Britta Velten
| Snapshot Date: 2026-01-12 13:45 -0500 (Mon, 12 Jan 2026) |
| git_url: https://git.bioconductor.org/packages/graper |
| git_branch: RELEASE_3_22 |
| git_last_commit: 76fc31b |
| git_last_commit_date: 2025-10-29 10:49:21 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2026-01-15 11:59 -0500 (Thu, 15 Jan 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4886 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4672 |
| 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 922/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.26.0 (landing page) Britta Velten
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: graper |
| Version: 1.26.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings graper_1.26.0.tar.gz |
| StartedAt: 2026-01-13 10:00:57 -0000 (Tue, 13 Jan 2026) |
| EndedAt: 2026-01-13 10:02:16 -0000 (Tue, 13 Jan 2026) |
| EllapsedTime: 79.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: graper.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings graper_1.26.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/graper.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.26.0’
* 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: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’
* checking installed package size ... INFO
installed size is 6.0Mb
sub-directories of 1Mb or more:
libs 5.8Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... NOTE
checkRd: (-1) predict.graper.Rd:19-21: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:22: Lost braces in \itemize; meant \describe ?
checkRd: (-1) predict.graper.Rd:23-24: Lost braces in \itemize; meant \describe ?
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/home/biocbuild/bbs-3.22-bioc/meat/graper.Rcheck/00check.log’
for details.
graper.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL graper ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’ * installing *source* package ‘graper’ ... ** this is package ‘graper’ version ‘1.26.0’ ** using staged installation ** libs using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’ /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.5.0/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c RcppExports.cpp -o RcppExports.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.5.0/include" -DNDEBUG -I'/home/biocbuild/R/R-4.5.0/site-library/Rcpp/include' -I'/home/biocbuild/R/R-4.5.0/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-4.5.0/site-library/BH/include' -I/usr/local/include -fPIC -g -O2 -Wall -Werror=format-security -c fit_graper.cpp -o fit_graper.o /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.5.0/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -lopenblas -lgfortran -lm -L/home/biocbuild/R/R-4.5.0/lib -lR installing to /home/biocbuild/R/R-4.5.0/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 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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=-883.068
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-578.002
ELB improved by 305.066
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-520.965
ELB improved by 57.0367
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-484.799
ELB improved by 36.1662
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-468.634
ELB improved by 16.1647
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-461.509
ELB improved by 7.1255
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.499
ELB improved by 5.00929
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.032
ELB improved by 4.46781
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.379
ELB improved by 4.65245
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.059
ELB improved by 5.3206
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.785
ELB improved by 6.27397
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.649
ELB improved by 7.13542
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.603
ELB improved by 7.04656
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.118
ELB improved by 5.48477
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.657
ELB improved by 3.46041
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.67
ELB improved by 1.98752
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.494
ELB improved by 1.17584
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.736
ELB improved by 0.758261
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.2
ELB improved by 0.536013
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.79
ELB improved by 0.409391
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.459
ELB improved by 0.331651
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.178
ELB improved by 0.280497
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.934
ELB improved by 0.244788
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.715
ELB improved by 0.218615
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.516
ELB improved by 0.198649
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.333
ELB improved by 0.182899
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.163
ELB improved by 0.170115
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.004
ELB improved by 0.159482
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.853
ELB improved by 0.150464
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.711
ELB improved by 0.142723
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.574
ELB improved by 0.136083
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.444
ELB improved by 0.130532
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.318
ELB improved by 0.126266
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.194
ELB improved by 0.123829
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.069
ELB improved by 0.124441
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.939
ELB improved by 0.130861
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.789
ELB improved by 0.149652
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.592
ELB improved by 0.197065
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.281
ELB improved by 0.311326
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.721
ELB improved by 0.55996
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.71
ELB improved by 1.01096
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.923
ELB improved by 1.78689
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.377
ELB improved by 2.54619
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.102
ELB improved by 2.27428
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.206
ELB improved by 1.89658
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.879
ELB improved by 2.32629
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.482
ELB improved by 2.39762
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.427
ELB improved by 2.0548
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.643
ELB improved by 1.78441
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.134
ELB improved by 1.50813
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.915
ELB improved by 1.21979
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.954
ELB improved by 0.960319
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.201
ELB improved by 0.753374
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.609
ELB improved by 0.592015
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.15
ELB improved by 0.459132
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.803
ELB improved by 0.346382
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.549
ELB improved by 0.254255
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.365
ELB improved by 0.183732
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.233
ELB improved by 0.132599
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.136
ELB improved by 0.0966024
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.065
ELB improved by 0.0714327
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.011
ELB improved by 0.0537028
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.97
ELB improved by 0.0410477
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.938
ELB improved by 0.0318872
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.913
ELB improved by 0.0251692
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.893
ELB improved by 0.0201839
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.876
ELB improved by 0.0164435
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.863
ELB improved by 0.0136078
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.851
ELB improved by 0.0114358
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.842
ELB improved by 0.00975547
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-876.112
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-599.745
ELB improved by 276.367
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-542.461
ELB improved by 57.2838
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-499.552
ELB improved by 42.9087
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-476.92
ELB improved by 22.6319
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.927
