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This page was generated on 2026-02-20 11:32 -0500 (Fri, 20 Feb 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" 4869
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: 2026-02-19 13:40 -0500 (Thu, 19 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: 2026-02-20 00:17:47 -0500 (Fri, 20 Feb 2026)
EndedAt: 2026-02-20 00:19:18 -0500 (Fri, 20 Feb 2026)
EllapsedTime: 91.2 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=-850.184
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-594.612
ELB improved by 255.572

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-533.34
ELB improved by 61.2726

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-487.56
ELB improved by 45.7795

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-463.775
ELB improved by 23.7853

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.72
ELB improved by 10.0549

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.894
ELB improved by 4.82627

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.55
ELB improved by 3.34346

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.666
ELB improved by 2.88398

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.95
ELB improved by 2.71625

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.322
ELB improved by 2.62749

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.791
ELB improved by 2.53182

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.411
ELB improved by 2.37963

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.261
ELB improved by 2.15022

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.391
ELB improved by 1.87013

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.799
ELB improved by 1.59173

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.459
ELB improved by 1.34042

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.346
ELB improved by 1.11267

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.433
ELB improved by 0.91278

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.676
ELB improved by 0.75679

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.024
ELB improved by 0.652328

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.432
ELB improved by 0.59232

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.866
ELB improved by 0.565341

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.303
ELB improved by 0.563729

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.716
ELB improved by 0.586099

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.081
ELB improved by 0.635846

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.37
ELB improved by 0.710608

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.585
ELB improved by 0.784894

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.756
ELB improved by 0.828759

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.906
ELB improved by 0.850585

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.025
ELB improved by 0.880985

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.086
ELB improved by 0.939112

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.06
ELB improved by 1.02603

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.927
ELB improved by 1.13283

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.685
ELB improved by 1.24215

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.361
ELB improved by 1.32368

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.011
ELB improved by 1.34997

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.668
ELB improved by 1.3434

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.314
ELB improved by 1.35314

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.041
ELB improved by 1.27366

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.028
ELB improved by 1.01236

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.311
ELB improved by 0.717331

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.818
ELB improved by 0.493525

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.451
ELB improved by 0.366542

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.12
ELB improved by 0.330794

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.78
ELB improved by 0.340315

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.483
ELB improved by 0.29724

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.28
ELB improved by 0.202879

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.145
ELB improved by 0.135042

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.039
ELB improved by 0.105286

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.942
ELB improved by 0.0978521

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.839
ELB improved by 0.102935

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.724
ELB improved by 0.114234

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.603
ELB improved by 0.121229

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.492
ELB improved by 0.111095

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.408
ELB improved by 0.0846192

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.351
ELB improved by 0.0568726

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.313
ELB improved by 0.037713

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.286
ELB improved by 0.0268343

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.265
ELB improved by 0.0209014

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.248
ELB improved by 0.0174527

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.233
ELB improved by 0.0152036

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.219
ELB improved by 0.0135585

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.207
ELB improved by 0.0122483

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.196
ELB improved by 0.0111491

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.185
ELB improved by 0.0101997

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.176
ELB improved by 0.00936677

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-860.994
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-562.919
ELB improved by 298.075

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-506.25
ELB improved by 56.669

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.434
ELB improved by 31.8169

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-461.172
ELB improved by 13.2617

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.61
ELB improved by 6.56228

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.976
ELB improved by 4.63354

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.929
ELB improved by 4.04712

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.127
ELB improved by 3.80154

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.593
ELB improved by 3.53453

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.464
ELB improved by 3.12922

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.854
ELB improved by 2.60927

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.779
ELB improved by 2.07498

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.163
ELB improved by 1.61663

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.889
ELB improved by 1.27387

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.846
ELB improved by 1.04248

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.951
ELB improved by 0.895041

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.154
ELB improved by 0.796982

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.434
ELB improved by 0.719844

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.783
ELB improved by 0.651444

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.192
ELB improved by 0.590983

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.653
ELB improved by 0.538653

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.16
ELB improved by 0.493438

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.705
ELB improved by 0.454572

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.284
ELB improved by 0.421743

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.889
ELB improved by 0.394375

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.518
ELB improved by 0.371246

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.167
ELB improved by 0.351318

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.831
ELB improved by 0.335367

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.504
ELB improved by 0.326915

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.172
ELB improved by 0.332332

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.811
ELB improved by 0.3606

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.394
ELB improved by 0.417268

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.909
ELB improved by 0.485025

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.38
ELB improved by 0.529411

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.83
ELB improved by 0.550199

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.277
ELB improved by 0.552656

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.766
ELB improved by 0.511149

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.327
ELB improved by 0.438501

