Britta Velten
| Snapshot Date: 2026-04-14 13:40 -0400 (Tue, 14 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 2026-04-15 11:35 -0400 (Wed, 15 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) | 4925 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 alpha (2026-04-08 r89818) | 4656 |
| 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 936/2394 | 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 | | ||||||||
| 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: 2026-04-15 00:20:21 -0400 (Wed, 15 Apr 2026) |
| EndedAt: 2026-04-15 00:21:56 -0400 (Wed, 15 Apr 2026) |
| EllapsedTime: 95.1 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: 2026-04-15 04:20:21 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=-874.711
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-566.469
ELB improved by 308.242
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-507.373
ELB improved by 59.0953
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-471.246
ELB improved by 36.1279
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.09
ELB improved by 16.1553
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.055
ELB improved by 7.03568
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.379
ELB improved by 4.67516
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.119
ELB improved by 4.26034
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.76
ELB improved by 4.35892
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.072
ELB improved by 4.68782
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.041
ELB improved by 5.03078
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.985
ELB improved by 5.05662
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.506
ELB improved by 4.47841
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.097
ELB improved by 3.40905
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.786
ELB improved by 2.31154
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.248
ELB improved by 1.53769
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.107
ELB improved by 1.14083
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.046
ELB improved by 1.06106
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.924
ELB improved by 1.12215
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.982
ELB improved by 0.941781
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.329
ELB improved by 0.653831
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.852
ELB improved by 0.47684
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.466
ELB improved by 0.385314
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.128
ELB improved by 0.337861
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.816
ELB improved by 0.312081
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.519
ELB improved by 0.297262
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.231
ELB improved by 0.288421
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.948
ELB improved by 0.283148
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.667
ELB improved by 0.280237
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.388
ELB improved by 0.279139
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.108
ELB improved by 0.279805
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.826
ELB improved by 0.282723
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.537
ELB improved by 0.289124
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.235
ELB improved by 0.301322
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.912
ELB improved by 0.322931
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.554
ELB improved by 0.357818
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.149
ELB improved by 0.405195
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.697
ELB improved by 0.45202
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.218
ELB improved by 0.479381
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.73
ELB improved by 0.487407
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.234
ELB improved by 0.496535
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.709
ELB improved by 0.525228
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.121
ELB improved by 0.587645
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.414
ELB improved by 0.706749
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.533
ELB improved by 0.881459
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.566
ELB improved by 0.967217
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.686
ELB improved by 0.880121
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.937
ELB improved by 0.748832
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.312
ELB improved by 0.624378
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.805
ELB improved by 0.507046
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.403
ELB improved by 0.401966
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.087
ELB improved by 0.316387
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.835
ELB improved by 0.252009
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.632
ELB improved by 0.202742
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.473
ELB improved by 0.159055
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.356
ELB improved by 0.116633
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.277
ELB improved by 0.0793001
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.225
ELB improved by 0.0516911
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.192
ELB improved by 0.0338872
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.168
ELB improved by 0.023175
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.152
ELB improved by 0.0168139
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.139
ELB improved by 0.0129484
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.128
ELB improved by 0.0104971
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.119
ELB improved by 0.00886151
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-845.712
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-578.995
ELB improved by 266.717
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-519.994
ELB improved by 59.0012
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-479.812
ELB improved by 40.1813
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.492
ELB improved by 19.3199
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.29
ELB improved by 8.20233
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.867
ELB improved by 4.42263
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.297
ELB improved by 3.57009
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.685
ELB improved by 3.61233
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.662
ELB improved by 4.02297
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.076
ELB improved by 4.58576
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.087
ELB improved by 4.98945
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.242
ELB improved by 4.84439
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.173
ELB improved by 4.0699
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.139
ELB improved by 3.03363
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.024
ELB improved by 2.11524
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.568
ELB improved by 1.45605
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.528
ELB improved by 1.03932
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.747
ELB improved by 0.781009
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.142
ELB improved by 0.60547
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.668
ELB improved by 0.473889
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.291
ELB improved by 0.376533
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.983
ELB improved by 0.308363
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.722
ELB improved by 0.261333
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.493
ELB improved by 0.228355
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.289
ELB improved by 0.204754
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.101
ELB improved by 0.187596
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.926
ELB improved by 0.174979
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.76
ELB improved by 0.165636
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.602
ELB improved by 0.158707
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.448
ELB improved by 0.153598
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.298
ELB improved by 0.149892
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.151
ELB improved by 0.1473
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.005
ELB improved by 0.145635
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.86
ELB improved by 0.144799
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.716
ELB improved by 0.144786
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.57
ELB improved by 0.145697
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.422
ELB improved by 0.147766
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.271