ELB improved by 8.99296
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-464.153
ELB improved by 3.77439
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-461.794
ELB improved by 2.35893
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-459.901
ELB improved by 1.89308
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-458.195
ELB improved by 1.7064
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.563
ELB improved by 1.6318
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.972
ELB improved by 1.59075
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.433
ELB improved by 1.53897
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.985
ELB improved by 1.44797
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.679
ELB improved by 1.30589
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.555
ELB improved by 1.12437
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.623
ELB improved by 0.931556
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.87
ELB improved by 0.7536
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.265
ELB improved by 0.604829
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.775
ELB improved by 0.489704
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.369
ELB improved by 0.406306
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.02
ELB improved by 0.348812
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.71
ELB improved by 0.310323
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.425
ELB improved by 0.285028
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.156
ELB improved by 0.268796
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.897
ELB improved by 0.258863
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.644
ELB improved by 0.25336
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.393
ELB improved by 0.250985
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.142
ELB improved by 0.25079
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.89
ELB improved by 0.252047
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.636
ELB improved by 0.25417
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.379
ELB improved by 0.256672
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.12
ELB improved by 0.259168
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.858
ELB improved by 0.261411
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.595
ELB improved by 0.263381
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.33
ELB improved by 0.26538
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.062
ELB improved by 0.268123
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.789
ELB improved by 0.272819
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.507
ELB improved by 0.281245
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.212
ELB improved by 0.295723
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.893
ELB improved by 0.318624
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.542
ELB improved by 0.350931
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.151
ELB improved by 0.390865
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.716
ELB improved by 0.435567
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.233
ELB improved by 0.482439
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.712
ELB improved by 0.521671
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.175
ELB improved by 0.537117
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.648
ELB improved by 0.526479
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.147
ELB improved by 0.50126
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.677
ELB improved by 0.470191
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.24
ELB improved by 0.436677
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.837
ELB improved by 0.402746
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.466
ELB improved by 0.370917
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.122
ELB improved by 0.344577
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.794
ELB improved by 0.328004
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.468
ELB improved by 0.326067
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.125
ELB improved by 0.342185
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.754
ELB improved by 0.371639
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.358
ELB improved by 0.395493
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.963
ELB improved by 0.395145
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.594
ELB improved by 0.368918
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.273
ELB improved by 0.321202
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.011
ELB improved by 0.262431
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.804
ELB improved by 0.206722
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.643
ELB improved by 0.160535
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.52
ELB improved by 0.123427
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.426
ELB improved by 0.0934478
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.357
ELB improved by 0.0696331
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.305
ELB improved by 0.0516618
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.266
ELB improved by 0.0388848
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.236
ELB improved by 0.0301677
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.212
ELB improved by 0.0242928
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.192
ELB improved by 0.0202755
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.174
ELB improved by 0.0174365
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.159
ELB improved by 0.015345
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.145
ELB improved by 0.0137378
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.133
ELB improved by 0.0124555
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.121
ELB improved by 0.0114003
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.111
ELB improved by 0.010511
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.101
ELB improved by 0.00974783
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-896.779
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-560.045
ELB improved by 336.734
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-500.713
ELB improved by 59.3322
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-468.769
ELB improved by 31.9435
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.122
ELB improved by 12.6469
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.713
ELB improved by 5.40913
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.714
ELB improved by 2.99943
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.707
ELB improved by 2.00689
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.136
ELB improved by 1.57038
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.75
ELB improved by 1.38661
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.421
ELB improved by 1.32895
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.076
ELB improved by 1.34467
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.661
ELB improved by 1.41477
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.126
ELB improved by 1.53536
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.418
ELB improved by 1.70765
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.486
ELB improved by 1.93227
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.284
ELB improved by 2.20235
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.794
ELB improved by 2.48985
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.064
ELB improved by 2.72959
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.239
ELB improved by 2.82497
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.539
ELB improved by 2.70005
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.172
ELB improved by 2.36767
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.238
ELB improved by 1.93387
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.714
ELB improved by 1.52351
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.512
ELB improved by 1.20263
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.543
ELB improved by 0.968987
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.747
ELB improved by 0.795359
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.092
ELB improved by 0.65561
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.561
ELB improved by 0.531083
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.14
ELB improved by 0.420722
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.809
ELB improved by 0.331146
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.547
ELB improved by 0.262164
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.337
ELB improved by 0.209345
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.168
ELB improved by 0.168948
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.03
ELB improved by 0.138292
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.915
