034625 iteration 70 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.677 ELB improved by 0.0276745 iteration 71 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.655 ELB improved by 0.0224569 iteration 72 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.636 ELB improved by 0.0185085 iteration 73 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.621 ELB improved by 0.0154981 iteration 74 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.608 ELB improved by 0.013184 iteration 75 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.596 ELB improved by 0.0113882 iteration 76 Updating parameters of variational distributions... Calculating ELB.. ELB=-383.586 ELB improved by 0.00998015 ELB converged iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-831.637 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-579.575 ELB improved by 252.062 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-514.618 ELB improved by 64.9572 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-465.402 ELB improved by 49.2163 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-440.256 ELB improved by 25.1454 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-429.886 ELB improved by 10.3709 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.639 ELB improved by 5.24677 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-421.579 ELB improved by 3.05995 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-419.45 ELB improved by 2.12832 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-417.736 ELB improved by 1.71476 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-416.243 ELB improved by 1.49246 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-414.902 ELB improved by 1.34168 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-413.679 ELB improved by 1.22266 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-412.555 ELB improved by 1.12434 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-411.511 ELB improved by 1.04342 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-410.535 ELB improved by 0.976314 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-409.618 ELB improved by 0.916716 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-408.762 ELB improved by 0.855822 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.977 ELB improved by 0.78506 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-407.277 ELB improved by 0.700247 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.673 ELB improved by 0.604417 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-406.166 ELB improved by 0.506592 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.749 ELB improved by 0.417086 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.406 ELB improved by 0.343017 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-405.119 ELB improved by 0.286805 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.872 ELB improved by 0.247305 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.65 ELB improved by 0.221704 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.443 ELB improved by 0.206925 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.243 ELB improved by 0.20031 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-404.043 ELB improved by 0.199803 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.839 ELB improved by 0.203888 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.628 ELB improved by 0.211456 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.406 ELB improved by 0.221679 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-403.172 ELB improved by 0.233936 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.924 ELB improved by 0.247823 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.661 ELB improved by 0.263213 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.381 ELB improved by 0.280384 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-402.081 ELB improved by 0.300143 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.757 ELB improved by 0.323937 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.403 ELB improved by 0.353892 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-401.01 ELB improved by 0.392691 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.567 ELB improved by 0.4431 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-400.06 ELB improved by 0.506827 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-399.477 ELB improved by 0.582728 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-398.812 ELB improved by 0.665156 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-398.068 ELB improved by 0.744061 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-397.259 ELB improved by 0.809139 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-396.404 ELB improved by 0.854557 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-395.53 ELB improved by 0.874466 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-394.668 ELB improved by 0.861508 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-393.848 ELB improved by 0.820377 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-393.08 ELB improved by 0.767976 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-392.372 ELB improved by 0.708041 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-391.748 ELB improved by 0.6238 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-391.237 ELB improved by 0.511241 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-390.843 ELB improved by 0.394516 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-390.545 ELB improved by 0.297924 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-390.315 ELB improved by 0.229583 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-390.127 ELB improved by 0.188318 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-389.953 ELB improved by 0.173431 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-389.762 ELB improved by 0.191694 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-389.5 ELB improved by 0.261814 iteration 63 Updating parameters of variational distributions... Calculating ELB.. ELB=-389.103 ELB improved by 0.396444 iteration 64 Updating parameters of variational distributions... Calculating ELB.. ELB=-388.584 ELB improved by 0.519273 iteration 65 Updating parameters of variational distributions... Calculating ELB.. ELB=-388.095 ELB improved by 0.489269 iteration 66 Updating parameters of variational distributions... Calculating ELB.. ELB=-387.71 ELB improved by 0.384793 iteration 67 Updating parameters of variational distributions... Calculating ELB.. ELB=-387.344 ELB improved by 0.365841 iteration 68 Updating parameters of variational distributions... Calculating ELB.. ELB=-386.912 ELB improved by 0.432434 iteration 69 Updating parameters of variational distributions... Calculating