ELB improved by 0.151403
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.114
ELB improved by 0.157244
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.947
ELB improved by 0.166181
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.768
ELB improved by 0.179234
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.571
ELB improved by 0.197045
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.352
ELB improved by 0.2189
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.11
ELB improved by 0.242127
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.846
ELB improved by 0.263629
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.564
ELB improved by 0.282754
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.262
ELB improved by 0.301575
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.94
ELB improved by 0.322481
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.593
ELB improved by 0.346642
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.219
ELB improved by 0.374055
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.815
ELB improved by 0.403987
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.38
ELB improved by 0.435243
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.913
ELB improved by 0.466341
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.418
ELB improved by 0.495723
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.896
ELB improved by 0.522079
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.351
ELB improved by 0.544807
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.786
ELB improved by 0.564485
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.203
ELB improved by 0.582973
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.601
ELB improved by 0.602364
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.98
ELB improved by 0.620777
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.359
ELB improved by 0.620958
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.792
ELB improved by 0.566851
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.337
ELB improved by 0.455198
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.999
ELB improved by 0.337779
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.754
ELB improved by 0.245378
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.577
ELB improved by 0.176927
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.45
ELB improved by 0.127414
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.357
ELB improved by 0.0926065
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.289
ELB improved by 0.068458
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.237
ELB improved by 0.0516337
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.197
ELB improved by 0.0397497
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.166
ELB improved by 0.0312113
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.141
ELB improved by 0.0249707
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.121
ELB improved by 0.0203354
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.104
ELB improved by 0.0168406
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.09
ELB improved by 0.0141689
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.078
ELB improved by 0.0120995
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.067
ELB improved by 0.0104765
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.058
ELB improved by 0.00918795
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-887.824
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-569.013
ELB improved by 318.811
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-510.383
ELB improved by 58.6298
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-476.955
ELB improved by 33.4276
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-464.495
ELB improved by 12.4604
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-459.513
ELB improved by 4.98219
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.507
ELB improved by 3.00556
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.129
ELB improved by 2.37842
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.933
ELB improved by 2.19534
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.754
ELB improved by 2.17946
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.535
ELB improved by 2.2192
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.288
ELB improved by 2.24671
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.079
ELB improved by 2.20911
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.008
ELB improved by 2.07117
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.178
ELB improved by 1.82989
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.657
ELB improved by 1.52063
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.457
ELB improved by 1.20037
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.539
ELB improved by 0.918169
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.843
ELB improved by 0.69608
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.311
ELB improved by 0.531114
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.9
ELB improved by 0.41137
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.573
ELB improved by 0.326818
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.304
ELB improved by 0.269017
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.074
ELB improved by 0.229944
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.871
ELB improved by 0.203031
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.688
ELB improved by 0.183786
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.518
ELB improved by 0.169442
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.36
ELB improved by 0.158352
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.21
ELB improved by 0.149523
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.068
ELB improved by 0.142326
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.932
ELB improved by 0.136338
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.8
ELB improved by 0.131257
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.673
ELB improved by 0.126855
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.55
ELB improved by 0.122956
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.431
ELB improved by 0.11942
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.315
ELB improved by 0.116137
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.202
ELB improved by 0.113022
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.092
ELB improved by 0.110014
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.985
ELB improved by 0.107072
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.881
ELB improved by 0.104176
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.779
ELB improved by 0.101322
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.681
ELB improved by 0.0985231
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.585
ELB improved by 0.0958051
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.492
ELB improved by 0.0932048
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.401
ELB improved by 0.0907674
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.312
ELB improved by 0.0885441
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.226
ELB improved by 0.0865909
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.141
ELB improved by 0.0849676
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.057
ELB improved by 0.0837383
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.974
ELB improved by 0.0829738
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.891
ELB improved by 0.0827554
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.808
ELB improved by 0.0831827
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.724
ELB improved by 0.0843864
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.637
ELB improved by 0.0865497
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.547
ELB improved by 0.0899458
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.452
ELB improved by 0.0950023
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.35
ELB improved by 0.102412
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.237
ELB improved by 0.113301
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.107
ELB improved by 0.129404
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.954
ELB improved by 0.152907
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.769
ELB improved by 0.184928
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.548
ELB improved by 0.221282
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.3
ELB improved by 0.248323
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.049
ELB improved by 0.250938
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.817
ELB improved by 0.232114
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.607
ELB improved by 0.210071
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.41
ELB improved by 0.197173
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.213
ELB improved by 0.19664
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.003
