Back to Multiple platform build/check report for BioC 3.23:   simplified   long
ABCDEF[G]HIJKLMNOPQRSTUVWXYZ

This page was generated on 2026-04-25 11:36 -0400 (Sat, 25 Apr 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.4 LTS)x86_644.6.0 RC (2026-04-17 r89917) -- "Because it was There" 4978
kjohnson3macOS 13.7.7 Venturaarm644.6.0 alpha (2026-04-08 r89818) 4722
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 942/2415HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
graper 1.27.0  (landing page)
Britta Velten
Snapshot Date: 2026-04-24 13:40 -0400 (Fri, 24 Apr 2026)
git_url: https://git.bioconductor.org/packages/graper
git_branch: devel
git_last_commit: 95474d7
git_last_commit_date: 2025-10-29 10:49:21 -0400 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
See other builds for graper in R Universe.


CHECK results for graper on kjohnson3

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.

raw results


Summary

Package: graper
Version: 1.27.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings graper_1.27.0.tar.gz
StartedAt: 2026-04-24 20:08:47 -0400 (Fri, 24 Apr 2026)
EndedAt: 2026-04-24 20:09:19 -0400 (Fri, 24 Apr 2026)
EllapsedTime: 32.4 seconds
RetCode: 0
Status:   OK  
CheckDir: graper.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings graper_1.27.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.23-bioc/meat/graper.Rcheck’
* using R version 4.6.0 alpha (2026-04-08 r89818)
* using platform: aarch64-apple-darwin23
* R was compiled by
    Apple clang version 17.0.0 (clang-1700.3.19.1)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Tahoe 26.3.1
* using session charset: UTF-8
* current time: 2026-04-25 00:08:47 UTC
* using option ‘--no-vignettes’
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.27.0’
* 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: ‘Apple clang version 17.0.0 (clang-1700.6.4.2)’
* used SDK: ‘MacOSX26.2.sdk’
* 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 ... INFO
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 running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.23-bioc/meat/graper.Rcheck/00check.log’
for details.


Installation output

graper.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL graper
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.6/Resources/library’
* installing *source* package ‘graper’ ...
** this is package ‘graper’ version ‘1.27.0’
** using staged installation
** libs
using C++ compiler: ‘Apple clang version 17.0.0 (clang-1700.6.4.2)’
using SDK: ‘MacOSX26.2.sdk’
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/BH/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c RcppExports.cpp -o RcppExports.o
clang++ -arch arm64 -std=gnu++20 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.6/Resources/library/BH/include' -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2   -c fit_graper.cpp -o fit_graper.o
clang++ -arch arm64 -std=gnu++20 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -L/Library/Frameworks/R.framework/Resources/lib -L/opt/R/arm64/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/opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0 -L/opt/gfortran/lib -lemutls_w -lheapt_w -lgfortran -lquadmath -F/Library/Frameworks/R.framework/.. -framework R
installing to /Library/Frameworks/R.framework/Versions/4.6/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)

Tests output

graper.Rcheck/tests/testthat.Rout


R version 4.6.0 alpha (2026-04-08 r89818)
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin23

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=-865.128
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-578.922
ELB improved by 286.206

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-517.937
ELB improved by 60.9843

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.906
ELB improved by 43.0312

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.892
ELB improved by 20.0144

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.797
ELB improved by 7.09531

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.024
ELB improved by 3.77222

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.137
ELB improved by 2.88741

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.58
ELB improved by 2.55662

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.162
ELB improved by 2.41829

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.815
ELB improved by 2.34679

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.519
ELB improved by 2.29648

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.268
ELB improved by 2.25072

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.07
ELB improved by 2.19793

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.954
ELB improved by 2.11622

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.98
ELB improved by 1.97354

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.228
ELB improved by 1.75244

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.758
ELB improved by 1.46975

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.59
ELB improved by 1.16849

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.694
ELB improved by 0.895986

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.012
ELB improved by 0.682091

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.481
ELB improved by 0.530574

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.054
ELB improved by 0.426621

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.704
ELB improved by 0.350262

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.417
ELB improved by 0.287191

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.184
ELB improved by 0.232616

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.997
ELB improved by 0.187292

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.845
ELB improved by 0.151931

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.72
ELB improved by 0.125396

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.614
ELB improved by 0.10561

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.523
ELB improved by 0.0906004

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.445
ELB improved by 0.0788931

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.375
ELB improved by 0.0694978

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.313
ELB improved by 0.0617719

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.258
ELB improved by 0.0552958

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.208
ELB improved by 0.0497865

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.163
ELB improved by 0.0450457

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.122
ELB improved by 0.0409282

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.085
ELB improved by 0.037324

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.051
ELB improved by 0.0341478

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.019
ELB improved by 0.0313323

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.991
ELB improved by 0.0288231

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.964
ELB improved by 0.0265764

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.939
ELB improved by 0.0245562

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.917
ELB improved by 0.0227328

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.896
ELB improved by 0.0210815

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.876
ELB improved by 0.0195815

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.858
ELB improved by 0.0182154

