Britta Velten
| Snapshot Date: 2026-04-19 13:40 -0400 (Sun, 19 Apr 2026) |
| git_url: https://git.bioconductor.org/packages/graper |
| git_branch: devel |
| git_last_commit: 95474d7 |
| git_last_commit_date: 2025-10-29 10:49:21 -0400 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-04-20 11:35 -0400 (Mon, 20 Apr 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 alpha (2026-04-05 r89794) | 4961 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 alpha (2026-04-08 r89818) | 4690 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4627 |
| 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 938/2404 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.27.0 (landing page) Britta Velten
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
| See other builds for graper in R Universe. | ||||||||||||||
|
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. |
| Package: graper |
| Version: 1.27.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings graper_1.27.0.tar.gz |
| StartedAt: 2026-04-20 00:30:23 -0400 (Mon, 20 Apr 2026) |
| EndedAt: 2026-04-20 00:31:59 -0400 (Mon, 20 Apr 2026) |
| EllapsedTime: 96.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: graper.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/bbs-3.23-bioc/R/site-library --timings graper_1.27.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.23-bioc/meat/graper.Rcheck’
* using R version 4.6.0 alpha (2026-04-05 r89794)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0
* running under: Ubuntu 24.04.4 LTS
* using session charset: UTF-8
* current time: 2026-04-20 04:30:23 UTC
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.27.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘graper’ can be installed ... OK
* used C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0’
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
checkRd: (-1) predict.graper.Rd:19-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:23-24: Lost braces in \itemize; meant \describe ?
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... INFO
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/home/biocbuild/bbs-3.23-bioc/meat/graper.Rcheck/00check.log’
for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.23-bioc/R/site-library’ * installing *source* package ‘graper’ ... ** this is package ‘graper’ version ‘1.27.0’ ** using staged installation ** libs using C++ compiler: ‘g++ (Ubuntu 13.3.0-6ubuntu2~24.04.1) 13.3.0’ g++ -std=gnu++20 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BH/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c RcppExports.cpp -o RcppExports.o g++ -std=gnu++20 -I"/home/biocbuild/bbs-3.23-bioc/R/include" -DNDEBUG -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/Rcpp/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/RcppArmadillo/include' -I'/home/biocbuild/bbs-3.23-bioc/R/site-library/BH/include' -I/usr/local/include -fpic -g -O2 -Wall -Werror=format-security -c fit_graper.cpp -o fit_graper.o g++ -std=gnu++20 -shared -L/home/biocbuild/bbs-3.23-bioc/R/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -llapack -L/home/biocbuild/bbs-3.23-bioc/R/lib -lRblas -lgfortran -lm -lquadmath -L/home/biocbuild/bbs-3.23-bioc/R/lib -lR installing to /home/biocbuild/bbs-3.23-bioc/R/site-library/00LOCK-graper/00new/graper/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (graper)
graper.Rcheck/tests/testthat.Rout
R version 4.6.0 alpha (2026-04-05 r89794)
Copyright (C) 2026 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(graper)
>
> test_check("graper")
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-823.729
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-571.847
ELB improved by 251.881
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-512.542
ELB improved by 59.3048
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-472.618
ELB improved by 39.9249
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.19
ELB improved by 19.4278
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.758
ELB improved by 8.43147
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.169
ELB improved by 4.58898
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.722
ELB improved by 3.44747
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.671
ELB improved by 3.05056
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.843
ELB improved by 2.82826
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.254
ELB improved by 2.58875
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.989
ELB improved by 2.26496
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.112
ELB improved by 1.87718
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.626
ELB improved by 1.48614
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.485
ELB improved by 1.14051
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.623
ELB improved by 0.86257
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.968
ELB improved by 0.654885
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.461
ELB improved by 0.506687
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.06
ELB improved by 0.401745
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.734
ELB improved by 0.325494
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.466
ELB improved by 0.267861
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.243
ELB improved by 0.222862
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.056
ELB improved by 0.187168
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.897
ELB improved by 0.158822
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.761
ELB improved by 0.136438
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.642
ELB improved by 0.118847
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.537
ELB improved by 0.105022
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.443
ELB improved by 0.0941153
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.357
ELB improved by 0.0854758
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.279
ELB improved by 0.0786341
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.206
ELB improved by 0.0732601
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.136
ELB improved by 0.0691207
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.07
ELB improved by 0.0660462
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.006
ELB improved by 0.0639101
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.944
ELB improved by 0.062617
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.882
ELB improved by 0.0620974
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.819
ELB improved by 0.062305
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.756
ELB improved by 0.0632139
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.691
ELB improved by 0.0648176
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.624
ELB improved by 0.0671263
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.554
ELB improved by 0.0701653
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.48
ELB improved by 0.073972
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.402
ELB improved by 0.0785931
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.317
ELB improved by 0.084081
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.227
ELB improved by 0.0904891
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.129
ELB improved by 0.0978659
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.023
ELB improved by 0.106248
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.907
ELB improved by 0.115654
