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This page was generated on 2026-02-19 11:32 -0500 (Thu, 19 Feb 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" 4868
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 926/2354HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
graper 1.27.0  (landing page)
Britta Velten
Snapshot Date: 2026-02-18 13:40 -0500 (Wed, 18 Feb 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 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
See other builds for graper in R Universe.


CHECK results for graper on nebbiolo1

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: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings graper_1.27.0.tar.gz
StartedAt: 2026-02-19 00:35:14 -0500 (Thu, 19 Feb 2026)
EndedAt: 2026-02-19 00:36:48 -0500 (Thu, 19 Feb 2026)
EllapsedTime: 94.1 seconds
RetCode: 0
Status:   OK  
CheckDir: graper.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings graper_1.27.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.23-bioc/meat/graper.Rcheck’
* using R Under development (unstable) (2026-01-15 r89304)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* 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: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
* 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 loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
checkRd: (-1) predict.graper.Rd:19-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:23-24: Lost braces in \itemize; meant \describe ?
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

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


Installation output

graper.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL graper
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.23-bioc/R/site-library’
* installing *source* package ‘graper’ ...
** this is package ‘graper’ version ‘1.27.0’
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0’
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall -Werror=format-security  -c fit_graper.cpp -o fit_graper.o
g++ -std=gnu++17 -shared -L/home/biocbuild/bbs-3.23-bioc/R/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -llapack -L/home/biocbuild/bbs-3.23-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.23-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.23-bioc/R/site-library/00LOCK-graper/00new/graper/libs
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (graper)

Tests output

graper.Rcheck/tests/testthat.Rout


R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences"
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(graper)
> 
> test_check("graper")
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-893.788
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-602.827
ELB improved by 290.961

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-541.839
ELB improved by 60.9883

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-498.251
ELB improved by 43.5872

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-478.69
ELB improved by 19.5614

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-470.466
ELB improved by 8.22397

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.546
ELB improved by 4.92025

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-461.642
ELB improved by 3.90408

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-458.083
ELB improved by 3.55891

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.721
ELB improved by 3.36209

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.643
ELB improved by 3.07802

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.044
ELB improved by 2.5987

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.076
ELB improved by 1.96847

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.715
ELB improved by 1.36011

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.808
ELB improved by 0.907169

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.187
ELB improved by 0.621597

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.733
ELB improved by 0.453305

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.38
ELB improved by 0.353194

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.09
ELB improved by 0.29045

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.841
ELB improved by 0.248492

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.623
ELB improved by 0.218733

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.426
ELB improved by 0.196641

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.246
ELB improved by 0.179712

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.08
ELB improved by 0.166482

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.924
ELB improved by 0.156041

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.776
ELB improved by 0.147788

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.635
ELB improved by 0.141305

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.498
ELB improved by 0.136284

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.366
ELB improved by 0.132489

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.236
ELB improved by 0.129731

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.108
ELB improved by 0.127854

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.981
ELB improved by 0.126721

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.855
ELB improved by 0.126211

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.729
ELB improved by 0.126213

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.602
ELB improved by 0.126624

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.475
ELB improved by 0.127349

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.347
ELB improved by 0.128304

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.217
ELB improved by 0.129414

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.087
ELB improved by 0.130615

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.955
ELB improved by 0.131859

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.822
ELB improved by 0.133106

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.687
ELB improved by 0.134329

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.552
ELB improved by 0.135504

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.415
ELB improved by 0.136612

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.278
ELB improved by 0.137628

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.139
ELB improved by 0.138523

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439
ELB improved by 0.139255

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.86
ELB improved by 0.139771

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.72
ELB improved by 0.140007

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.58
ELB improved by 0.139887

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.441
ELB improved by 0.139334

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.303
ELB improved by 0.138269

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.166
ELB improved by 0.136625

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.032
ELB improved by 0.134348

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.9
ELB improved by 0.131409

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.772
ELB improved by 0.127805

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.649
ELB improved by 0.123564

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.53
ELB improved by 0.118743

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.417
ELB improved by 0.113429

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.309
ELB improved by 0.107729

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.207
ELB improved by 0.101766

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.112
ELB improved by 0.0956702

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.022
ELB improved by 0.0895722

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.938
ELB improved by 0.0835983

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.861
ELB improved by 0.0778655

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.788
ELB improved by 0.0724802

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.721
ELB improved by 0.0675388

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.657
ELB improved by 0.0631303

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.598
ELB improved by 0.0593392

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.542
ELB improved by 0.0562496

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.488
ELB improved by 0.0539467

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.435
ELB improved by 0.0525149

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.383
ELB improved by 0.0520285

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.331
ELB improved by 0.0525337

