Back to Multiple platform build/check report for BioC 3.13
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This page was generated on 2021-10-15 15:06:38 -0400 (Fri, 15 Oct 2021).

CHECK results for graper on machv2

To the developers/maintainers of the graper package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/graper.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 804/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
graper 1.8.0  (landing page)
Britta Velten
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/graper
git_branch: RELEASE_3_13
git_last_commit: f94ff44
git_last_commit_date: 2021-05-19 12:40:09 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: graper
Version: 1.8.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings graper_1.8.0.tar.gz
StartedAt: 2021-10-14 19:45:30 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 19:46:48 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 77.6 seconds
RetCode: 0
Status:   OK  
CheckDir: graper.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:graper.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings graper_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/graper.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.8.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
  .git_fetch_output.txt
  .git_merge_output.txt
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘graper’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.13-bioc/meat/graper.Rcheck/00check.log’
for details.



Installation output

graper.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘graper’ ...
** using staged installation
** libs
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG  -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.1/Resources/library/BH/include' -I/usr/local/include   -fPIC  -Wall -g -O2  -c fit_graper.cpp -o fit_graper.o
clang++ -mmacosx-version-min=10.13 -std=gnu++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin18/8.2.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.1/Resources/library/00LOCK-graper/00new/graper/libs
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (graper)

Tests output

graper.Rcheck/tests/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (64-bit)

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

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

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

> library(testthat)
> library(graper)
> 
> test_check("graper")
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-892.34
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-574.099
ELB improved by 318.241

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-509.682
ELB improved by 64.4169

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.011
ELB improved by 42.6706

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.881
ELB improved by 18.1305

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.202
ELB improved by 7.67881

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.582
ELB improved by 4.62002

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.251
ELB improved by 3.33074

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.543
ELB improved by 2.7078

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.085
ELB improved by 2.45799

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.654
ELB improved by 2.43144

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.101
ELB improved by 2.55283

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.315
ELB improved by 2.78661

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.217
ELB improved by 3.09739

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.827
ELB improved by 3.38997

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.344
ELB improved by 3.4832

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.098
ELB improved by 3.24574

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.341
ELB improved by 2.75687

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.125
ELB improved by 2.21625

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.39
ELB improved by 1.73485

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.085
ELB improved by 1.30486

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.149
ELB improved by 0.935917

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.493
ELB improved by 0.65646

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.027
ELB improved by 0.466235

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.68
ELB improved by 0.346561

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.406
ELB improved by 0.273988

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.177
ELB improved by 0.229658

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.975
ELB improved by 0.20175

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.791
ELB improved by 0.183665

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.619
ELB improved by 0.171846

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.455
ELB improved by 0.164369

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.295
ELB improved by 0.160174

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.136
ELB improved by 0.15867

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.977
ELB improved by 0.159538

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.814
ELB improved by 0.162632

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.646
ELB improved by 0.167927

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.47
ELB improved by 0.175503

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.285
ELB improved by 0.185539

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.087
ELB improved by 0.198307

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.872
ELB improved by 0.214178

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.639
ELB improved by 0.233579

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.382
ELB improved by 0.256891

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.098
ELB improved by 0.284233

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.783
ELB improved by 0.315188

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.434
ELB improved by 0.348747

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.05
ELB improved by 0.383891

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.629
ELB improved by 0.420641

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.169
ELB improved by 0.460235

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.666
ELB improved by 0.503021

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.121
ELB improved by 0.544595

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.547
ELB improved by 0.574404

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.965
ELB improved by 0.581648

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.402
ELB improved by 0.56321

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.878
ELB improved by 0.524434

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.402
ELB improved by 0.47573

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.972
ELB improved by 0.430068

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.57
ELB improved by 0.401847

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.163
ELB improved by 0.407438

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.704
ELB improved by 0.458351

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.19
ELB improved by 0.514075

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.723
ELB improved by 0.467486

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.387
ELB improved by 0.335351

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.167
ELB improved by 0.220658

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.019
ELB improved by 0.147555

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.916
ELB improved by 0.103192

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.841
ELB improved by 0.0753701

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.784
ELB improved by 0.0569088

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.74
ELB improved by 0.0439965

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.705
ELB improved by 0.034625

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.677
ELB improved by 0.0276745

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.655
ELB improved by 0.0224569

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.636
ELB improved by 0.0185085

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.621
ELB improved by 0.0154981

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.608
ELB improved by 0.013184

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.596
ELB improved by 0.0113882

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.586
ELB improved by 0.00998015