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.781
ELB improved by 0.126072
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.644
ELB improved by 0.137459
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.494
ELB improved by 0.149734
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.331
ELB improved by 0.162778
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.155
ELB improved by 0.176447
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.964
ELB improved by 0.19059
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.759
ELB improved by 0.205082
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.539
ELB improved by 0.219865
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.304
ELB improved by 0.235015
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.053
ELB improved by 0.250817
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.785
ELB improved by 0.267886
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.498
ELB improved by 0.287341
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.187
ELB improved by 0.311095
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.845
ELB improved by 0.342317
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.459
ELB improved by 0.386058
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.009
ELB improved by 0.449538
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.469
ELB improved by 0.539835
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.815
ELB improved by 0.653841
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.055
ELB improved by 0.760705
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.249
ELB improved by 0.805914
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.487
ELB improved by 0.761941
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.83
ELB improved by 0.656559
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.296
ELB improved by 0.534833
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.87
ELB improved by 0.425778
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.529
ELB improved by 0.341007
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.247
ELB improved by 0.28219
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406
ELB improved by 0.246424
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.773
ELB improved by 0.227486
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.56
ELB improved by 0.213081
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.372
ELB improved by 0.187291
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.224
ELB improved by 0.148258
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.113
ELB improved by 0.1112
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.028
ELB improved by 0.0850185
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.96
ELB improved by 0.0677333
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.904
ELB improved by 0.0558036
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.857
ELB improved by 0.0471547
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.816
ELB improved by 0.0406139
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.781
ELB improved by 0.0354149
iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.75
ELB improved by 0.0310676
iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.723
ELB improved by 0.0273072
iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.699
ELB improved by 0.0240193
iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.678
ELB improved by 0.021157
iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.659
ELB improved by 0.0186874
iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.642
ELB improved by 0.0165705
iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.627
ELB improved by 0.0147598
iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.614
ELB improved by 0.0132087
iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.602
ELB improved by 0.0118748
iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.592
ELB improved by 0.0107222
iteration 97
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.582
ELB improved by 0.00972152
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-907.5
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-574.881
ELB improved by 332.618
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-513.965
ELB improved by 60.9169
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-479.264
ELB improved by 34.7001
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-466.144
ELB improved by 13.1208
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.217
ELB improved by 5.92693
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.415
ELB improved by 3.80183
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.376
ELB improved by 3.0388
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.663
ELB improved by 2.7134
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.111
ELB improved by 2.55195
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.655
ELB improved by 2.45621
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.281
ELB improved by 2.37317
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.018
ELB improved by 2.26357
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.923
ELB improved by 2.09511
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.07
ELB improved by 1.85232
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.52
ELB improved by 1.54998
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.289
ELB improved by 1.23139
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.344
ELB improved by 0.945463
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.623
ELB improved by 0.720847
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.063
ELB improved by 0.559737
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.614
ELB improved by 0.449195
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.24
ELB improved by 0.373587
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.92
ELB improved by 0.320508
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.638
ELB improved by 0.281702
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.386
ELB improved by 0.252094
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.157
ELB improved by 0.228703
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.947
ELB improved by 0.209916
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.752
ELB improved by 0.195031
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.568
ELB improved by 0.183871
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.392
ELB improved by 0.176493
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.219
ELB improved by 0.17304
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.045
ELB improved by 0.173773
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.866
ELB improved by 0.179183
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.676
ELB improved by 0.1901
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.468
ELB improved by 0.207668
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.235
ELB improved by 0.233006
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.969
ELB improved by 0.266338
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.663
ELB improved by 0.305874
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.315
ELB improved by 0.347837
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.926
ELB improved by 0.389404
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.493
ELB improved by 0.432358
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.012
ELB improved by 0.481078