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.953
ELB improved by 0.374432

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.623
ELB improved by 0.329735

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.324
ELB improved by 0.29901

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.047
ELB improved by 0.276753

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.787
ELB improved by 0.260108

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.539
ELB improved by 0.24799

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.299
ELB improved by 0.240078

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.063
ELB improved by 0.236307

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.827
ELB improved by 0.236349

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.588
ELB improved by 0.23809

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.353
ELB improved by 0.235568

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.132
ELB improved by 0.221152

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.938
ELB improved by 0.193861

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.777
ELB improved by 0.161224

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.646
ELB improved by 0.130833

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.54
ELB improved by 0.10576

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.454
ELB improved by 0.0861123

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.383
ELB improved by 0.0709981

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.324
ELB improved by 0.0593899

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.273
ELB improved by 0.0504092

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.23
ELB improved by 0.0433852

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.192
ELB improved by 0.0378342

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.158
ELB improved by 0.0334193

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.129
ELB improved by 0.0299149

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.101
ELB improved by 0.0271789

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.076
ELB improved by 0.0251361

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.052
ELB improved by 0.0237691

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.029
ELB improved by 0.0231154

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.006
ELB improved by 0.0232674

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.982
ELB improved by 0.0243598

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.955
ELB improved by 0.0265151

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.926
ELB improved by 0.0296943

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.892
ELB improved by 0.0334191

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.856
ELB improved by 0.0365175

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.818
ELB improved by 0.0373766

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.783
ELB improved by 0.0350201

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.753
ELB improved by 0.0300802

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.729
ELB improved by 0.0243011

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.71
ELB improved by 0.0191641

iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.694
ELB improved by 0.0152418

iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.682
ELB improved by 0.0124592

iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.671
ELB improved by 0.0105271

iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.662
ELB improved by 0.0091743

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-892.929
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-567.293
ELB improved by 325.635

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-511.781
ELB improved by 55.5123

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-482.204
ELB improved by 29.5765

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-469.451
ELB improved by 12.7534

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-462.669
ELB improved by 6.78167

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-458.002
ELB improved by 4.66782

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.983
ELB improved by 4.01881

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.047
ELB improved by 3.93586

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.042
ELB improved by 4.00529

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.043
ELB improved by 3.99824

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.313
ELB improved by 3.73023

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.178
ELB improved by 3.13514

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.808
ELB improved by 2.36974

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.134
ELB improved by 1.67397

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.98
ELB improved by 1.15452

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.18
ELB improved by 0.799534

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.607
ELB improved by 0.572957

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.173
ELB improved by 0.434561

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.822
ELB improved by 0.350605

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.519
ELB improved by 0.303551

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.227
ELB improved by 0.29125

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.905
ELB improved by 0.321798

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.513
ELB improved by 0.392966

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.062
ELB improved by 0.450509

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.638
ELB improved by 0.423588

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.31
ELB improved by 0.328352

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.082
ELB improved by 0.227693

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.927
ELB improved by 0.155411

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.814
ELB improved by 0.112487

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.726
ELB improved by 0.0885091

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.651
ELB improved by 0.0746657

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.585
ELB improved by 0.0659738

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.525
ELB improved by 0.0599828

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.47
ELB improved by 0.0555218

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.418
ELB improved by 0.0520132

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.369
ELB improved by 0.0491518

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.322
ELB improved by 0.0467617

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.277
ELB improved by 0.0447314

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.234
ELB improved by 0.042984

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.193
ELB improved by 0.0414623

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.153
ELB improved by 0.0401218

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.114
ELB improved by 0.0389259

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.076
ELB improved by 0.0378444

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.039
ELB improved by 0.0368514

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.003
ELB improved by 0.0359249

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.968
ELB improved by 0.0350459

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.934
ELB improved by 0.0341983

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.9
ELB improved by 0.0333684

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.868
ELB improved by 0.0325449

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.836
ELB improved by 0.0317188

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.805
ELB improved by 0.0308829

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.775
ELB improved by 0.0300324

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.746
ELB improved by 0.029164

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.718
ELB improved by 0.0282765

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.69
ELB improved by 0.0273698

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.664
ELB improved by 0.0264457

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.638
ELB improved by 0.0255069

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.614
ELB improved by 0.0245571

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.59
ELB improved by 0.0236006

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.568
ELB improved by 0.0226424

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.546
ELB improved by 0.0216876

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.525
ELB improved by 0.0207412

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.505
ELB improved by 0.0198083

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.487
ELB improved by 0.0188934

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.469
ELB improved by 0.0180006

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.451
ELB improved by 0.0171336

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.435
ELB improved by 0.0162954

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.42
ELB improved by 0.0154883

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.405
ELB improved by 0.0147142

