Multiple platform build/check report for BioC 3.20 - CHECK results for graper on palomino8

Hostname	OS	Arch (*)	R version	Installed pkgs
teran2	Linux (Ubuntu 24.04.1 LTS)	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4448
nebbiolo2	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4455
palomino8	Windows Server 2022 Datacenter	x64	4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"	4453
lconway	macOS 12.7.1 Monterey	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4486
kjohnson3	macOS 13.6.5 Ventura	arm64	4.4.1 (2024-06-14) -- "Race for Your Life"	4433
kunpeng2	Linux (openEuler 22.03 LTS-SP1)	aarch64	4.4.1 (2024-06-14) -- "Race for Your Life"	4432
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*

CHECK results for graper on palomino8

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: 1.21.0

Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:graper.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings graper_1.21.0.tar.gz

StartedAt: 2024-09-24 01:21:34 -0400 (Tue, 24 Sep 2024)

EndedAt: 2024-09-24 01:23:04 -0400 (Tue, 24 Sep 2024)

EllapsedTime: 90.3 seconds

RetCode: 0

Status: OK

CheckDir: graper.Rcheck

Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:graper.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings graper_1.21.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/graper.Rcheck'
* using R version 4.4.1 (2024-06-14 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.2.0
    GNU Fortran (GCC) 13.2.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'graper/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'graper' version '1.21.0'
* 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 whether package 'graper' can be installed ... OK
* used C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
* checking C++ specification ... NOTE
  Specified C++11: please drop specification unless essential
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
checkRd: (-1) predict.graper.Rd:19-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:23-24: Lost braces in \itemize; meant \describe ?
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files for x64 is not available
File 'F:/biocbuild/bbs-3.20-bioc/R/library/graper/libs/x64/graper.dll':
  Found '_exit', possibly from '_exit' (C)
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  'F:/biocbuild/bbs-3.20-bioc/meat/graper.Rcheck/00check.log'
for details.

Installation output

graper.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL graper
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library'
* installing *source* package 'graper' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.2.0'
using C++11
g++  -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppArmadillo/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/BH/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
g++  -std=gnu++11 -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/RcppArmadillo/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/BH/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c fit_graper.cpp -o fit_graper.o
In file included from F:/biocbuild/bbs-3.20-bioc/R/library/BH/include/boost/math/special_functions/detail/round_fwd.hpp:11,
                 from F:/biocbuild/bbs-3.20-bioc/R/library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
                 from F:/biocbuild/bbs-3.20-bioc/R/library/BH/include/boost/math/special_functions/digamma.hpp:15,
                 from graper_linear_dense_ff.h:2,
                 from fit_graper.cpp:4:
F:/biocbuild/bbs-3.20-bioc/R/library/BH/include/boost/math/tools/config.hpp:23:6: warning: #warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)" [-Wcpp]
   23 | #    warning "The minimum language standard to use Boost.Math will be C++14 starting in July 2023 (Boost 1.82 release)"
      |      ^~~~~~~
g++ -shared -s -static-libgcc -o graper.dll tmp.def RcppExports.o fit_graper.o -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lRlapack -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.20-bioc/R/library/00LOCK-graper/00new/graper/libs/x64
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (graper)

Tests output

graper.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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

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

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

> library(testthat)
> library(graper)
> 
> test_check("graper")
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-848.402
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-581.392
ELB improved by 267.01

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-518.2
ELB improved by 63.1923

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-472.698
ELB improved by 45.5019

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.843
ELB improved by 22.8551

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.966
ELB improved by 10.8774

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.537
ELB improved by 6.42853

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.459
ELB improved by 5.07762

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.487
ELB improved by 4.97204

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.065
ELB improved by 5.42285

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.248
ELB improved by 5.81604

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.7
ELB improved by 5.5489

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.27
ELB improved by 4.42969

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.347
ELB improved by 2.92241

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.637
ELB improved by 1.7106

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.627
ELB improved by 1.00954

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.973
ELB improved by 0.654363