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.277
ELB improved by 0.0540264

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.22
ELB improved by 0.0564442

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.161
ELB improved by 0.059711

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.097
ELB improved by 0.063877

iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.027
ELB improved by 0.0693621

iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.95
ELB improved by 0.0772509

iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.861
ELB improved by 0.0895212

iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.752
ELB improved by 0.108927

iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.614
ELB improved by 0.13762

iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.441
ELB improved by 0.17291

iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.239
ELB improved by 0.202422

iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.028
ELB improved by 0.210273

iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.836
ELB improved by 0.192741

iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.677
ELB improved by 0.158407

iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.559
ELB improved by 0.11869

iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.475
ELB improved by 0.0833875

iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.418
ELB improved by 0.0573489

iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.378
ELB improved by 0.040316

iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.348
ELB improved by 0.0297572

iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.325
ELB improved by 0.023193

iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.306
ELB improved by 0.0189468

iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.29
ELB improved by 0.0160477

iteration 97
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.276
ELB improved by 0.0139627

iteration 98
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.263
ELB improved by 0.0123971

iteration 99
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.252
ELB improved by 0.011181

iteration 100
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.242
ELB improved by 0.0102111

iteration 101
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.232
ELB improved by 0.00942135

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-830.251
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-575.824
ELB improved by 254.427

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-513.965
ELB improved by 61.8593

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-466.308
ELB improved by 47.6575

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.771
ELB improved by 24.5368

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.951
ELB improved by 8.81962

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.888
ELB improved by 4.06326

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.354
ELB improved by 2.53386

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.459
ELB improved by 1.89533

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.881
ELB improved by 1.57742

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.483
ELB improved by 1.39865

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.193
ELB improved by 1.28939

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.972
ELB improved by 1.22137

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.787
ELB improved by 1.18454

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.611
ELB improved by 1.17592

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.417
ELB improved by 1.19397

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.182
ELB improved by 1.23493

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.893
ELB improved by 1.28926

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.554
ELB improved by 1.33885

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.195
ELB improved by 1.35943

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.864
ELB improved by 1.33105

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.615
ELB improved by 1.24922

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.49
ELB improved by 1.12428

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.518
ELB improved by 0.972427

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.706
ELB improved by 0.811682

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.047
ELB improved by 0.659492

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.52
ELB improved by 0.527028

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.102
ELB improved by 0.417463

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.773
ELB improved by 0.329435

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.513
ELB improved by 0.260201

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.306
ELB improved by 0.206768

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.14
ELB improved by 0.166141

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.004
ELB improved by 0.135507

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.892
ELB improved by 0.112415

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.797
ELB improved by 0.0948823

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.716
ELB improved by 0.081392

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.645
ELB improved by 0.0708295

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.582
ELB improved by 0.0623966

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.527
ELB improved by 0.0555293

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.477
ELB improved by 0.0498307

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.432
ELB improved by 0.0450205

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.391
ELB improved by 0.0408995

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.354
ELB improved by 0.0373239

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.32
ELB improved by 0.0341886

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.288
ELB improved by 0.031415

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.259
ELB improved by 0.0289437

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.232
ELB improved by 0.0267286

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.208
ELB improved by 0.0247333

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.185
ELB improved by 0.0229285

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.164
ELB improved by 0.0212904

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.144
ELB improved by 0.0197991

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.125
ELB improved by 0.0184381

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.108
ELB improved by 0.017193

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.092
ELB improved by 0.0160519

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.077
ELB improved by 0.0150041

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.063
ELB improved by 0.0140406

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.05
ELB improved by 0.0131531

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.038
ELB improved by 0.0123346

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.026
ELB improved by 0.0115788

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.015
ELB improved by 0.01088

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.005
ELB improved by 0.0102332

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.995
ELB improved by 0.00963397

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-884.908
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-588.834
ELB improved by 296.073

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-526.607
ELB improved by 62.2271

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-483.145
ELB improved by 43.462

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-462.323
ELB improved by 20.8222

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.294
ELB improved by 10.0289

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.077
ELB improved by 8.21685

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.337
ELB improved by 8.73979

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.428
ELB improved by 9.9095

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.132
ELB improved by 10.2958

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.167
ELB improved by 8.96504

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.566
ELB improved by 6.60104

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.168
ELB improved by 4.39788

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.286
ELB improved by 2.88166

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.315
ELB improved by 1.97123

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.839
ELB improved by 1.47625

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.6
ELB improved by 1.23851

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.507
ELB improved by 1.09362

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.622
ELB improved by 0.885367

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.967
ELB improved by 0.654434

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.468
ELB improved by 0.498767

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.059
ELB improved by 0.40916

