Britta Velten
| Snapshot Date: 2025-10-13 13:40 -0400 (Mon, 13 Oct 2025) |
| git_url: https://git.bioconductor.org/packages/graper |
| git_branch: RELEASE_3_21 |
| git_last_commit: fb5f237 |
| git_last_commit_date: 2025-06-24 03:18:49 -0400 (Tue, 24 Jun 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-10-16 11:41 -0400 (Thu, 16 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4833 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4614 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4555 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4586 |
| 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 915/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.24.2 (landing page) Britta Velten
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.7.5 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | 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: 1.24.2 |
| 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_1.24.2.tar.gz |
| StartedAt: 2025-10-14 09:52:56 -0000 (Tue, 14 Oct 2025) |
| EndedAt: 2025-10-14 09:54:15 -0000 (Tue, 14 Oct 2025) |
| 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_1.24.2.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/graper.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* 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-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘graper/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘graper’ version ‘1.24.2’
* 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-3.21-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-devel_2025-02-19/site-library’ * installing *source* package ‘graper’ ... ** this is package ‘graper’ version ‘1.24.2’ ** 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/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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/include" -DNDEBUG -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/Rcpp/include' -I'/home/biocbuild/R/R-devel_2025-02-19/site-library/RcppArmadillo/include' -I'/home/biocbuild/R/R-devel_2025-02-19/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/lib -L/usr/local/lib -o graper.so RcppExports.o fit_graper.o -L/home/biocbuild/R/R/lib -lRlapack -L/home/biocbuild/R/R/lib -lRblas -lgfortran -lm -L/home/biocbuild/R/R/lib -lR installing to /home/biocbuild/R/R-devel_2025-02-19/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) (2025-02-19 r87757) -- "Unsuffered Consequences"
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=-842.323
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-551.674
ELB improved by 290.65
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-492.586
ELB improved by 59.0874
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-458.247
ELB improved by 34.3389
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.451
ELB improved by 14.7964
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.841
ELB improved by 6.60954
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.989
ELB improved by 3.85224
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.033
ELB improved by 2.95582
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.372
ELB improved by 2.66147
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.752
ELB improved by 2.61941
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.04
ELB improved by 2.7128
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.138
ELB improved by 2.90112
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.994
ELB improved by 3.14489
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.639
ELB improved by 3.35472
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.245
ELB improved by 3.39418
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.095
ELB improved by 3.14957
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.482
ELB improved by 2.6133
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.533
ELB improved by 1.94877
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.151
ELB improved by 1.38182
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.14
ELB improved by 1.01118
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.334
ELB improved by 0.806465
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.636
ELB improved by 0.697166
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.011
ELB improved by 0.624957
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-396.451
ELB improved by 0.560442
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.952
ELB improved by 0.498803
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.51
ELB improved by 0.442126
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.118
ELB improved by 0.391919
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.768
ELB improved by 0.34969
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.452
ELB improved by 0.316465
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.16
ELB improved by 0.292239
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.883
ELB improved by 0.276442
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.615
ELB improved by 0.268616
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.346
ELB improved by 0.26885
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.068
ELB improved by 0.278001
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.77
ELB improved by 0.297869
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.439
ELB improved by 0.331295
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.057
ELB improved by 0.382068
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.602
ELB improved by 0.454542
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.051
ELB improved by 0.551309
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.392
ELB improved by 0.658754
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.666
ELB improved by 0.726417
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.945
ELB improved by 0.720118
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-388.273
ELB improved by 0.672345
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.661
ELB improved by 0.612017
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-387.118
ELB improved by 0.54299
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.652
ELB improved by 0.466253
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.265
ELB improved by 0.387042
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.953
ELB improved by 0.312263
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.705
ELB improved by 0.24706
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.512
ELB improved by 0.193502
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.361
ELB improved by 0.15119
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.242
ELB improved by 0.118473
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.149
ELB improved by 0.0933985
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.075
ELB improved by 0.074202
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-385.015
ELB improved by 0.0594554
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.967
ELB improved by 0.0480633
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.928
ELB improved by 0.0392042
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.896
ELB improved by 0.0322666
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.869
ELB improved by 0.0267954
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.846
ELB improved by 0.0224507
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.827
ELB improved by 0.0189771
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.811
ELB improved by 0.0161812
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.797
ELB improved by 0.0139162
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.785
ELB improved by 0.0120695
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.775
ELB improved by 0.0105542
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-384.765
ELB improved by 0.00930304
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-902.39
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-606.207
ELB improved by 296.183
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-545.764
ELB improved by 60.4431
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-498.642
ELB improved by 47.1219
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.825
ELB improved by 23.817
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.582
ELB improved by 9.24341
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.764
ELB improved by 4.81825
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-457.202
ELB improved by 3.56105
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-454.001
ELB improved by 3.20185
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.827
ELB improved by 3.17341
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.546
ELB improved by 3.28108
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.101
ELB improved by 3.44468
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.5
ELB improved by 3.60185
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.831
ELB improved by 3.66851
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.307
ELB improved by 3.52425