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.5
ELB improved by 0.473001

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.125
ELB improved by 0.374816

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.807
ELB improved by 0.318225

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.524
ELB improved by 0.283414

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.263
ELB improved by 0.260172

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.02
ELB improved by 0.242934

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.792
ELB improved by 0.228606

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.576
ELB improved by 0.215511

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.373
ELB improved by 0.202815

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.183
ELB improved by 0.190189

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.006
ELB improved by 0.177604

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.84
ELB improved by 0.165182

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.687
ELB improved by 0.153105

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.546
ELB improved by 0.141547

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.415
ELB improved by 0.130642

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.295
ELB improved by 0.120474

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.184
ELB improved by 0.11107

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.081
ELB improved by 0.102416

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.987
ELB improved by 0.0944658

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.9
ELB improved by 0.0871539

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.819
ELB improved by 0.0804107

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.745
ELB improved by 0.0741721

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.677
ELB improved by 0.0683858

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.614
ELB improved by 0.0630143

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.556
ELB improved by 0.0580323

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.502
ELB improved by 0.0534226

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.453
ELB improved by 0.0491709

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.408
ELB improved by 0.0452624

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.366
ELB improved by 0.0416798

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.328
ELB improved by 0.0384031

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.292
ELB improved by 0.0354106

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.26
ELB improved by 0.0326797

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.229
ELB improved by 0.0301883

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.201
ELB improved by 0.0279152

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.176
ELB improved by 0.0258402

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.152
ELB improved by 0.0239452

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.129
ELB improved by 0.0222134

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.109
ELB improved by 0.0206294

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.09
ELB improved by 0.0191796

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.072
ELB improved by 0.0178514

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.055
ELB improved by 0.0166335

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.04
ELB improved by 0.015516

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.025
ELB improved by 0.0144896

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.012
ELB improved by 0.0135461

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.999
ELB improved by 0.012678

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.987
ELB improved by 0.0118787

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.976
ELB improved by 0.011142

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.965
ELB improved by 0.0104626

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.956
ELB improved by 0.00983538

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-872.023
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-567.851
ELB improved by 304.171

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-507.744
ELB improved by 60.1074

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.795
ELB improved by 31.9491

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-462.48
ELB improved by 13.3144

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.547
ELB improved by 6.93307

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.478
ELB improved by 6.06979

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.982
ELB improved by 6.49524

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.372
ELB improved by 6.61073

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.666
ELB improved by 5.70532

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.573
ELB improved by 4.09377

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.984
ELB improved by 2.58865

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.393
ELB improved by 1.59038

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.371
ELB improved by 1.02283

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.666
ELB improved by 0.704492

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.147
ELB improved by 0.519578

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.739
ELB improved by 0.407733

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.402
ELB improved by 0.336899

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.112
ELB improved by 0.289889

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.855
ELB improved by 0.257414

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.62
ELB improved by 0.234322

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.403
ELB improved by 0.217664

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.197
ELB improved by 0.205712

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.999
ELB improved by 0.197454

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.807
ELB improved by 0.192307

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.617
ELB improved by 0.189954

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.427
ELB improved by 0.1902

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.234
ELB improved by 0.192831

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.037
ELB improved by 0.19745

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.833
ELB improved by 0.203366

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.624
ELB improved by 0.209682

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.408
ELB improved by 0.215691

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.187
ELB improved by 0.221372

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.959
ELB improved by 0.227633

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.723
ELB improved by 0.236124

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.474
ELB improved by 0.248497

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.21
ELB improved by 0.264438

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.931
ELB improved by 0.278807

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.647
ELB improved by 0.283854

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.367
ELB improved by 0.279813

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.09
ELB improved by 0.277487

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.8
ELB improved by 0.289958

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.466
ELB improved by 0.334098

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.031
ELB improved by 0.43514

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.446
ELB improved by 0.58476

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.766
ELB improved by 0.680075

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.061
ELB improved by 0.705035

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.311
ELB improved by 0.750141