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.712
ELB improved by 0.347368

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.424
ELB improved by 0.287494

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.198
ELB improved by 0.225872

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.025
ELB improved by 0.173871

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.887
ELB improved by 0.137437

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.774
ELB improved by 0.113384

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.677
ELB improved by 0.0967483

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.593
ELB improved by 0.0842961

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.518
ELB improved by 0.0743751

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.452
ELB improved by 0.0661686

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.393
ELB improved by 0.059236

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.34
ELB improved by 0.053306

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.291
ELB improved by 0.0481901

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.248
ELB improved by 0.0437474

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.208
ELB improved by 0.0398678

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.171
ELB improved by 0.036463

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.138
ELB improved by 0.0334615

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.107
ELB improved by 0.0308046

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.079
ELB improved by 0.0284436

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.052
ELB improved by 0.0263382

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.028
ELB improved by 0.0244545

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.005
ELB improved by 0.022764

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.984
ELB improved by 0.0212426

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.964
ELB improved by 0.0198698

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.945
ELB improved by 0.0186279

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.928
ELB improved by 0.0175019

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.911
ELB improved by 0.0164787

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.896
ELB improved by 0.015547

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.881
ELB improved by 0.0146971

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.867
ELB improved by 0.0139204

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.854
ELB improved by 0.0132094

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.841
ELB improved by 0.0125575

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.829
ELB improved by 0.0119589

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.818
ELB improved by 0.0114086

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.807
ELB improved by 0.010902

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.797
ELB improved by 0.0104351

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.787
ELB improved by 0.0100044

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.777
ELB improved by 0.00960671

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-837.782
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-590.684
ELB improved by 247.098

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-528.901
ELB improved by 61.783

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-478.741
ELB improved by 50.1596

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.153
ELB improved by 25.588

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.2
ELB improved by 8.95351

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.018
ELB improved by 4.18191

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.043
ELB improved by 2.97535

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.415
ELB improved by 2.62719

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.742
ELB improved by 2.67366

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.799
ELB improved by 2.9431

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.472
ELB improved by 3.32633

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.806
ELB improved by 3.66624

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.07
ELB improved by 3.73602

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.686
ELB improved by 3.38399

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.968
ELB improved by 2.71848

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.941
ELB improved by 2.02665

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.428
ELB improved by 1.51296

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.219
ELB improved by 1.20912

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.158
ELB improved by 1.06052

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.152
ELB improved by 1.00586

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.153
ELB improved by 0.999818

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.14
ELB improved by 1.01289

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.111
ELB improved by 1.02823

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.073
ELB improved by 1.03824

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.033
ELB improved by 1.04058

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.998
ELB improved by 1.03418

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.982
ELB improved by 1.0165

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.999
ELB improved by 0.983083

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.069
ELB improved by 0.929434

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.215
ELB improved by 0.854075

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.455
ELB improved by 0.760627

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.797
ELB improved by 0.657427

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.243
ELB improved by 0.554685

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.782
ELB improved by 0.460883

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.401
ELB improved by 0.380636

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.086
ELB improved by 0.315054

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.822
ELB improved by 0.263728

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.596
ELB improved by 0.226618

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.391
ELB improved by 0.205071

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.189
ELB improved by 0.201588

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.974
ELB improved by 0.215095

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.747
ELB improved by 0.227

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.543
ELB improved by 0.203611

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.396
ELB improved by 0.147326

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.301
ELB improved by 0.095161

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.238
ELB improved by 0.0626975

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.193
ELB improved by 0.0449406

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.158
ELB improved by 0.0350339

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.129
ELB improved by 0.0290028

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.104
ELB improved by 0.024935

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.082
ELB improved by 0.0219363

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.063
ELB improved by 0.0195755

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.045
ELB improved by 0.0176318

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.029
ELB improved by 0.0159842

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.015
ELB improved by 0.0145611

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.001
ELB improved by 0.0133164

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.989
ELB improved by 0.0122186

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.978
ELB improved by 0.0112443

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.967
ELB improved by 0.0103759

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.958
ELB improved by 0.00959899

ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
> 
> proc.time()
   user  system elapsed 
  2.300   0.189   2.477 

Example timings

graper.Rcheck/graper-Ex.timings

nameusersystemelapsed
coef.graper0.0550.0110.066
getPIPs0.0540.0100.064
graper0.0800.0230.102
makeExampleData0.0070.0030.011
makeExampleDataWithUnequalGroups0.0100.0030.013
plotELBO0.3270.0360.363
plotGroupPenalties1.0630.0501.113
plotPosterior0.6190.0220.640
predict.graper2.0630.0562.118
print.graper0.0490.0120.062