Britta Velten
| Snapshot Date: 2026-03-05 13:40 -0500 (Thu, 05 Mar 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 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-03-06 11:34 -0500 (Fri, 06 Mar 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4891 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" | 4593 |
| 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 926/2357 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.27.0 (landing page) Britta Velten
| nebbiolo1 | Linux (Ubuntu 24.04.3 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: 2026-03-06 00:38:31 -0500 (Fri, 06 Mar 2026) |
| EndedAt: 2026-03-06 00:40:02 -0500 (Fri, 06 Mar 2026) |
| EllapsedTime: 91.1 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 Under development (unstable) (2026-01-15 r89304)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* 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) 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) 13.3.0’ g++ -std=gnu++17 -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++17 -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++17 -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 Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences"
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=-829.921
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-565.336
ELB improved by 264.585
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-505.803
ELB improved by 59.5328
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-466.127
ELB improved by 39.6764
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.794
ELB improved by 17.3327
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.406
ELB improved by 5.38773
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.003
ELB improved by 2.40314
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.388
ELB improved by 1.61466
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.089
ELB improved by 1.29909
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.955
ELB improved by 1.13417
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.934
ELB improved by 1.02106
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.006
ELB improved by 0.928342
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.158
ELB improved by 0.847423
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.382
ELB improved by 0.776263
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.668
ELB improved by 0.714131
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.008
ELB improved by 0.660182
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.395
ELB improved by 0.613191
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.823
ELB improved by 0.571597
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.289
ELB improved by 0.533579
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.792
ELB improved by 0.497167
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.332
ELB improved by 0.460448
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.91
ELB improved by 0.421928
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.529
ELB improved by 0.38094
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.191
ELB improved by 0.337924
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.897
ELB improved by 0.294376
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.644
ELB improved by 0.252404
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.43
ELB improved by 0.21405
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.249
ELB improved by 0.180734
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.096
ELB improved by 0.153017
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.966
ELB improved by 0.130712
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.853
ELB improved by 0.113159
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.753
ELB improved by 0.0995108
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.664
ELB improved by 0.088929
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.583
ELB improved by 0.0806842
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.509
ELB improved by 0.0741898
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.44
ELB improved by 0.0689949
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.375
ELB improved by 0.0647626
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.314
ELB improved by 0.0612445
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.256
ELB improved by 0.0582592
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.2
ELB improved by 0.0556738
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.147
ELB improved by 0.053391
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.096
ELB improved by 0.0513392
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.046
ELB improved by 0.0494654
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.998
ELB improved by 0.0477304
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.952
ELB improved by 0.0461049
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.908
ELB improved by 0.0445671
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.865
ELB improved by 0.043101
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.823
ELB improved by 0.0416947
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.783
ELB improved by 0.0403398
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.744
ELB improved by 0.03903
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.706
ELB improved by 0.0377614
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.669
ELB improved by 0.0365309
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.634
ELB improved by 0.0353369
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.6
ELB improved by 0.0341782
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.567
ELB improved by 0.0330541
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.535
ELB improved by 0.0319642
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.504
ELB improved by 0.0309081
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.474
ELB improved by 0.0298856
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.445
ELB improved by 0.0288962
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.417
ELB improved by 0.0279395
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.39
ELB improved by 0.0270146
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.364
ELB improved by 0.0261209
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.339
ELB improved by 0.0252574
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.314
ELB improved by 0.024423
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.291
ELB improved by 0.0236167
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.268
ELB improved by 0.0228373
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.246
ELB improved by 0.0220835
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.224
ELB improved by 0.0213543
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.204
ELB improved by 0.0206482
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.184
ELB improved by 0.0199643
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.164
ELB improved by 0.0193013
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.146
ELB improved by 0.0186582
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.128
ELB improved by 0.018034
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.11
ELB improved by 0.0174277
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.093
ELB improved by 0.0168384
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.077
ELB improved by 0.0162655
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.061
ELB improved by 0.015708
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.046
ELB improved by 0.0151656
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.032
ELB improved by 0.0146375
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.018
ELB improved by 0.0141232
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.004
ELB improved by 0.0136225
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.991
ELB improved by 0.0131349
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.978
ELB improved by 0.0126602
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.966
ELB improved by 0.012198
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.954
ELB improved by 0.0117483
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.943
ELB improved by 0.011311
iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.932
ELB improved by 0.0108858
iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.922
ELB improved by 0.0104727
iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.911
ELB improved by 0.0100716
iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.902
ELB improved by 0.00968259
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-908.306
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-575.865
ELB improved by 332.44
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-515.662
ELB improved by 60.203
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-479.428
ELB improved by 36.2342
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-463.916