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.473
ELB improved by 0.837794

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.531
ELB improved by 0.942219

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.538
ELB improved by 0.992792

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.625
ELB improved by 0.912586

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.891
ELB improved by 0.734748

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.344
ELB improved by 0.546737

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.955
ELB improved by 0.388882

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.686
ELB improved by 0.26926

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.501
ELB improved by 0.184629

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.374
ELB improved by 0.127358

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.284
ELB improved by 0.0894636

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.22
ELB improved by 0.064558

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.172
ELB improved by 0.0481287

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.134
ELB improved by 0.0371654

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.105
ELB improved by 0.029712

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.08
ELB improved by 0.0245162

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.059
ELB improved by 0.0207841

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.041
ELB improved by 0.0180141

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.026
ELB improved by 0.0158891

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.011
ELB improved by 0.0142071

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.998
ELB improved by 0.0128382

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.987
ELB improved by 0.011697

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.976
ELB improved by 0.0107269

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.966
ELB improved by 0.0098889

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-843.81
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-579.111
ELB improved by 264.699

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-519.329
ELB improved by 59.7813

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-479.38
ELB improved by 39.9491

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-462.712
ELB improved by 16.6686

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.888
ELB improved by 5.82324

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.133
ELB improved by 2.75544

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.213
ELB improved by 1.92031

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.62
ELB improved by 1.59269

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.196
ELB improved by 1.42401

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.882
ELB improved by 1.3141

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.647
ELB improved by 1.23444

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.47
ELB improved by 1.17754

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.329
ELB improved by 1.14101

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.206
ELB improved by 1.12268

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.089
ELB improved by 1.1173

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.976
ELB improved by 1.11304

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.885
ELB improved by 1.09054

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.856
ELB improved by 1.02951

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.935
ELB improved by 0.920806

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.16
ELB improved by 0.775054

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.54
ELB improved by 0.620106

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.053
ELB improved by 0.486674

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.662
ELB improved by 0.391098

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.33
ELB improved by 0.331956

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.031
ELB improved by 0.299462

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.747
ELB improved by 0.283846

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.469
ELB improved by 0.278149

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.191
ELB improved by 0.277973

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.91
ELB improved by 0.280559

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.626
ELB improved by 0.284071

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.339
ELB improved by 0.287273

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.049
ELB improved by 0.289655

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.757
ELB improved by 0.291792

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.462
ELB improved by 0.295581

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.158
ELB improved by 0.303903

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.838
ELB improved by 0.319341

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.497
ELB improved by 0.341537

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.132
ELB improved by 0.364837

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.75
ELB improved by 0.381567

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.361
ELB improved by 0.389503

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.969
ELB improved by 0.392149

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.574
ELB improved by 0.394598

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.172
ELB improved by 0.401999

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.754
ELB improved by 0.417734

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.312
ELB improved by 0.442382

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.838
ELB improved by 0.474459

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.326
ELB improved by 0.511239

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.777
ELB improved by 0.549193

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.193
ELB improved by 0.584406

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.581
ELB improved by 0.612273

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.956
ELB improved by 0.624893

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.345
ELB improved by 0.611048

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.772
ELB improved by 0.5722

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.236
ELB improved by 0.536238

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.706
ELB improved by 0.530212

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.184
ELB improved by 0.522052

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.75
ELB improved by 0.433895

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.453
ELB improved by 0.297235

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.26
ELB improved by 0.192685

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.129
ELB improved by 0.13124

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.032
ELB improved by 0.0965298

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.956
ELB improved by 0.0765018

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.89
ELB improved by 0.0653329

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.83
ELB improved by 0.0608127

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.767
ELB improved by 0.0627795

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.694
ELB improved by 0.0724022

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.603
ELB improved by 0.0912636

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.484
ELB improved by 0.119082

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.333
ELB improved by 0.151208

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.152
ELB improved by 0.181081

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.949
ELB improved by 0.203147

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.746
ELB improved by 0.202629

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.582
ELB improved by 0.163918