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.214
ELB improved by 3.09321
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.719
ELB improved by 2.49443
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.799
ELB improved by 1.92021
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.37
ELB improved by 1.42947
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.345
ELB improved by 1.02453
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.614
ELB improved by 0.731093
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.073
ELB improved by 0.541179
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.651
ELB improved by 0.42143
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.308
ELB improved by 0.343459
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.018
ELB improved by 0.289874
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.767
ELB improved by 0.251017
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.545
ELB improved by 0.221589
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.347
ELB improved by 0.198587
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.167
ELB improved by 0.180219
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.001
ELB improved by 0.165347
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.848
ELB improved by 0.153201
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.705
ELB improved by 0.143236
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.57
ELB improved by 0.135045
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.441
ELB improved by 0.128319
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.319
ELB improved by 0.122816
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.2
ELB improved by 0.118342
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.085
ELB improved by 0.114743
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.974
ELB improved by 0.111894
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.864
ELB improved by 0.109694
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.756
ELB improved by 0.108062
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.649
ELB improved by 0.106933
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.543
ELB improved by 0.106254
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.437
ELB improved by 0.105983
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.331
ELB improved by 0.106084
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.224
ELB improved by 0.106529
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.117
ELB improved by 0.107295
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.008
ELB improved by 0.108362
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.899
ELB improved by 0.109715
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.787
ELB improved by 0.111341
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.674
ELB improved by 0.113224
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.559
ELB improved by 0.115347
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.441
ELB improved by 0.117685
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.321
ELB improved by 0.120205
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.198
ELB improved by 0.122861
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.072
ELB improved by 0.125599
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.944
ELB improved by 0.128352
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.813
ELB improved by 0.131045
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.679
ELB improved by 0.133601
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.543
ELB improved by 0.135944
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.405
ELB improved by 0.138004
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.266
ELB improved by 0.139726
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.125
ELB improved by 0.141077
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.983
ELB improved by 0.142046
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.84
ELB improved by 0.142654
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.697
ELB improved by 0.14296
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.554
ELB improved by 0.143074
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.411
ELB improved by 0.143169
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.267
ELB improved by 0.143505
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.123
ELB improved by 0.144429
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.977
ELB improved by 0.146295
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.827
ELB improved by 0.149154
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.675
ELB improved by 0.152105
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.523
ELB improved by 0.152701
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.375
ELB improved by 0.147787
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.239
ELB improved by 0.136201
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.118
ELB improved by 0.120176
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.015
ELB improved by 0.10328
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.927
ELB improved by 0.087998
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.852
ELB improved by 0.0753961
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.786
ELB improved by 0.0658064
iteration 81
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.727
ELB improved by 0.0593999
iteration 82
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.67
ELB improved by 0.0565071
iteration 83
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.612
ELB improved by 0.0577799
iteration 84
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.548
ELB improved by 0.0640881
iteration 85
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.472
ELB improved by 0.075692
iteration 86
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.382
ELB improved by 0.0903268
iteration 87
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.28
ELB improved by 0.102172
iteration 88
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.174
ELB improved by 0.105828
iteration 89
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.073
ELB improved by 0.100766
iteration 90
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.985
ELB improved by 0.0880495
iteration 91
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.916
ELB improved by 0.0691415
iteration 92
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.867
ELB improved by 0.0488771
iteration 93
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.835
ELB improved by 0.0323539
iteration 94
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.814
ELB improved by 0.0211802
iteration 95
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.799
ELB improved by 0.0143672
iteration 96
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.789
ELB improved by 0.0103693
iteration 97
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.781
ELB improved by 0.0080012
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-858.206
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-581.369
ELB improved by 276.836
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-521.339
ELB improved by 60.0307
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.752
ELB improved by 45.587
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.644
ELB improved by 22.1076
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.466
ELB improved by 9.178
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.057
ELB improved by 5.40941
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.423
ELB improved by 4.6333
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.486
ELB improved by 4.93763
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.52
ELB improved by 5.96562
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.774
ELB improved by 7.74598
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.899
ELB improved by 9.87482
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.304
ELB improved by 10.595
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-386.732
ELB improved by 8.57205
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-381.211
ELB improved by 5.52125
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-377.904
ELB improved by 3.30698
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-375.866
ELB improved by 2.03826
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-374.509
ELB improved by 1.3571
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-373.506
ELB improved by 1.00224
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.723
ELB improved by 0.782953
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-372.142
ELB improved by 0.581536
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-371.735
ELB improved by 0.406838
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-371.445
ELB improved by 0.289661
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-371.228
ELB improved by 0.217505
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-371.057
ELB improved by 0.17097
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.918