ELB improved by 15.5116
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.474
ELB improved by 7.44203
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.217
ELB improved by 5.25742
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.614
ELB improved by 4.60247
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.289
ELB improved by 4.32557
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.172
ELB improved by 4.11632
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.383
ELB improved by 3.78898
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.154
ELB improved by 3.22963
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.656
ELB improved by 2.49762
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.863
ELB improved by 1.79349
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.605
ELB improved by 1.25761
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.708
ELB improved by 0.896733
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.044
ELB improved by 0.663974
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.532
ELB improved by 0.512755
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.123
ELB improved by 0.408494
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.791
ELB improved by 0.332596
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.513
ELB improved by 0.278045
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.272
ELB improved by 0.240918
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.055
ELB improved by 0.216803
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.853
ELB improved by 0.201495
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.661
ELB improved by 0.191891
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.475
ELB improved by 0.186004
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.293
ELB improved by 0.182605
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.112
ELB improved by 0.180903
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.932
ELB improved by 0.180339
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.751
ELB improved by 0.180489
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.57
ELB improved by 0.18102
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.388
ELB improved by 0.181678
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.206
ELB improved by 0.182301
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.023
ELB improved by 0.182838
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.84
ELB improved by 0.183368
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.656
ELB improved by 0.184131
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.47
ELB improved by 0.185555
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.282
ELB improved by 0.188322
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.088
ELB improved by 0.193464
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.886
ELB improved by 0.202531
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.668
ELB improved by 0.21773
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.427
ELB improved by 0.241632
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.151
ELB improved by 0.27524
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.837
ELB improved by 0.313915
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.49
ELB improved by 0.347024
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.122
ELB improved by 0.368793
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.737
ELB improved by 0.384944
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.333
ELB improved by 0.403366
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.906
ELB improved by 0.427478
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.451
ELB improved by 0.45526
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.975
ELB improved by 0.475729
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.502
ELB improved by 0.472448
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.061
ELB improved by 0.44181
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.665
ELB improved by 0.395922
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.319
ELB improved by 0.345574
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.024
ELB improved by 0.294991
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.778
ELB improved by 0.246106
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.577
ELB improved by 0.200742
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.417
ELB improved by 0.160569
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.29
ELB improved by 0.126702
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.19
ELB improved by 0.0994508
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.112
ELB improved by 0.0783547
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.05
ELB improved by 0.0624938
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.999
ELB improved by 0.0508277
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.956
ELB improved by 0.042412
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.92
ELB improved by 0.0364741
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.888
ELB improved by 0.0323962
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.858
ELB improved by 0.0296549
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.83
ELB improved by 0.0277557
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.804
ELB improved by 0.0261985
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.779
ELB improved by 0.0245176
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.757
ELB improved by 0.0223977
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.737
ELB improved by 0.0197901
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.72
ELB improved by 0.0169098
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.706
ELB improved by 0.0140911
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.695
ELB improved by 0.0116105
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.685
ELB improved by 0.00959841
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-861.621
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-587.758
ELB improved by 273.864
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-523.791
ELB improved by 63.9669
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.703
ELB improved by 48.0877
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.142
ELB improved by 25.5605
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.669
ELB improved by 12.4738
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.317
ELB improved by 7.35126
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.341
ELB improved by 5.97589
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.329
ELB improved by 6.01203
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.847
ELB improved by 6.48279
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.21
ELB improved by 6.63716
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.365
ELB improved by 5.84495
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.103
ELB improved by 4.26201
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.405
ELB improved by 2.69768
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.776
ELB improved by 1.62896
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.764
ELB improved by 1.0119
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.093
ELB improved by 0.670898
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.611
ELB improved by 0.482516
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.234
ELB improved by 0.376257
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.92
ELB improved by 0.314003
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.644
ELB improved by 0.276155
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.391
ELB improved by 0.252736
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.153
ELB improved by 0.238468
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.923
ELB improved by 0.230392
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.696
ELB improved by 0.226748
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.469
ELB improved by 0.226447
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.241
ELB improved by 0.228794
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.007
ELB improved by 0.233335
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.767
ELB improved by 0.239774
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.52
ELB improved by 0.247907
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.262
ELB improved by 0.257581
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.993
ELB improved by 0.268657
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.712
ELB improved by 0.280977
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.418
ELB improved by 0.294335
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.11
ELB improved by 0.308469
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.786
ELB improved by 0.323092
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.448
ELB improved by 0.338002
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-383.095
ELB improved by 0.353321
