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This page was generated on 2024-05-04 11:36:38 -0400 (Sat, 04 May 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.3 LTS)x86_644.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" 4753
palomino3Windows Server 2022 Datacenterx644.4.0 beta (2024-04-15 r86425 ucrt) -- "Puppy Cup" 4486
lconwaymacOS 12.7.1 Montereyx86_644.4.0 beta (2024-04-14 r86421) -- "Puppy Cup" 4519
kunpeng2Linux (openEuler 22.03 LTS-SP1)aarch644.4.0 beta (2024-04-15 r86425) -- "Puppy Cup" 4479
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 908/2300HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
graper 1.20.0  (landing page)
Britta Velten
Snapshot Date: 2024-05-03 14:00:19 -0400 (Fri, 03 May 2024)
git_url: https://git.bioconductor.org/packages/graper
git_branch: RELEASE_3_19
git_last_commit: a4dfa52
git_last_commit_date: 2024-04-30 11:11:42 -0400 (Tue, 30 Apr 2024)
nebbiolo1Linux (Ubuntu 22.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 22.03 LTS-SP1) / aarch64  OK    OK    OK  
kjohnson3macOS 13.6.5 Ventura / arm64see weekly results here

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: 1.20.0
Command: /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings graper_1.20.0.tar.gz
StartedAt: 2024-05-03 23:51:52 -0400 (Fri, 03 May 2024)
EndedAt: 2024-05-03 23:53:14 -0400 (Fri, 03 May 2024)
EllapsedTime: 81.3 seconds
RetCode: 0
Status:   OK  
CheckDir: graper.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.19-bioc/R/site-library --timings graper_1.20.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.19-bioc/meat/graper.Rcheck’
* using R version 4.4.0 beta (2024-04-15 r86425)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
    GNU Fortran (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0
* running under: Ubuntu 22.04.4 LTS
* using session charset: UTF-8
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.20.0’
* 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 11.4.0-1ubuntu1~22.04) 11.4.0’
* 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 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 ... 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 ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.19-bioc/meat/graper.Rcheck/00check.log’
for details.


Installation output

graper.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.19-bioc/R/bin/R CMD INSTALL graper
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.19-bioc/R/site-library’
* installing *source* package ‘graper’ ...
** using staged installation
** libs
using C++ compiler: ‘g++ (Ubuntu 11.4.0-1ubuntu1~22.04) 11.4.0’
using C++11
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.19-bioc/R/include" -DNDEBUG  -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include' -I/usr/local/include    -fpic  -g -O2  -Wall  -c fit_graper.cpp -o fit_graper.o
In file included from /home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include/boost/math/special_functions/detail/round_fwd.hpp:11,
                 from /home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include/boost/math/special_functions/math_fwd.hpp:29,
                 from /home/biocbuild/bbs-3.19-bioc/R/site-library/BH/include/boost/math/special_functions/digamma.hpp:15,
                 from graper_linear_dense_ff.h:2,
                 from fit_graper.cpp:4:
/home/biocbuild/bbs-3.19-bioc/R/site-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++ -std=gnu++11 -shared -L/home/biocbuild/bbs-3.19-bioc/R/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -llapack -L/home/biocbuild/bbs-3.19-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.19-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.19-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 version 4.4.0 beta (2024-04-15 r86425) -- "Puppy Cup"
Copyright (C) 2024 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=-851.116
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-583.216
ELB improved by 267.901

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-524.14
ELB improved by 59.0759

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-479.046
ELB improved by 45.0937

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.716
ELB improved by 22.3301

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.676
ELB improved by 8.04006

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.228
ELB improved by 3.44765

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.143
ELB improved by 2.08546

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.578
ELB improved by 1.56418

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.251
ELB improved by 1.32718

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.039
ELB improved by 1.21203

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.881
ELB improved by 1.15792

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.74
ELB improved by 1.14149

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.585
ELB improved by 1.15458

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.391
ELB improved by 1.19457

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.132
ELB improved by 1.2591

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.789
ELB improved by 1.34251

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.356
ELB improved by 1.43349