ELB improved by 0.115109
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.818
ELB improved by 0.0974347
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.734
ELB improved by 0.0837085
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.661
ELB improved by 0.0727976
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.597
ELB improved by 0.0639231
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.541
ELB improved by 0.0565599
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.49
ELB improved by 0.0503526
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.445
ELB improved by 0.0450545
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.405
ELB improved by 0.0404887
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.368
ELB improved by 0.0365242
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.335
ELB improved by 0.0330605
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.305
ELB improved by 0.0300189
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.278
ELB improved by 0.0273363
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.253
ELB improved by 0.0249611
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.23
ELB improved by 0.0228509
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.209
ELB improved by 0.0209702
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.19
ELB improved by 0.0192892
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.172
ELB improved by 0.0177828
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.155
ELB improved by 0.0164296
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.14
ELB improved by 0.015211
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.126
ELB improved by 0.0141114
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.113
ELB improved by 0.0131171
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.101
ELB improved by 0.0122163
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.089
ELB improved by 0.0113986
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.079
ELB improved by 0.010655
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.069
ELB improved by 0.00997779
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-835.574
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-567.736
ELB improved by 267.838
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-510.383
ELB improved by 57.3536
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.026
ELB improved by 36.3573
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-457.245
ELB improved by 16.7804
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-449.726
ELB improved by 7.51909
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.536
ELB improved by 4.19024
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.278
ELB improved by 3.25801
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.276
ELB improved by 3.00168
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.382
ELB improved by 2.8944
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.646
ELB improved by 2.73595
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.214
ELB improved by 2.4323
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.222
ELB improved by 1.99191
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.707
ELB improved by 1.51439
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.603
ELB improved by 1.10467
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.8
ELB improved by 0.802626
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.207
ELB improved by 0.592529
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.76
ELB improved by 0.447478
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.41
ELB improved by 0.350086
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.122
ELB improved by 0.287814
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.873
ELB improved by 0.249175
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.648
ELB improved by 0.225167
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.438
ELB improved by 0.209991
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.237
ELB improved by 0.200298
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.043
ELB improved by 0.194201
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.853
ELB improved by 0.190603
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.664
ELB improved by 0.188823
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.475
ELB improved by 0.188415
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.286
ELB improved by 0.189072
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.096
ELB improved by 0.190592
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.903
ELB improved by 0.192857
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.707
ELB improved by 0.195832
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.507
ELB improved by 0.19957
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.303
ELB improved by 0.204224
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.093
ELB improved by 0.210066
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.876
ELB improved by 0.21752
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.648
ELB improved by 0.227215
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.408
ELB improved by 0.240094
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.151
ELB improved by 0.257589
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.869
ELB improved by 0.281942
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.552
ELB improved by 0.316695
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.185
ELB improved by 0.367225
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.744
ELB improved by 0.440352
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.204
ELB improved by 0.540553
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.541
ELB improved by 0.662461
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.75
ELB improved by 0.791877
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.829
ELB improved by 0.920297
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.785
ELB improved by 1.04403
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.633
ELB improved by 1.15212
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.4
ELB improved by 1.23331
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.107
ELB improved by 1.29276
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.769
ELB improved by 1.33851
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.462
ELB improved by 1.3068
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.35
ELB improved by 1.11159
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.533
ELB improved by 0.817486
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.995
ELB improved by 0.537344
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.661
ELB improved by 0.33431
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.45
ELB improved by 0.211444
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.308
ELB improved by 0.141982
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.206
ELB improved by 0.102034
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.128
ELB improved by 0.0776833
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.066
ELB improved by 0.0618082
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.015
ELB improved by 0.0508152
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.972
ELB improved by 0.0428137
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.936
ELB improved by 0.0367477
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.904
ELB improved by 0.0319928
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.876
ELB improved by 0.0281614
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.851
ELB improved by 0.0250039
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.828
ELB improved by 0.0223544
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.808
ELB improved by 0.0200987
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.79
ELB improved by 0.0181566
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.773
ELB improved by 0.0164694
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.758
ELB improved by 0.0149935
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.745
ELB improved by 0.0136952
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.732
ELB improved by 0.0125481
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.721
ELB improved by 0.0115309
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.71
ELB improved by 0.010626
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.7
ELB improved by 0.00981895
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
2.812 0.156 2.960
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.048 | 0.004 | 0.052 | |
| getPIPs | 0.047 | 0.000 | 0.046 | |
| graper | 0.073 | 0.000 | 0.072 | |
| makeExampleData | 0.008 | 0.000 | 0.008 | |
| makeExampleDataWithUnequalGroups | 0.009 | 0.000 | 0.009 | |
| plotELBO | 0.408 | 0.032 | 0.441 | |
| plotGroupPenalties | 1.572 | 0.064 | 1.644 | |
| plotPosterior | 0.953 | 0.008 | 0.963 | |
| predict.graper | 1.024 | 0.033 | 1.060 | |
| print.graper | 0.044 | 0.008 | 0.052 | |