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.725
ELB improved by 0.36995
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-382.335
ELB improved by 0.390219
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.917
ELB improved by 0.418106
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.461
ELB improved by 0.45583
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.97
ELB improved by 0.49148
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.476
ELB improved by 0.493758
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-380.025
ELB improved by 0.451121
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.634
ELB improved by 0.390196
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.301
ELB improved by 0.333847
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-379.012
ELB improved by 0.288171
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.759
ELB improved by 0.253504
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.528
ELB improved by 0.231317
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.298
ELB improved by 0.229188
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-378.027
ELB improved by 0.271741
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-377.613
ELB improved by 0.413236
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-376.996
ELB improved by 0.617344
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-376.399
ELB improved by 0.596761
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.972
ELB improved by 0.427174
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.666
ELB improved by 0.306017
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.452
ELB improved by 0.213899
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.313
ELB improved by 0.1388
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.225
ELB improved by 0.088001
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.167
ELB improved by 0.0584609
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.125
ELB improved by 0.0418059
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.093
ELB improved by 0.0319223
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.068
ELB improved by 0.0255297
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.047
ELB improved by 0.0209959
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.029
ELB improved by 0.0175118
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.015
ELB improved by 0.0146815
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.002
ELB improved by 0.0123204
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-374.992
ELB improved by 0.0103464
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-374.983
ELB improved by 0.00871676
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-853.298
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-573.826
ELB improved by 279.472
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-515.863
ELB improved by 57.963
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.024
ELB improved by 40.8392
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.15
ELB improved by 19.8747
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.185
ELB improved by 7.96463
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.938
ELB improved by 4.24738
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.658
ELB improved by 3.27995
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.619
ELB improved by 3.03894
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.566
ELB improved by 3.05284
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.381
ELB improved by 3.1847
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.016
ELB improved by 3.36493
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.524
ELB improved by 3.49258
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.114
ELB improved by 3.40963
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.112
ELB improved by 3.00226
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.758
ELB improved by 2.3534
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.053
ELB improved by 1.70559
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.824
ELB improved by 1.22899
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.897
ELB improved by 0.926344
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.165
ELB improved by 0.732763
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.558
ELB improved by 0.606295
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.029
ELB improved by 0.529364
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.54
ELB improved by 0.488729
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.07
ELB improved by 0.470131
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.611
ELB improved by 0.458595
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.166
ELB improved by 0.445926
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.729
ELB improved by 0.436758
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.292
ELB improved by 0.436689
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.847
ELB improved by 0.444755
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.387
ELB improved by 0.460307
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.899
ELB improved by 0.487967
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.365
ELB improved by 0.534299
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.771
ELB improved by 0.593461
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.136
ELB improved by 0.635034
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.498
ELB improved by 0.638378
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.876
ELB improved by 0.622285
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.267
ELB improved by 0.608768
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.657
ELB improved by 0.609965
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.014
ELB improved by 0.642549
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.282
ELB improved by 0.732721
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.409
ELB improved by 0.872317
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.449
ELB improved by 0.959916
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.489
ELB improved by 0.96038
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.558
ELB improved by 0.930882
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.675
ELB improved by 0.883416
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.864
ELB improved by 0.810652
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.152
ELB improved by 0.712392
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.554
ELB improved by 0.597503
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.074
ELB improved by 0.480185
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.7
ELB improved by 0.374294
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.411
ELB improved by 0.288834
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.184
ELB improved by 0.227037
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.995
ELB improved by 0.189002
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.819
ELB improved by 0.176153
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.625
ELB improved by 0.193855
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.387
ELB improved by 0.238222
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.128
ELB improved by 0.258704
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.921
ELB improved by 0.206505
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.79
ELB improved by 0.1316
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.709
ELB improved by 0.0810262
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.655
ELB improved by 0.0534084
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.617
ELB improved by 0.0384005
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.587
ELB improved by 0.0296693
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.563
ELB improved by 0.0240954
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.543
ELB improved by 0.0201953
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.526
ELB improved by 0.0172591
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.511
ELB improved by 0.0149381
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.498
ELB improved by 0.0130517
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.486
ELB improved by 0.0114974
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.476
ELB improved by 0.0102089
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.467
ELB improved by 0.00913791
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
2.327 0.185 2.501
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.055 | 0.012 | 0.068 | |
| getPIPs | 0.045 | 0.017 | 0.062 | |
| graper | 0.081 | 0.019 | 0.100 | |
| makeExampleData | 0.010 | 0.002 | 0.011 | |
| makeExampleDataWithUnequalGroups | 0.010 | 0.003 | 0.013 | |
| plotELBO | 0.314 | 0.033 | 0.347 | |
| plotGroupPenalties | 1.070 | 0.060 | 1.131 | |
| plotPosterior | 0.634 | 0.022 | 0.655 | |
| predict.graper | 2.058 | 0.064 | 2.122 | |
| print.graper | 0.052 | 0.011 | 0.062 | |