ELB improved by 0.209866
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.763
ELB improved by 0.240325
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.469
ELB improved by 0.293387
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.097
ELB improved by 0.372113
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.635
ELB improved by 0.461708
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.123
ELB improved by 0.51236
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.628
ELB improved by 0.495341
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.184
ELB improved by 0.443999
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.8
ELB improved by 0.383678
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.481
ELB improved by 0.319422
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.225
ELB improved by 0.255316
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.029
ELB improved by 0.196569
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.881
ELB improved by 0.147302
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.772
ELB improved by 0.109227
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.691
ELB improved by 0.0815763
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.628
ELB improved by 0.0622245
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.58
ELB improved by 0.0488844
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.54
ELB improved by 0.0396946
iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.507
ELB improved by 0.0333119
iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.478
ELB improved by 0.0288048
iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.452
ELB improved by 0.0255165
iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.429
ELB improved by 0.0229633
iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.409
ELB improved by 0.0207828
iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.39
ELB improved by 0.0187253
iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.373
ELB improved by 0.0166663
iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.359
ELB improved by 0.0146035
iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.346
ELB improved by 0.0126187
iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.335
ELB improved by 0.0108148
iteration 97
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.326
ELB improved by 0.00926426
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-850.802
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-593.551
ELB improved by 257.251
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-529.327
ELB improved by 64.2244
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-485.129
ELB improved by 44.1982
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-464.439
ELB improved by 20.6901
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.698
ELB improved by 9.74055
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.633
ELB improved by 7.06459
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.533
ELB improved by 7.10079
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.223
ELB improved by 7.30951
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.539
ELB improved by 6.68371
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.192
ELB improved by 5.34784
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.381
ELB improved by 3.81112
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.975
ELB improved by 2.4055
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.549
ELB improved by 1.42643
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.69
ELB improved by 0.859021
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.133
ELB improved by 0.556855
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.734
ELB improved by 0.399042
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.419
ELB improved by 0.31503
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.15
ELB improved by 0.268618
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.908
ELB improved by 0.241866
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.682
ELB improved by 0.225745
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.467
ELB improved by 0.215515
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.258
ELB improved by 0.208558
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.055
ELB improved by 0.203369
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.856
ELB improved by 0.199068
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.661
ELB improved by 0.195162
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.469
ELB improved by 0.191408
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.282
ELB improved by 0.18773
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.097
ELB improved by 0.184163
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.917
ELB improved by 0.180808
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.739
ELB improved by 0.177805
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.564
ELB improved by 0.175307
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.39
ELB improved by 0.173466
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.218
ELB improved by 0.172426
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.045
ELB improved by 0.172319
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.872
ELB improved by 0.173269
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.697
ELB improved by 0.175392
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.518
ELB improved by 0.178808
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.334
ELB improved by 0.183642
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.144
ELB improved by 0.190026
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.946
ELB improved by 0.198079
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.738
ELB improved by 0.207822
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.519
ELB improved by 0.218984
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.289
ELB improved by 0.230631
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.048
ELB improved by 0.240884
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.8
ELB improved by 0.247384
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.551
ELB improved by 0.248937
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.304
ELB improved by 0.247005
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.059
ELB improved by 0.245346
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.81
ELB improved by 0.248951
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.546
ELB improved by 0.264453
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.245
ELB improved by 0.300562
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.887
ELB improved by 0.358504
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.485
ELB improved by 0.401798
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.108
ELB improved by 0.376355
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.8
ELB improved by 0.30811
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.551
ELB improved by 0.249403
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.342
ELB improved by 0.208657
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.164
ELB improved by 0.178434
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.011
ELB improved by 0.153312
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.88
ELB improved by 0.13096
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.769
ELB improved by 0.11078
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.676
ELB improved by 0.0927552
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.599
ELB improved by 0.076873
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.536
ELB improved by 0.0630589
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.485
ELB improved by 0.0512402
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.444
ELB improved by 0.0413416
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.41
ELB improved by 0.0332376
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.384
ELB improved by 0.0267353
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.362
ELB improved by 0.0215973
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.344
ELB improved by 0.0175779
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.33
ELB improved by 0.0144507
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.318
ELB improved by 0.0120218
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.308
ELB improved by 0.0101332
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.299
ELB improved by 0.00865987
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
2.409 0.208 2.604
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.050 | 0.019 | 0.070 | |
| getPIPs | 0.077 | 0.025 | 0.102 | |
| graper | 0.080 | 0.021 | 0.101 | |
| makeExampleData | 0.01 | 0.00 | 0.01 | |
| makeExampleDataWithUnequalGroups | 0.011 | 0.001 | 0.012 | |
| plotELBO | 0.307 | 0.024 | 0.331 | |
| plotGroupPenalties | 0.925 | 0.013 | 0.938 | |
| plotPosterior | 0.656 | 0.011 | 0.667 | |
| predict.graper | 2.062 | 0.071 | 2.134 | |
| print.graper | 0.051 | 0.014 | 0.064 | |