Britta Velten
| Snapshot Date: 2026-04-17 13:40 -0400 (Fri, 17 Apr 2026) |
| git_url: https://git.bioconductor.org/packages/graper |
| git_branch: devel |
| git_last_commit: 95474d7 |
| git_last_commit_date: 2025-10-29 10:49:21 -0400 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-04-18 11:37 -0400 (Sat, 18 Apr 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 alpha (2026-04-05 r89794) | 4957 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 alpha (2026-04-08 r89818) | 4686 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4627 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 938/2404 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| graper 1.27.0 (landing page) Britta Velten
| nebbiolo1 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
| See other builds for graper in R Universe. | ||||||||||||||
|
To the developers/maintainers of the graper package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/graper.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: graper |
| Version: 1.27.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:graper.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings graper_1.27.0.tar.gz |
| StartedAt: 2026-04-17 04:11:38 -0000 (Fri, 17 Apr 2026) |
| EndedAt: 2026-04-17 04:13:03 -0000 (Fri, 17 Apr 2026) |
| EllapsedTime: 85.1 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_1.27.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.23-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 ‘1.27.0’
* 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: ‘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-3.23-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 ‘1.27.0’ ** using staged installation ** libs using C++ compiler: ‘aarch64-unknown-linux-gnu-g++ (GCC) 14.2.0’ /opt/ohpc/pub/compiler/gcc/14.2.0/bin/aarch64-unknown-linux-gnu-g++ -std=gnu++17 -I"/home/biocbuild/R/R/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=-877.863
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-607.421
ELB improved by 270.442
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-547.036
ELB improved by 60.3851
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-499.823
ELB improved by 47.2125
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.744
ELB improved by 24.079
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-465.809
ELB improved by 9.9356
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.387
ELB improved by 5.422
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.935
ELB improved by 4.45135
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.384
ELB improved by 4.55188
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-446.426
ELB improved by 4.95773
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.279
ELB improved by 5.14669
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.564
ELB improved by 4.71505
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.852
ELB improved by 3.71225
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.279
ELB improved by 2.57301
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.624
ELB improved by 1.6549
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.576
ELB improved by 1.04746
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.89
ELB improved by 0.68643
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.409
ELB improved by 0.480561
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.05
ELB improved by 0.359633
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.766
ELB improved by 0.283747
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.533
ELB improved by 0.232955
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.336
ELB improved by 0.197029
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.166
ELB improved by 0.17038
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.016
ELB improved by 0.149806
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.883
ELB improved by 0.133393
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.763
ELB improved by 0.119949
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.654
ELB improved by 0.108698
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.555
ELB improved by 0.099118
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.464
ELB improved by 0.0908409
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.38
ELB improved by 0.0836019
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.303
ELB improved by 0.0772053
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.232
ELB improved by 0.0715028
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.165
ELB improved by 0.0663805
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.103
ELB improved by 0.0617493
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.046
ELB improved by 0.0575386
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.992
ELB improved by 0.0536918
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.942
ELB improved by 0.0501632
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.895
ELB improved by 0.0469152
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.851
ELB improved by 0.043917
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.81
ELB improved by 0.0411427
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.772
ELB improved by 0.0385707
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.735
ELB improved by 0.0361824
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.701
ELB improved by 0.0339619
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.67
ELB improved by 0.0318956
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.64
ELB improved by 0.0299712
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.611
ELB improved by 0.0281781
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.585
ELB improved by 0.0265066
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.56
ELB improved by 0.0249479
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.536
ELB improved by 0.0234942
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.514
ELB improved by 0.0221381
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.493
ELB improved by 0.0208729
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.474
ELB improved by 0.0196923
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.455
ELB improved by 0.0185906
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.438
ELB improved by 0.0175623
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.421
ELB improved by 0.0166024
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.405
ELB improved by 0.0157061
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.39
ELB improved by 0.0148691
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.376
ELB improved by 0.0140872
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.363
ELB improved by 0.0133566
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.35
ELB improved by 0.0126737
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.338
ELB improved by 0.0120352
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.327
ELB improved by 0.011438
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.316
ELB improved by 0.0108792
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.306
ELB improved by 0.0103561
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.296
ELB improved by 0.00986619
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-849.144
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-555.235
ELB improved by 293.909
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-502.842
ELB improved by 52.393
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-476.95
ELB improved by 25.8925
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-467.46
ELB improved by 9.48982
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-462.636
ELB improved by 4.82348
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-459.118
ELB improved by 3.51788
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-455.978
ELB improved by 3.14074
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-452.966
ELB improved by 3.01173
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-450.006
ELB improved by 2.96027
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.103
ELB improved by 2.90226