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.476
ELB improved by 0.536599
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.878
ELB improved by 0.597111
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.214
ELB improved by 0.664309
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.47
ELB improved by 0.743995
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.63
ELB improved by 0.839765
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.681
ELB improved by 0.949181
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.616
ELB improved by 1.06556
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.437
ELB improved by 1.17837
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.175
ELB improved by 1.26196
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.905
ELB improved by 1.27002
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.732
ELB improved by 1.17336
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.736
ELB improved by 0.995829
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.944
ELB improved by 0.791641
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.34
ELB improved by 0.604808
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.886
ELB improved by 0.453445
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.548
ELB improved by 0.338433
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.293
ELB improved by 0.254395
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.099
ELB improved by 0.194648
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.946
ELB improved by 0.153064
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.821
ELB improved by 0.124861
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.714
ELB improved by 0.106796
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.617
ELB improved by 0.0970368
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.522
ELB improved by 0.0948682
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.422
ELB improved by 0.0999736
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.312
ELB improved by 0.110482
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.192
ELB improved by 0.119962
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.073
ELB improved by 0.118563
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.97
ELB improved by 0.102764
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.89
ELB improved by 0.0800323
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.831
ELB improved by 0.0592974
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.787
ELB improved by 0.0439271
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.754
ELB improved by 0.0334224
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.727
ELB improved by 0.0263469
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.706
ELB improved by 0.0214984
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.688
ELB improved by 0.0180739
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.672
ELB improved by 0.0155721
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.659
ELB improved by 0.0136841
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.646
ELB improved by 0.0122174
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.635
ELB improved by 0.011049
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.625
ELB improved by 0.0100983
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.616
ELB improved by 0.00931064
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-867.895
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-604.287
ELB improved by 263.607
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-539.363
ELB improved by 64.9241
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-485.19
ELB improved by 54.1732
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-457.133
ELB improved by 28.0569
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.679
ELB improved by 11.4537
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.645
ELB improved by 7.03442
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.57
ELB improved by 6.07467
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.296
ELB improved by 6.27445
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.537
ELB improved by 6.7591
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.671
ELB improved by 6.86591
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.558
ELB improved by 6.11247
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.884
ELB improved by 4.67478
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.555
ELB improved by 3.32875
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.982
ELB improved by 2.57232
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.822
ELB improved by 2.16064
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.209
ELB improved by 1.61326
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.166
ELB improved by 1.04232
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.5
ELB improved by 0.665906
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.05
ELB improved by 0.450153
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.726
ELB improved by 0.324406
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.479
ELB improved by 0.246344
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.285
ELB improved by 0.19432
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.128
ELB improved by 0.157487
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.997
ELB improved by 0.130201
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.888
ELB improved by 0.109314
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.795
ELB improved by 0.0929332
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.715
ELB improved by 0.0798428
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.646
ELB improved by 0.069222
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.586
ELB improved by 0.0604944
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.532
ELB improved by 0.0532435
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.485
ELB improved by 0.0471614
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.443
ELB improved by 0.0420158
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.406
ELB improved by 0.0376292
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.372
ELB improved by 0.0338636
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.341
ELB improved by 0.0306107
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.313
ELB improved by 0.0277844
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.288
ELB improved by 0.0253159
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.265
ELB improved by 0.0231492
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.244
ELB improved by 0.0212389
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.224
ELB improved by 0.0195474
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.206
ELB improved by 0.0180439
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.189
ELB improved by 0.0167025
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.174
ELB improved by 0.0155016
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.159
ELB improved by 0.0144229
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.146
ELB improved by 0.0134509
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.133
ELB improved by 0.0125726
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.122
ELB improved by 0.0117767
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.111
ELB improved by 0.0110535
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.1