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.839
ELB improved by 1.5162

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.262
ELB improved by 1.57704

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.647
ELB improved by 1.61507

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.999
ELB improved by 1.64849

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.291
ELB improved by 1.70781

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.496
ELB improved by 1.79466

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.653
ELB improved by 1.84315

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.842
ELB improved by 1.81162

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.109
ELB improved by 1.73206

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.478
ELB improved by 1.6317

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.956
ELB improved by 1.52143

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.55
ELB improved by 1.40625

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.264
ELB improved by 1.28591

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.106
ELB improved by 1.15811

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.083
ELB improved by 1.02292

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.199
ELB improved by 0.884328

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.45
ELB improved by 0.748722

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.827
ELB improved by 0.623009

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.313
ELB improved by 0.513705

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.888
ELB improved by 0.425242

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.531
ELB improved by 0.357105

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.228
ELB improved by 0.303191

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.972
ELB improved by 0.255843

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.761
ELB improved by 0.211427

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.589
ELB improved by 0.171104

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.452
ELB improved by 0.137052

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.343
ELB improved by 0.109864

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.254
ELB improved by 0.0887419

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.181
ELB improved by 0.072473

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.121
ELB improved by 0.0599496

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.071
ELB improved by 0.0502786

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.028
ELB improved by 0.0427552

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.992
ELB improved by 0.0368299

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.959
ELB improved by 0.0320864

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.931
ELB improved by 0.0282198

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.906
ELB improved by 0.0250126

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.884
ELB improved by 0.022312

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.864
ELB improved by 0.0200098

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.846
ELB improved by 0.0180285

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.83
ELB improved by 0.0163108

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.815
ELB improved by 0.0148133

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.801
ELB improved by 0.013502

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.789
ELB improved by 0.0123495

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.778
ELB improved by 0.0113333

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.767
ELB improved by 0.0104349

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.757
ELB improved by 0.00963853

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-882.752
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-587.804
ELB improved by 294.947

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-526.346
ELB improved by 61.4576

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-486.105
ELB improved by 40.2417

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.971
ELB improved by 18.1336

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.796
ELB improved by 7.17489

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.626
ELB improved by 4.17029

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.05
ELB improved by 3.57565

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.542
ELB improved by 3.50828

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.923
ELB improved by 3.61909

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.172
ELB improved by 3.75092

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.452
ELB improved by 3.72026

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.093
ELB improved by 3.35894

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.41
ELB improved by 2.68323

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.477
ELB improved by 1.93255

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.139
ELB improved by 1.33779

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.187
ELB improved by 0.951934

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.469
ELB improved by 0.718306

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.894
ELB improved by 0.574634

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.41
ELB improved by 0.484399

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.981
ELB improved by 0.428763

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.585
ELB improved by 0.396295

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.206
ELB improved by 0.379364

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.832
ELB improved by 0.373162

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.458
ELB improved by 0.374835

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.075
ELB improved by 0.382598

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.68
ELB improved by 0.395081

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.269
ELB improved by 0.411063

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.839
ELB improved by 0.429647

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.389
ELB improved by 0.450528

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.915
ELB improved by 0.473712

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.416
ELB improved by 0.49871

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.892
ELB improved by 0.524297

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.342
ELB improved by 0.549618

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.767
ELB improved by 0.575314

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.164
ELB improved by 0.60276

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.533
ELB improved by 0.631706

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.875
ELB improved by 0.657469

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.204
ELB improved by 0.671527

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.533
ELB improved by 0.670681

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.87
ELB improved by 0.662494

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.213
ELB improved by 0.657509

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.547
ELB improved by 0.665785

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.849
ELB improved by 0.698255

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.103
ELB improved by 0.74612

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.363
ELB improved by 0.739918

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.725
ELB improved by 0.638264

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.215
ELB improved by 0.509807

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.83
ELB improved by 0.385178

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.56
ELB improved by 0.269336

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.378
ELB improved by 0.182558

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.25
ELB improved by 0.127617

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.156
ELB improved by 0.0940792

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.083
ELB improved by 0.0729317

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.024
ELB improved by 0.0588367