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.841
ELB improved by 0.0169682

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.825
ELB improved by 0.0158272

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.81
ELB improved by 0.0147814

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.796
ELB improved by 0.0138212

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.784
ELB improved by 0.0129382

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.771
ELB improved by 0.012125

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.76
ELB improved by 0.0113753

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.749
ELB improved by 0.0106831

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.739
ELB improved by 0.0100433

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.73
ELB improved by 0.00945141

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-897.842
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-578.713
ELB improved by 319.129

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-514.398
ELB improved by 64.3149

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-477.163
ELB improved by 37.2354

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-463.681
ELB improved by 13.4824

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-457.983
ELB improved by 5.69789

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.786
ELB improved by 4.19719

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.849
ELB improved by 3.93646

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.837
ELB improved by 4.01204

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.641
ELB improved by 4.19626

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.29
ELB improved by 4.35098

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.957
ELB improved by 4.33252

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.931
ELB improved by 4.02614

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.473
ELB improved by 3.45857

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.653
ELB improved by 2.81955

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.393
ELB improved by 2.26027

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.62
ELB improved by 1.77225

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.276
ELB improved by 1.34497

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.243
ELB improved by 1.03212

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.426
ELB improved by 0.817756

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.786
ELB improved by 0.640106

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.292
ELB improved by 0.493443

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.917
ELB improved by 0.375329

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.636
ELB improved by 0.280312

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.423
ELB improved by 0.213495

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.251
ELB improved by 0.172368

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.103
ELB improved by 0.147622

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.971
ELB improved by 0.131831

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.85
ELB improved by 0.120924

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.737
ELB improved by 0.112845

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.631
ELB improved by 0.106524

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.529
ELB improved by 0.101362

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.432
ELB improved by 0.0969952

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.339
ELB improved by 0.0931851

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.25
ELB improved by 0.0897657

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.163
ELB improved by 0.0866155

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.079
ELB improved by 0.0836442

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.998
ELB improved by 0.0807839

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.921
ELB improved by 0.0779852

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.845
ELB improved by 0.0752138

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.773
ELB improved by 0.0724485

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.703
ELB improved by 0.0696795

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.636
ELB improved by 0.0669067

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.572
ELB improved by 0.064138

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.511
ELB improved by 0.0613877

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.452
ELB improved by 0.0586752

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.396
ELB improved by 0.0560235

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.343
ELB improved by 0.0534585

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.292
ELB improved by 0.0510084

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.243
ELB improved by 0.0487038

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.196
ELB improved by 0.0465783

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.152
ELB improved by 0.0446699

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.109
ELB improved by 0.0430225

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.067
ELB improved by 0.0416884

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.026
ELB improved by 0.04073

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.986
ELB improved by 0.0402198

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.946
ELB improved by 0.0402352

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.905
ELB improved by 0.0408423

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.863
ELB improved by 0.0420594

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.819
ELB improved by 0.0437907

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.773
ELB improved by 0.0457373

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.726
ELB improved by 0.0473387

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.678
ELB improved by 0.0478631

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.631
ELB improved by 0.0467385

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.587
ELB improved by 0.0439528

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.547
ELB improved by 0.0401133

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.511
ELB improved by 0.0360433

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.479
ELB improved by 0.032327

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.45
ELB improved by 0.0291763

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.423
ELB improved by 0.0265581

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.399
ELB improved by 0.0243557

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.376
ELB improved by 0.0224581

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.356
ELB improved by 0.0207858

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.336
ELB improved by 0.019288

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.318
ELB improved by 0.0179332

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.302
ELB improved by 0.0167009

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.286
ELB improved by 0.0155767

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.272
ELB improved by 0.0145492

iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.258
ELB improved by 0.0136092

iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.245
ELB improved by 0.0127483

iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.233
ELB improved by 0.0119592

iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.222
ELB improved by 0.0112351

iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.211
ELB improved by 0.0105701

iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.201
ELB improved by 0.00995857

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-886.833
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-580.28
ELB improved by 306.553

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-522.615
ELB improved by 57.6649

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-485.584
ELB improved by 37.0306

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.91
ELB improved by 17.6741

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.277
ELB improved by 7.63333

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.896
ELB improved by 4.38124

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.669
ELB improved by 3.22664

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.788
ELB improved by 2.88114

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.887
ELB improved by 2.90052

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.79
ELB improved by 3.09718

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.426
ELB improved by 3.36399

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.859
ELB improved by 3.56731

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.346
ELB improved by 3.5133

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.267
ELB improved by 3.07851

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.869
ELB improved by 2.39847

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.126
ELB improved by 1.74296

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.874
ELB improved by 1.25176

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.962
ELB improved by 0.912059

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.281
ELB improved by 0.681046

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.75
ELB improved by 0.531218

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.311
ELB improved by 0.438667

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.927
ELB improved by 0.383704

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.575
ELB improved by 0.352485

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.242
ELB improved by 0.333007

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.929
ELB improved by 0.312955

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.643
ELB improved by 0.285547

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.389
ELB improved by 0.254436