ELB improved by 0.138685
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.803
ELB improved by 0.114941
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.707
ELB improved by 0.0967732
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.624
ELB improved by 0.0824987
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.553
ELB improved by 0.0710685
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.491
ELB improved by 0.061781
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.437
ELB improved by 0.0541437
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.389
ELB improved by 0.0477989
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.347
ELB improved by 0.0424811
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.309
ELB improved by 0.0379887
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.275
ELB improved by 0.034167
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.244
ELB improved by 0.0308951
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.216
ELB improved by 0.0280777
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.19
ELB improved by 0.0256389
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.167
ELB improved by 0.0235174
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.145
ELB improved by 0.0216637
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.125
ELB improved by 0.020037
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.106
ELB improved by 0.018604
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.089
ELB improved by 0.0173368
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.073
ELB improved by 0.0162123
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.057
ELB improved by 0.0152109
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.043
ELB improved by 0.0143164
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.03
ELB improved by 0.0135148
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.017
ELB improved by 0.0127941
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-370.005
ELB improved by 0.0121444
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.993
ELB improved by 0.0115569
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.982
ELB improved by 0.011024
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.972
ELB improved by 0.0105394
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.961
ELB improved by 0.0100974
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-369.952
ELB improved by 0.00969312
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-868.23
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-588.88
ELB improved by 279.349
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-526.245
ELB improved by 62.6351
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-486.07
ELB improved by 40.1751
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-468.165
ELB improved by 17.9056
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.547
ELB improved by 7.61744
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.385
ELB improved by 4.16203
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.221
ELB improved by 3.16406
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.386
ELB improved by 2.83537
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.679
ELB improved by 2.70705
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.052
ELB improved by 2.62645
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.556
ELB improved by 2.49569
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.304
ELB improved by 2.25204
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.386
ELB improved by 1.91815
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.807
ELB improved by 1.57957
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.55
ELB improved by 1.25627
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.595
ELB improved by 0.955217
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.865
ELB improved by 0.730038
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.275
ELB improved by 0.590131
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.763
ELB improved by 0.511637
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.293
ELB improved by 0.470769
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.841
ELB improved by 0.451471
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.397
ELB improved by 0.444014
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.955
ELB improved by 0.442604
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.511
ELB improved by 0.443667
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.066
ELB improved by 0.444782
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.622
ELB improved by 0.444052
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.182
ELB improved by 0.439985
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.75
ELB improved by 0.431885
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.33
ELB improved by 0.420361
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.922
ELB improved by 0.40738
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.526
ELB improved by 0.395966
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.136
ELB improved by 0.39004
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.742
ELB improved by 0.394272
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.33
ELB improved by 0.41175
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.895
ELB improved by 0.435369
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.454
ELB improved by 0.441475
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.038
ELB improved by 0.415051
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.666
ELB improved by 0.372111
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.335
ELB improved by 0.331397
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.037
ELB improved by 0.297888
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.767
ELB improved by 0.270521
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.519
ELB improved by 0.247618
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.291
ELB improved by 0.227953
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.08
ELB improved by 0.210716
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.885
ELB improved by 0.195363
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.703
ELB improved by 0.181525
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.534
ELB improved by 0.168949
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.377
ELB improved by 0.157458
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.23
ELB improved by 0.146917
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.093
ELB improved by 0.137205
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.965
ELB improved by 0.128207
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.845
ELB improved by 0.119844
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.733
ELB improved by 0.112135
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.627
ELB improved by 0.105304
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.527
ELB improved by 0.0999542
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.43
ELB improved by 0.0973518
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.33
ELB improved by 0.0999415
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.218
ELB improved by 0.111983
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.08
ELB improved by 0.13854
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.903
ELB improved by 0.176406
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.705
ELB improved by 0.198537
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.527
ELB improved by 0.177213
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.397
ELB improved by 0.130086
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.31
ELB improved by 0.0876366
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.251
ELB improved by 0.0586886
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.21
ELB improved by 0.0405435
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.181
ELB improved by 0.0293063
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.159
ELB improved by 0.022231
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.141
ELB improved by 0.0176412
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.127
ELB improved by 0.014552
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.114
ELB improved by 0.0123873
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.104
ELB improved by 0.0108071
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.094
ELB improved by 0.00960801
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
3.008 0.170 3.177
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.082 | 0.004 | 0.088 | |
| getPIPs | 0.081 | 0.000 | 0.082 | |
| graper | 0.129 | 0.000 | 0.129 | |
| makeExampleData | 0.014 | 0.000 | 0.014 | |
| makeExampleDataWithUnequalGroups | 0.016 | 0.000 | 0.016 | |
| plotELBO | 0.479 | 0.012 | 0.491 | |
| plotGroupPenalties | 1.654 | 0.040 | 1.697 | |
| plotPosterior | 1.011 | 0.024 | 1.037 | |
| predict.graper | 3.079 | 0.016 | 3.101 | |
| print.graper | 0.082 | 0.000 | 0.082 | |