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-831.637
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-579.575
ELB improved by 252.062

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-514.618
ELB improved by 64.9572

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.402
ELB improved by 49.2163

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.256
ELB improved by 25.1454

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.886
ELB improved by 10.3709

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.639
ELB improved by 5.24677

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.579
ELB improved by 3.05995

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.45
ELB improved by 2.12832

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.736
ELB improved by 1.71476

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.243
ELB improved by 1.49246

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.902
ELB improved by 1.34168

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.679
ELB improved by 1.22266

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.555
ELB improved by 1.12434

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.511
ELB improved by 1.04342

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.535
ELB improved by 0.976314

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.618
ELB improved by 0.916716

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.762
ELB improved by 0.855822

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.977
ELB improved by 0.78506

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.277
ELB improved by 0.700247

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.673
ELB improved by 0.604417

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.166
ELB improved by 0.506592

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.749
ELB improved by 0.417086

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.406
ELB improved by 0.343017

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.119
ELB improved by 0.286805

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.872
ELB improved by 0.247305

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.65
ELB improved by 0.221704

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.443
ELB improved by 0.206925

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.243
ELB improved by 0.20031

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.043
ELB improved by 0.199803

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.839
ELB improved by 0.203888

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.628
ELB improved by 0.211456

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.406
ELB improved by 0.221679

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.172
ELB improved by 0.233936

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.924
ELB improved by 0.247823

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.661
ELB improved by 0.263213

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.381
ELB improved by 0.280384

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.081
ELB improved by 0.300143

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.757
ELB improved by 0.323937

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.403
ELB improved by 0.353892

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.01
ELB improved by 0.392691

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.567
ELB improved by 0.4431

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.06
ELB improved by 0.506827

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.477
ELB improved by 0.582728

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.812
ELB improved by 0.665156

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.068
ELB improved by 0.744061

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.259
ELB improved by 0.809139

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.404
ELB improved by 0.854557

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.53
ELB improved by 0.874466

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.668
ELB improved by 0.861508

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.848
ELB improved by 0.820377

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.08
ELB improved by 0.767976

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.372
ELB improved by 0.708041

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.748
ELB improved by 0.6238

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.237
ELB improved by 0.511241

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.843
ELB improved by 0.394516

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.545
ELB improved by 0.297924

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.315
ELB improved by 0.229583

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.127
ELB improved by 0.188318

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.953
ELB improved by 0.173431

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.762
ELB improved by 0.191694

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.5
ELB improved by 0.261814

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.103
ELB improved by 0.396444

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.584
ELB improved by 0.519273

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.095
ELB improved by 0.489269

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.71
ELB improved by 0.384793

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.344
ELB improved by 0.365841

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.912
ELB improved by 0.432434

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.482
ELB improved by 0.429749

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.16
ELB improved by 0.322239

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.937
ELB improved by 0.222931

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.788
ELB improved by 0.14924

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.693
ELB improved by 0.0947073

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.633
ELB improved by 0.0595057

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.594
ELB improved by 0.039532

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.565
ELB improved by 0.0287437

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.542
ELB improved by 0.0227394

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.523
ELB improved by 0.0190951

iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.507
ELB improved by 0.0166299

iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.492
ELB improved by 0.0147932

iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.478
ELB improved by 0.0133265

iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.466
ELB improved by 0.012103

iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.455
ELB improved by 0.0110554

iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.445
ELB improved by 0.0101444

iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.436
ELB improved by 0.00934434

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-896.968
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-581.205
ELB improved by 315.763

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-527.496
ELB improved by 53.7092

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-495.261
ELB improved by 32.2347

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-479.559
ELB improved by 15.7024

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-472.235
ELB improved by 7.32415

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.949
ELB improved by 4.2856

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-464.707
ELB improved by 3.24195

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-461.882
ELB improved by 2.82506

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-459.303
ELB improved by 2.57884

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.964
ELB improved by 2.33904

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.912
ELB improved by 2.05197

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.194
ELB improved by 1.71779

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.829
ELB improved by 1.36572

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.793
ELB improved by 1.03591

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.031
ELB improved by 0.761823

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.475
ELB improved by 0.556261

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.062
ELB improved by 0.412384

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.748
ELB improved by 0.314806

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.499
ELB improved by 0.24859

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.296
ELB improved by 0.202625

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.127
ELB improved by 0.169615

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.982
ELB improved by 0.145014

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.856
ELB improved by 0.126029

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.745
ELB improved by 0.110921