ELB.. ELB=-386.482 ELB improved by 0.429749 iteration 70 Updating parameters of variational distributions... Calculating ELB.. ELB=-386.16 ELB improved by 0.322239 iteration 71 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.937 ELB improved by 0.222931 iteration 72 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.788 ELB improved by 0.14924 iteration 73 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.693 ELB improved by 0.0947073 iteration 74 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.633 ELB improved by 0.0595057 iteration 75 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.594 ELB improved by 0.039532 iteration 76 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.565 ELB improved by 0.0287437 iteration 77 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.542 ELB improved by 0.0227394 iteration 78 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.523 ELB improved by 0.0190951 iteration 79 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.507 ELB improved by 0.0166299 iteration 80 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.492 ELB improved by 0.0147932 iteration 81 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.478 ELB improved by 0.0133265 iteration 82 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.466 ELB improved by 0.012103 iteration 83 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.455 ELB improved by 0.0110554 iteration 84 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.445 ELB improved by 0.0101444 iteration 85 Updating parameters of variational distributions... Calculating ELB.. ELB=-385.436 ELB improved by 0.00934434 ELB converged iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-896.968 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-581.205 ELB improved by 315.763 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-527.496 ELB improved by 53.7092 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-495.261 ELB improved by 32.2347 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-479.559 ELB improved by 15.7024 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-472.235 ELB improved by 7.32415 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-467.949 ELB improved by 4.2856 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-464.707 ELB improved by 3.24195 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-461.882 ELB improved by 2.82506 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-459.303 ELB improved by 2.57884 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-456.964 ELB improved by 2.33904 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-454.912 ELB improved by 2.05197 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-453.194 ELB improved by 1.71779 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-451.829 ELB improved by 1.36572 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-450.793 ELB improved by 1.03591 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-450.031 ELB improved by 0.761823 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-449.475 ELB improved by 0.556261 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-449.062 ELB improved by 0.412384 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-448.748 ELB improved by 0.314806 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-448.499 ELB improved by 0.24859 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-448.296 ELB improved by 0.202625 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-448.127 ELB improved by 0.169615 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.982 ELB improved by 0.145014 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.856 ELB improved by 0.126029 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.745 ELB improved by 0.110921 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.646 ELB improved by 0.0985835 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.558 ELB improved by 0.088289 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.478 ELB improved by 0.0795477 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.406 ELB improved by 0.0720202 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.341 ELB improved by 0.0654644 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.281 ELB improved by 0.0597034 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.227 ELB improved by 0.0546046 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.176 ELB improved by 0.0500657 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.13 ELB improved by 0.046006 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.088 ELB improved by 0.0423605 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.049 ELB improved by 0.0390761 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-447.013 ELB improved by 0.0361082 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.979 ELB improved by 0.0334193 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.949 ELB improved by 0.0309775 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.92 ELB improved by 0.0287554 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.893 ELB improved by 0.0267292 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.868 ELB improved by 0.0248782 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.845 ELB improved by 0.0231845 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.823 ELB improved by 0.0216321 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.803 ELB improved by 0.0202071 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.784 ELB improved by 0.0188972 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.767 ELB improved by 0.0176915 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.75 ELB improved by 0.0165803 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.734 ELB improved by 0.0155549 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.72 ELB improved by 0.0146076 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.706 ELB improved by 0.0137315 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.693 ELB improved by 0.0129203 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.681 ELB improved by 0.0121685 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.67 ELB improved by 0.0114711 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.659 ELB improved by 0.0108234 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.648 ELB improved by 0.0102215 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-446.639 ELB improved by 0.00966153 ELB converged iteration 1 Updating parameters of variational distributions... Calculating ELB.. ELB=-930.254 ELB improved by inf iteration 2 Updating parameters of variational distributions... Calculating ELB.. ELB=-584.58 ELB improved by 345.675 iteration 3 Updating parameters of variational distributions... Calculating