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.975
ELB improved by 0.048849

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.934
ELB improved by 0.041366

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.898
ELB improved by 0.0355137

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.868
ELB improved by 0.0308025

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.841
ELB improved by 0.0269422

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.817
ELB improved by 0.0237456

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.796
ELB improved by 0.0210803

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.777
ELB improved by 0.0188454

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.76
ELB improved by 0.0169608

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.745
ELB improved by 0.0153614

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.731
ELB improved by 0.0139945

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.718
ELB improved by 0.0128174

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.706
ELB improved by 0.0117959

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.695
ELB improved by 0.0109027

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.685
ELB improved by 0.0101157

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.676
ELB improved by 0.00941753

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-881.222
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-579.139
ELB improved by 302.083

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-517.315
ELB improved by 61.8237

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.014
ELB improved by 42.3005

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-457.049
ELB improved by 17.9659

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.247
ELB improved by 6.80168

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.73
ELB improved by 4.51722

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.636
ELB improved by 4.09371

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.475
ELB improved by 4.16132

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.009
ELB improved by 4.46602

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.193
ELB improved by 4.81522

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.242
ELB improved by 4.95173

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.629
ELB improved by 4.61243

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.854
ELB improved by 3.77489

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.128
ELB improved by 2.72678

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.335
ELB improved by 1.7927

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.205
ELB improved by 1.13022

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.47
ELB improved by 0.734575

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.952
ELB improved by 0.518341

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.552
ELB improved by 0.399798

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.222
ELB improved by 0.330233

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.937
ELB improved by 0.284531

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.687
ELB improved by 0.250082

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.466
ELB improved by 0.221081

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.27
ELB improved by 0.195769

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.096
ELB improved by 0.174222

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.939
ELB improved by 0.156603

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.797
ELB improved by 0.142542

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.666
ELB improved by 0.131354

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.543
ELB improved by 0.122364

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.428
ELB improved by 0.115045

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.319
ELB improved by 0.10902

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.215
ELB improved by 0.104016

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.115
ELB improved by 0.0998342

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.019
ELB improved by 0.0963189

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.926
ELB improved by 0.0933482

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.835
ELB improved by 0.0908245

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.746
ELB improved by 0.0886692

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.659
ELB improved by 0.0868202

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.574
ELB improved by 0.0852294

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.49
ELB improved by 0.0838616

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.408
ELB improved by 0.0826933

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.326
ELB improved by 0.0817113

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.245
ELB improved by 0.0809122

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.165
ELB improved by 0.0803007

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.085
ELB improved by 0.0798894

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.005
ELB improved by 0.0796975

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.925
ELB improved by 0.0797503

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.845
ELB improved by 0.0800791

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.764
ELB improved by 0.0807218

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.683
ELB improved by 0.0817242

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.6
ELB improved by 0.0831429

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.515
ELB improved by 0.0850489

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.427
ELB improved by 0.0875343

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.336
ELB improved by 0.0907197

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.242
ELB improved by 0.0947649

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.142
ELB improved by 0.0998798

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.035
ELB improved by 0.106335

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.921
ELB improved by 0.114467

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.796
ELB improved by 0.124674

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.659
ELB improved by 0.137395

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.506
ELB improved by 0.153012

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.334
ELB improved by 0.171544

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.142
ELB improved by 0.191802

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.932
ELB improved by 0.210124

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.712
ELB improved by 0.220625

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.492
ELB improved by 0.219331

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.284
ELB improved by 0.208213

iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.091
ELB improved by 0.192641

iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.915
ELB improved by 0.176463

iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.754
ELB improved by 0.161004

iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.608
ELB improved by 0.146381

iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.475
ELB improved by 0.132476

iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.356
ELB improved by 0.119236

iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.249
ELB improved by 0.106697

iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.154
ELB improved by 0.0949423

iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.07
ELB improved by 0.0840608

iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.996
ELB improved by 0.0741127

iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.931
ELB improved by 0.0651196

iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.874
ELB improved by 0.0570654

iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.824
ELB improved by 0.0499063

iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.78
ELB improved by 0.0435823

iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.742
ELB improved by 0.0380253

iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.709
ELB improved by 0.0331654

iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.68
ELB improved by 0.0289336

iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.655
ELB improved by 0.0252626

iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.633
ELB improved by 0.0220884

iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.614
ELB improved by 0.0193503

iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.597
ELB improved by 0.0169919

iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.582
ELB improved by 0.0149621

iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.568
ELB improved by 0.013215

iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.557
ELB improved by 0.0117103

iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.546
ELB improved by 0.0104131

iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.537
ELB improved by 0.00929314

ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-836.977
ELB improved by inf

iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-610.542
ELB improved by 226.435

iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-550.77
ELB improved by 59.7718

iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-498.544
ELB improved by 52.2264

iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-468.376
ELB improved by 30.1675

iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.046
ELB improved by 12.3302

iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.835
ELB improved by 6.21071

iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.311
ELB improved by 4.52461

iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.387
ELB improved by 3.92392

iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.878
ELB improved by 3.5088

iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.853
ELB improved by 3.02526

iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.404
ELB improved by 2.44819

iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.562
ELB improved by 1.84246

iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.26
ELB improved by 1.30141

iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.355
ELB improved by 0.905847

iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.699
ELB improved by 0.65534

iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.194
ELB improved by 0.50493

iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.78
ELB improved by 0.414288

iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.422
ELB improved by 0.358231

iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.099
ELB improved by 0.32257

iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.8
ELB improved by 0.299356

iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.516
ELB improved by 0.284057

iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.242
ELB improved by 0.274204

iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.973
ELB improved by 0.268743

iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.705
ELB improved by 0.267564

iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.434
ELB improved by 0.27109

iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.154
ELB improved by 0.280092

iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.858
ELB improved by 0.295746

iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.539
ELB improved by 0.319583

iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.186
ELB improved by 0.352739

iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.792
ELB improved by 0.393963

iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.354
ELB improved by 0.437701

iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.878
ELB improved by 0.4761

iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.374
ELB improved by 0.504623

iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.85
ELB improved by 0.524

iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.313
ELB improved by 0.537089

iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.767
ELB improved by 0.546076

iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.215
ELB improved by 0.551911

iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.66
ELB improved by 0.554434

iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.108
ELB improved by 0.552222

iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.565
ELB improved by 0.542693

iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.042
ELB improved by 0.523339

iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.548
ELB improved by 0.493899

iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.09
ELB improved by 0.457764

iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.669
ELB improved by 0.421149

iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.279
ELB improved by 0.38976

iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.916
ELB improved by 0.363849

iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.579
ELB improved by 0.336136

iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.281
ELB improved by 0.298151

iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.032
ELB improved by 0.248879

iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.836
ELB improved by 0.196013

iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.686
ELB improved by 0.149945

iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.57
ELB improved by 0.116567

iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.473
ELB improved by 0.0967523

iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.383
ELB improved by 0.0903747

iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.283
ELB improved by 0.0992193

iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.159
ELB improved by 0.124966

iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.003
ELB improved by 0.15546

iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.847
ELB improved by 0.155847

iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.732
ELB improved by 0.115646

iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.662
ELB improved by 0.0696934

iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.622
ELB improved by 0.0401638

iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.597
ELB improved by 0.0250747

iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.579
ELB improved by 0.0177965

iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.565
ELB improved by 0.0141033

iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.553
ELB improved by 0.0119809

iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.542
ELB improved by 0.0105686

iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.533
ELB improved by 0.00951091

ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
> 
> proc.time()
   user  system elapsed 
  2.135   0.169   2.293 

Example timings

graper.Rcheck/graper-Ex.timings

nameusersystemelapsed
coef.graper0.0580.0130.070
getPIPs0.0560.0060.063
graper0.0790.0280.107
makeExampleData0.0070.0040.011
makeExampleDataWithUnequalGroups0.0090.0040.013
plotELBO0.2190.0320.251
plotGroupPenalties0.8440.0440.888
plotPosterior0.4630.0150.479
predict.graper2.0580.0712.130
print.graper0.0510.0120.063