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.162
ELB improved by 0.226752

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.957
ELB improved by 0.205106

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.77
ELB improved by 0.186768

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.604
ELB improved by 0.166631

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.462
ELB improved by 0.142021

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.346
ELB improved by 0.115777

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.253
ELB improved by 0.0930141

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.177
ELB improved by 0.0761321

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.112
ELB improved by 0.0643902

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.056
ELB improved by 0.0560718

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.006
ELB improved by 0.0498111

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.962
ELB improved by 0.0447971

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.921
ELB improved by 0.0405967

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.884
ELB improved by 0.0369795

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.85
ELB improved by 0.0338146

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.819
ELB improved by 0.0310193

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.791
ELB improved by 0.0285357

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.764
ELB improved by 0.0263195

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.74
ELB improved by 0.0243357

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.717
ELB improved by 0.0225548

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.696
ELB improved by 0.0209522

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.677
ELB improved by 0.0195071

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.659
ELB improved by 0.0182014

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.642
ELB improved by 0.0170194

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.626
ELB improved by 0.0159477

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.611
ELB improved by 0.0149744

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.597
ELB improved by 0.0140894

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.583
ELB improved by 0.0132835

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.571
ELB improved by 0.0125488

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.559
ELB improved by 0.0118783

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.548
ELB improved by 0.0112657

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.537
ELB improved by 0.0107056

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.527
ELB improved by 0.0101931

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.517
ELB improved by 0.00972379

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-937.942
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-606.138
ELB improved by 331.804

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-544.991
ELB improved by 61.1474

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-501.517
ELB improved by 43.4735

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-482.028
ELB improved by 19.4892

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.622
ELB improved by 7.40564

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-470.455
ELB improved by 4.16708

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.111
ELB improved by 3.34456

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-463.873
ELB improved by 3.23778

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.466
ELB improved by 3.40749

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.795
ELB improved by 3.67078

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.949
ELB improved by 3.84564

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.239
ELB improved by 3.71001

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.064
ELB improved by 3.17539

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.627
ELB improved by 2.43634

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.844
ELB improved by 1.78332

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.504
ELB improved by 1.34031

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.424
ELB improved by 1.08004

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.49
ELB improved by 0.934

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.645
ELB improved by 0.844952

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.863
ELB improved by 0.78137

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.131
ELB improved by 0.732005

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.436
ELB improved by 0.695442

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.762
ELB improved by 0.673554

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.095
ELB improved by 0.667662

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.421
ELB improved by 0.673706

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.748
ELB improved by 0.672995

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.107
ELB improved by 0.641445

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.517
ELB improved by 0.589959

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.971
ELB improved by 0.545605

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.457
ELB improved by 0.514266

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.966
ELB improved by 0.490617

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.496
ELB improved by 0.46993

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.047
ELB improved by 0.44963

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.618
ELB improved by 0.428753

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.21
ELB improved by 0.407948

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.82
ELB improved by 0.39028

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.436
ELB improved by 0.383161

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.035
ELB improved by 0.401576

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.572
ELB improved by 0.462776

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.04
ELB improved by 0.531744

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.541
ELB improved by 0.498937

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.16
ELB improved by 0.381126

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.89
ELB improved by 0.27046

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.7
ELB improved by 0.190184

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.564
ELB improved by 0.135843

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.464
ELB improved by 0.100226

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.387
ELB improved by 0.076996

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.325
ELB improved by 0.0615843

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.274
ELB improved by 0.0510658

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.23
ELB improved by 0.0436779

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.192
ELB improved by 0.0383898

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.157
ELB improved by 0.0346144

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.125
ELB improved by 0.0320377

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.095
ELB improved by 0.0305283

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.065
ELB improved by 0.0301005

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.034
ELB improved by 0.0309092

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424
ELB improved by 0.0332512

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.963
ELB improved by 0.0375091

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.919
ELB improved by 0.0438757

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.867
ELB improved by 0.051614

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.809
ELB improved by 0.0580249

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.751
ELB improved by 0.0588437

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.699
ELB improved by 0.0519324

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.658
ELB improved by 0.0403644

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.629
ELB improved by 0.0293083

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.608
ELB improved by 0.021432

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.591
ELB improved by 0.0166366

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.577
ELB improved by 0.013886

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.565
ELB improved by 0.0122896

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.553
ELB improved by 0.0113117

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.543
ELB improved by 0.0106769

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.532
ELB improved by 0.010256

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.522
ELB improved by 0.00999353

ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
> 
> proc.time()
   user  system elapsed 
  1.048   0.091   1.154 

Example timings

graper.Rcheck/graper-Ex.timings

nameusersystemelapsed
coef.graper0.0320.0100.043
getPIPs0.0260.0060.033
graper0.0440.0090.053
makeExampleData0.0040.0000.004
makeExampleDataWithUnequalGroups0.0050.0000.005
plotELBO0.1260.0080.134
plotGroupPenalties0.4360.0090.446
plotPosterior0.2450.0110.263
predict.graper1.0210.0411.064
print.graper0.0270.0060.032