ELB improved by 0.0103946
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.09
ELB improved by 0.00979298
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-855.354
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-564.575
ELB improved by 290.779
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-503.602
ELB improved by 60.9738
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.643
ELB improved by 37.9584
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.009
ELB improved by 16.6343
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.782
ELB improved by 6.22646
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.662
ELB improved by 3.12077
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.517
ELB improved by 2.14427
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.778
ELB improved by 1.73983
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.226
ELB improved by 1.55123
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.767
ELB improved by 1.45969
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.348
ELB improved by 1.4184
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.938
ELB improved by 1.41001
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.51
ELB improved by 1.42835
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.041
ELB improved by 1.46924
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.516
ELB improved by 1.5248
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.937
ELB improved by 1.57888
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.334
ELB improved by 1.60309
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.776
ELB improved by 1.55788
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.365
ELB improved by 1.41091
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.194
ELB improved by 1.17133
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.295
ELB improved by 0.898427
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.636
ELB improved by 0.658992
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.152
ELB improved by 0.483858
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.784
ELB improved by 0.368539
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.488
ELB improved by 0.296034
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.237
ELB improved by 0.251064
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.014
ELB improved by 0.222942
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.809
ELB improved by 0.204669
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.617
ELB improved by 0.191857
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.435
ELB improved by 0.181897
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.262
ELB improved by 0.173313
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.097
ELB improved by 0.165318
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.939
ELB improved by 0.157532
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.789
ELB improved by 0.14981
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.647
ELB improved by 0.142141
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.513
ELB improved by 0.134585
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.386
ELB improved by 0.127228
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.265
ELB improved by 0.12016
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.152
ELB improved by 0.113455
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.045
ELB improved by 0.107167
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.943
ELB improved by 0.101326
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.847
ELB improved by 0.0959391
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.756
ELB improved by 0.0909934
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.67
ELB improved by 0.0864621
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.588
ELB improved by 0.0823071
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.509
ELB improved by 0.0784831
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.434
ELB improved by 0.074941
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.363
ELB improved by 0.0716315
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.294
ELB improved by 0.0685074
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.229
ELB improved by 0.0655274
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.166
ELB improved by 0.062658
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.106
ELB improved by 0.0598754
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.049
ELB improved by 0.0571658
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.994
ELB improved by 0.0545241
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.942
ELB improved by 0.0519513
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.893
ELB improved by 0.0494512
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.846
ELB improved by 0.047028
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.801
ELB improved by 0.044684
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.759
ELB improved by 0.0424195
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.719
ELB improved by 0.0402322
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.681
ELB improved by 0.0381189
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.644
ELB improved by 0.0360761
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.61
ELB improved by 0.0341008
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.578
ELB improved by 0.0321908
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.548
ELB improved by 0.0303453
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.519
ELB improved by 0.0285643
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.492
ELB improved by 0.0268489
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.467
ELB improved by 0.0252008
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.444
ELB improved by 0.0236217
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.421
ELB improved by 0.0221135
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.401
ELB improved by 0.0206779
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.381
ELB improved by 0.019316
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.363
ELB improved by 0.0180283
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.347
ELB improved by 0.016815
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.331
ELB improved by 0.0156752
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.316
ELB improved by 0.0146078
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.303
ELB improved by 0.0136109
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.29
ELB improved by 0.0126823
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.278
ELB improved by 0.0118192
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.267
ELB improved by 0.0110188
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.257
ELB improved by 0.0102777
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.247
ELB improved by 0.00959258
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
2.472 0.208 2.667
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.051 | 0.027 | 0.078 | |
| getPIPs | 0.080 | 0.026 | 0.106 | |
| graper | 0.084 | 0.017 | 0.100 | |
| makeExampleData | 0.01 | 0.00 | 0.01 | |
| makeExampleDataWithUnequalGroups | 0.011 | 0.000 | 0.011 | |
| plotELBO | 0.296 | 0.036 | 0.333 | |
| plotGroupPenalties | 0.947 | 0.017 | 0.965 | |
| plotPosterior | 0.663 | 0.010 | 0.674 | |
| predict.graper | 2.081 | 0.065 | 2.146 | |
| print.graper | 0.048 | 0.015 | 0.065 | |