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.475
ELB improved by 0.106982

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.412
ELB improved by 0.0631087

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.374
ELB improved by 0.0382479

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.348
ELB improved by 0.0254467

iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.33
ELB improved by 0.0187043

iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.315
ELB improved by 0.0148634

iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.302
ELB improved by 0.0124619

iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.291
ELB improved by 0.0108316

iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.282
ELB improved by 0.00965312

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-873.509
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-573.263
ELB improved by 300.246

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-517.098
ELB improved by 56.1657

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-481.712
ELB improved by 35.3853

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.374
ELB improved by 16.3378

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-458.327
ELB improved by 7.0477

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.484
ELB improved by 4.84261

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.674
ELB improved by 4.8103

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.172
ELB improved by 5.50197

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.828
ELB improved by 6.34343

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.238
ELB improved by 6.59003

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.406
ELB improved by 5.83198

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.043
ELB improved by 4.36344

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.277
ELB improved by 2.76585

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.568
ELB improved by 1.70932

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.39
ELB improved by 1.17788

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.488
ELB improved by 0.902188

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.756
ELB improved by 0.731893

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.152
ELB improved by 0.603498

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.641
ELB improved by 0.510999

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.185
ELB improved by 0.456412

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.757
ELB improved by 0.427913

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.343
ELB improved by 0.414499

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.932
ELB improved by 0.41106

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.516
ELB improved by 0.415919

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.087
ELB improved by 0.428602

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.639
ELB improved by 0.447633

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.172
ELB improved by 0.467802

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.691
ELB improved by 0.480427

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.211
ELB improved by 0.480462

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.739
ELB improved by 0.471362

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.28
ELB improved by 0.459298

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.832
ELB improved by 0.44782

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.394
ELB improved by 0.438607

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.96
ELB improved by 0.433627

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.523
ELB improved by 0.437425

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.06
ELB improved by 0.46207

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.521
ELB improved by 0.539494

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.798
ELB improved by 0.722857

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.865
ELB improved by 0.932985

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.935
ELB improved by 0.930533

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.114
ELB improved by 0.820721

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.397
ELB improved by 0.717323

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.778
ELB improved by 0.618794

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.255
ELB improved by 0.52232

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.824
ELB improved by 0.431375

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.474
ELB improved by 0.349956

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.193
ELB improved by 0.280724

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.968
ELB improved by 0.22495

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.786
ELB improved by 0.182396

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.635
ELB improved by 0.151344

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.505
ELB improved by 0.129229

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.392
ELB improved by 0.113487

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.29
ELB improved by 0.102158

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.196
ELB improved by 0.0941298

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.107
ELB improved by 0.0891518

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.019
ELB improved by 0.0877315

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.928
ELB improved by 0.0907939

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.83
ELB improved by 0.0982974

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.724
ELB improved by 0.105849

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.621
ELB improved by 0.103134

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.536
ELB improved by 0.0844248

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.477
ELB improved by 0.0594254

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.437
ELB improved by 0.0400674

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.408
ELB improved by 0.0284193

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.387
ELB improved by 0.021722

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.369
ELB improved by 0.0176153

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.354
ELB improved by 0.0148714

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.341
ELB improved by 0.0129092

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.33
ELB improved by 0.0114381

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.32
ELB improved by 0.0102973

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.31
ELB improved by 0.00938915

ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
> 
> proc.time()
   user  system elapsed 
   2.57    0.31    2.89

Example timings

graper.Rcheck/graper-Ex.timings

name	user	system	elapsed
coef.graper	0.05	0.02	0.06
getPIPs	0.04	0.01	0.07
graper	0.08	0.02	0.09
makeExampleData	0.02	0.00	0.02
makeExampleDataWithUnequalGroups	0.00	0.01	0.01
plotELBO	0.31	0.03	0.35
plotGroupPenalties	1.03	0.08	1.11
plotPosterior	0.55	0.02	0.56
predict.graper	1.97	0.05	2.12
print.graper	0.06	0.00	0.06