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.646
ELB improved by 0.0985835

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.558
ELB improved by 0.088289

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.478
ELB improved by 0.0795477

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.406
ELB improved by 0.0720202

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.341
ELB improved by 0.0654644

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.281
ELB improved by 0.0597034

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.227
ELB improved by 0.0546046

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.176
ELB improved by 0.0500657

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.13
ELB improved by 0.046006

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.088
ELB improved by 0.0423605

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.049
ELB improved by 0.0390761

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.013
ELB improved by 0.0361082

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.979
ELB improved by 0.0334193

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.949
ELB improved by 0.0309775

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.92
ELB improved by 0.0287554

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.893
ELB improved by 0.0267292

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.868
ELB improved by 0.0248782

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.845
ELB improved by 0.0231845

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.823
ELB improved by 0.0216321

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.803
ELB improved by 0.0202071

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.784
ELB improved by 0.0188972

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.767
ELB improved by 0.0176915

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.75
ELB improved by 0.0165803

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.734
ELB improved by 0.0155549

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.72
ELB improved by 0.0146076

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.706
ELB improved by 0.0137315

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.693
ELB improved by 0.0129203

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.681
ELB improved by 0.0121685

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.67
ELB improved by 0.0114711

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.659
ELB improved by 0.0108234

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.648
ELB improved by 0.0102215

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.639
ELB improved by 0.00966153

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-930.254
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-584.58
ELB improved by 345.675

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-525.336
ELB improved by 59.2436

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-490.052
ELB improved by 35.2836

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.2
ELB improved by 15.8523

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-466.45
ELB improved by 7.74993

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.723
ELB improved by 5.72702

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.26
ELB improved by 5.46348

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.501
ELB improved by 5.75832

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.624
ELB improved by 5.8777

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.376
ELB improved by 5.24778

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.451
ELB improved by 3.92531

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.897
ELB improved by 2.55395

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.305
ELB improved by 1.59203

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.272
ELB improved by 1.03264

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.556
ELB improved by 0.716056

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.028
ELB improved by 0.527984

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.619
ELB improved by 0.408981

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.29
ELB improved by 0.329164

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.017
ELB improved by 0.272935

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.785
ELB improved by 0.231727

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.585
ELB improved by 0.200585

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.408
ELB improved by 0.176504

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.25
ELB improved by 0.157596

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.108
ELB improved by 0.142645

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.977
ELB improved by 0.130862

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.855
ELB improved by 0.121745

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.74
ELB improved by 0.114984

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.63
ELB improved by 0.110401

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.522
ELB improved by 0.107869

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.415
ELB improved by 0.107206

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.307
ELB improved by 0.108023

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.197
ELB improved by 0.109558

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.086
ELB improved by 0.110653

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.976
ELB improved by 0.110008

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.87
ELB improved by 0.106698

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.769
ELB improved by 0.100651

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.676
ELB improved by 0.0927203

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.592
ELB improved by 0.0841702

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.516
ELB improved by 0.0759222

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.448
ELB improved by 0.0681733

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.388
ELB improved by 0.0606214

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.335
ELB improved by 0.0529824

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.289
ELB improved by 0.0453664

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.251
ELB improved by 0.0382611

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.219
ELB improved by 0.0321955

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.191
ELB improved by 0.0274229

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.167
ELB improved by 0.0238654

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.146
ELB improved by 0.0212589

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.127
ELB improved by 0.0193148

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.109
ELB improved by 0.0178036

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.092
ELB improved by 0.0165713

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.077
ELB improved by 0.015523

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.062
ELB improved by 0.0146032

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.049
ELB improved by 0.0137794

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.036
ELB improved by 0.0130319

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.023
ELB improved by 0.0123483

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.011
ELB improved by 0.0117199

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424
ELB improved by 0.0111403

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.99
ELB improved by 0.0106043

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.98
ELB improved by 0.0101077

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.97
ELB improved by 0.00964678

ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
> 
> proc.time()
   user  system elapsed 
  3.235   0.275   3.516 

Example timings

graper.Rcheck/graper-Ex.timings

nameusersystemelapsed
coef.graper0.0700.0250.099
getPIPs0.0510.0160.066
graper0.1120.0350.147
makeExampleData0.0160.0010.018
makeExampleDataWithUnequalGroups0.0170.0020.020
plotELBO0.2660.0270.294
plotGroupPenalties0.8950.0240.919
plotPosterior0.9200.0611.015
predict.graper2.4090.1102.525
print.graper0.0670.0220.091