ELB.. ELB=-525.336 ELB improved by 59.2436 iteration 4 Updating parameters of variational distributions... Calculating ELB.. ELB=-490.052 ELB improved by 35.2836 iteration 5 Updating parameters of variational distributions... Calculating ELB.. ELB=-474.2 ELB improved by 15.8523 iteration 6 Updating parameters of variational distributions... Calculating ELB.. ELB=-466.45 ELB improved by 7.74993 iteration 7 Updating parameters of variational distributions... Calculating ELB.. ELB=-460.723 ELB improved by 5.72702 iteration 8 Updating parameters of variational distributions... Calculating ELB.. ELB=-455.26 ELB improved by 5.46348 iteration 9 Updating parameters of variational distributions... Calculating ELB.. ELB=-449.501 ELB improved by 5.75832 iteration 10 Updating parameters of variational distributions... Calculating ELB.. ELB=-443.624 ELB improved by 5.8777 iteration 11 Updating parameters of variational distributions... Calculating ELB.. ELB=-438.376 ELB improved by 5.24778 iteration 12 Updating parameters of variational distributions... Calculating ELB.. ELB=-434.451 ELB improved by 3.92531 iteration 13 Updating parameters of variational distributions... Calculating ELB.. ELB=-431.897 ELB improved by 2.55395 iteration 14 Updating parameters of variational distributions... Calculating ELB.. ELB=-430.305 ELB improved by 1.59203 iteration 15 Updating parameters of variational distributions... Calculating ELB.. ELB=-429.272 ELB improved by 1.03264 iteration 16 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.556 ELB improved by 0.716056 iteration 17 Updating parameters of variational distributions... Calculating ELB.. ELB=-428.028 ELB improved by 0.527984 iteration 18 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.619 ELB improved by 0.408981 iteration 19 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.29 ELB improved by 0.329164 iteration 20 Updating parameters of variational distributions... Calculating ELB.. ELB=-427.017 ELB improved by 0.272935 iteration 21 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.785 ELB improved by 0.231727 iteration 22 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.585 ELB improved by 0.200585 iteration 23 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.408 ELB improved by 0.176504 iteration 24 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.25 ELB improved by 0.157596 iteration 25 Updating parameters of variational distributions... Calculating ELB.. ELB=-426.108 ELB improved by 0.142645 iteration 26 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.977 ELB improved by 0.130862 iteration 27 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.855 ELB improved by 0.121745 iteration 28 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.74 ELB improved by 0.114984 iteration 29 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.63 ELB improved by 0.110401 iteration 30 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.522 ELB improved by 0.107869 iteration 31 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.415 ELB improved by 0.107206 iteration 32 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.307 ELB improved by 0.108023 iteration 33 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.197 ELB improved by 0.109558 iteration 34 Updating parameters of variational distributions... Calculating ELB.. ELB=-425.086 ELB improved by 0.110653 iteration 35 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.976 ELB improved by 0.110008 iteration 36 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.87 ELB improved by 0.106698 iteration 37 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.769 ELB improved by 0.100651 iteration 38 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.676 ELB improved by 0.0927203 iteration 39 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.592 ELB improved by 0.0841702 iteration 40 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.516 ELB improved by 0.0759222 iteration 41 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.448 ELB improved by 0.0681733 iteration 42 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.388 ELB improved by 0.0606214 iteration 43 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.335 ELB improved by 0.0529824 iteration 44 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.289 ELB improved by 0.0453664 iteration 45 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.251 ELB improved by 0.0382611 iteration 46 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.219 ELB improved by 0.0321955 iteration 47 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.191 ELB improved by 0.0274229 iteration 48 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.167 ELB improved by 0.0238654 iteration 49 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.146 ELB improved by 0.0212589 iteration 50 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.127 ELB improved by 0.0193148 iteration 51 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.109 ELB improved by 0.0178036 iteration 52 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.092 ELB improved by 0.0165713 iteration 53 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.077 ELB improved by 0.015523 iteration 54 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.062 ELB improved by 0.0146032 iteration 55 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.049 ELB improved by 0.0137794 iteration 56 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.036 ELB improved by 0.0130319 iteration 57 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.023 ELB improved by 0.0123483 iteration 58 Updating parameters of variational distributions... Calculating ELB.. ELB=-424.011 ELB improved by 0.0117199 iteration 59 Updating parameters of variational distributions... Calculating ELB.. ELB=-424 ELB improved by 0.0111403 iteration 60 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.99 ELB improved by 0.0106043 iteration 61 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.98 ELB improved by 0.0101077 iteration 62 Updating parameters of variational distributions... Calculating ELB.. ELB=-423.97 ELB improved by 0.00964678 ELB converged [ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ] > > proc.time() user system elapsed 3.235 0.275 3.516
graper.Rcheck/graper-Ex.timings
name | user | system | elapsed | |
coef.graper | 0.070 | 0.025 | 0.099 | |
getPIPs | 0.051 | 0.016 | 0.066 | |
graper | 0.112 | 0.035 | 0.147 | |
makeExampleData | 0.016 | 0.001 | 0.018 | |
makeExampleDataWithUnequalGroups | 0.017 | 0.002 | 0.020 | |
plotELBO | 0.266 | 0.027 | 0.294 | |
plotGroupPenalties | 0.895 | 0.024 | 0.919 | |
plotPosterior | 0.920 | 0.061 | 1.015 | |
predict.graper | 2.409 | 0.110 | 2.525 | |
print.graper | 0.067 | 0.022 | 0.091 | |