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.391
ELB improved by 0.0139743

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.378
ELB improved by 0.0132691

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.365
ELB improved by 0.0125989

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.353
ELB improved by 0.0119634

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.342
ELB improved by 0.0113622

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.331
ELB improved by 0.0107942

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.321
ELB improved by 0.0102584

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.311
ELB improved by 0.00975357

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-839.872
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-537.04
ELB improved by 302.832

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-485.508
ELB improved by 51.5324

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-459.048
ELB improved by 26.4591

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.803
ELB improved by 10.245

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.527
ELB improved by 5.27685

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.549
ELB improved by 3.97806

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.751
ELB improved by 3.7972

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.764
ELB improved by 3.98742

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.56
ELB improved by 4.20343

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.415
ELB improved by 4.14497

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.793
ELB improved by 3.62203

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.028
ELB improved by 2.76518

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.119
ELB improved by 1.90897

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.844
ELB improved by 1.27577

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.963
ELB improved by 0.880107

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.317
ELB improved by 0.646602

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.811
ELB improved by 0.505732

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.396
ELB improved by 0.414964

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.045
ELB improved by 0.351563

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.741
ELB improved by 0.303926

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.474
ELB improved by 0.266319

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.238
ELB improved by 0.23596

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.027
ELB improved by 0.211375

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.835
ELB improved by 0.191551

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.66
ELB improved by 0.17561

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.497
ELB improved by 0.162757

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.345
ELB improved by 0.152302

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.201
ELB improved by 0.14368

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.065
ELB improved by 0.136448

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.934
ELB improved by 0.13027

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.809
ELB improved by 0.124892

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.689
ELB improved by 0.120123

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.574
ELB improved by 0.115823

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.462
ELB improved by 0.111888

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.353
ELB improved by 0.108245

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.249
ELB improved by 0.104849

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.147
ELB improved by 0.101676

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.048
ELB improved by 0.0987205

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.952
ELB improved by 0.0959987

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.859
ELB improved by 0.0935437

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.767
ELB improved by 0.0914085

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.678
ELB improved by 0.089667

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.589
ELB improved by 0.0884163

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.501
ELB improved by 0.0877779

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.413
ELB improved by 0.0878931

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.325
ELB improved by 0.0889059

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.234
ELB improved by 0.0909213

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.14
ELB improved by 0.0939322

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.042
ELB improved by 0.0977295

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.94
ELB improved by 0.101866

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.834
ELB improved by 0.105769

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.725
ELB improved by 0.109017

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.614
ELB improved by 0.111583

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.5
ELB improved by 0.113816

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.384
ELB improved by 0.116214

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.264
ELB improved by 0.119228

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.141
ELB improved by 0.123214

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.013
ELB improved by 0.128493

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.877
ELB improved by 0.135412

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.733
ELB improved by 0.144345

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.577
ELB improved by 0.155527

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.409
ELB improved by 0.168534

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.228
ELB improved by 0.181292

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.038
ELB improved by 0.189491

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.849
ELB improved by 0.188819

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.67
ELB improved by 0.179606

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.503
ELB improved by 0.166906

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.348
ELB improved by 0.154967

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.203
ELB improved by 0.14466

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.068
ELB improved by 0.135198

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.942
ELB improved by 0.125792

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.826
ELB improved by 0.116072

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.72
ELB improved by 0.106008

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.624
ELB improved by 0.0957609

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.539
ELB improved by 0.0855756

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.463
ELB improved by 0.0757083

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.397
ELB improved by 0.0663793

iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.339
ELB improved by 0.0577483

iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.289
ELB improved by 0.0499093

iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.246
ELB improved by 0.0428985

iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.209
ELB improved by 0.0367082

iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.178
ELB improved by 0.031301

iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.152
ELB improved by 0.0266223

iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.129
ELB improved by 0.0226081

iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.11
ELB improved by 0.0191908

iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.093
ELB improved by 0.0163021

iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.08
ELB improved by 0.0138757

iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.068
ELB improved by 0.0118487

iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.058
ELB improved by 0.010163

iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.049
ELB improved by 0.00876591

ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
> 
> proc.time()
   user  system elapsed 
  2.435   0.231   2.654 

Example timings

graper.Rcheck/graper-Ex.timings

nameusersystemelapsed
coef.graper0.0520.0150.067
getPIPs0.0490.0130.063
graper0.0850.0150.099
makeExampleData0.0090.0010.011
makeExampleDataWithUnequalGroups0.0130.0000.013
plotELBO0.3330.0230.356
plotGroupPenalties1.0670.0611.128
plotPosterior0.6240.0210.644
predict.graper2.0530.0702.132
print.graper0.0500.0110.062