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.349
ELB improved by 2.75402
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.881
ELB improved by 2.46794
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.835
ELB improved by 2.04672
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.326
ELB improved by 1.50893
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-437.315
ELB improved by 1.01077
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.641
ELB improved by 0.674133
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-436.155
ELB improved by 0.485568
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.765
ELB improved by 0.390178
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.42
ELB improved by 0.345416
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.093
ELB improved by 0.32713
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.769
ELB improved by 0.323206
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.442
ELB improved by 0.327869
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-434.103
ELB improved by 0.338438
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.749
ELB improved by 0.353775
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-433.376
ELB improved by 0.373657
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.977
ELB improved by 0.398627
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.547
ELB improved by 0.430109
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-432.076
ELB improved by 0.470589
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.553
ELB improved by 0.523429
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.962
ELB improved by 0.591262
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-430.289
ELB improved by 0.672389
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.53
ELB improved by 0.759331
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-428.684
ELB improved by 0.846047
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.749
ELB improved by 0.934686
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.719
ELB improved by 1.03061
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.582
ELB improved by 1.13688
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-424.326
ELB improved by 1.25601
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.925
ELB improved by 1.40052
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.326
ELB improved by 1.59944
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.555
ELB improved by 1.77114
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.867
ELB improved by 1.68751
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.42
ELB improved by 1.44703
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.18
ELB improved by 1.24033
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.112
ELB improved by 1.06812
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.272
ELB improved by 0.839535
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.661
ELB improved by 0.61135
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.202
ELB improved by 0.458693
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.828
ELB improved by 0.373633
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.501
ELB improved by 0.32725
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.188
ELB improved by 0.31307
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.85
ELB improved by 0.338291
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.497
ELB improved by 0.352329
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.204
ELB improved by 0.293925
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.996
ELB improved by 0.207813
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.852
ELB improved by 0.143354
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.748
ELB improved by 0.104561
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.664
ELB improved by 0.0837756
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.588
ELB improved by 0.0758117
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.508
ELB improved by 0.080094
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.405
ELB improved by 0.102793
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.242
ELB improved by 0.16325
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.941
ELB improved by 0.301355
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.411
ELB improved by 0.529553
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.769
ELB improved by 0.64199
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.302
ELB improved by 0.467232
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.04
ELB improved by 0.262162
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.895
ELB improved by 0.144938
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.809
ELB improved by 0.0859003
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.753
ELB improved by 0.0556484
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.714
ELB improved by 0.0392786
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.684
ELB improved by 0.02979
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.66
ELB improved by 0.0238623
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.64
ELB improved by 0.0198746
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.623
ELB improved by 0.017008
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.609
ELB improved by 0.0148327
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.596
ELB improved by 0.0131125
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.584
ELB improved by 0.0117108
iteration 79
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.573
ELB improved by 0.010544
iteration 80
Updating parameters of variational distributions...
Calculating ELB..
ELB=-406.564
ELB improved by 0.00955775
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-888.268
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-582.911
ELB improved by 305.357
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-525.17
ELB improved by 57.7408
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-491.307
ELB improved by 33.8632
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-475.772
ELB improved by 15.5356
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-468.757
ELB improved by 7.01429
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-464.216
ELB improved by 4.54169
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-460.377
ELB improved by 3.83872
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-456.93
ELB improved by 3.44681
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-453.834
ELB improved by 3.09622
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-451.139
ELB improved by 2.69457
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-448.88
ELB improved by 2.25904
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-447.017
ELB improved by 1.86333
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.457
ELB improved by 1.55947
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-444.134
ELB improved by 1.3236
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-443.041
ELB improved by 1.09258
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-442.185
ELB improved by 0.85593
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.539
ELB improved by 0.64643
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-441.056
ELB improved by 0.482878
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.694
ELB improved by 0.362249
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.419
ELB improved by 0.274476
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.208
ELB improved by 0.21106
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-440.043
ELB improved by 0.165747
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.909
ELB improved by 0.13355
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.799
ELB improved by 0.110462
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.705
ELB improved by 0.0935001
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.624
ELB improved by 0.0806289
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.554
ELB improved by 0.0705362
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.491
ELB improved by 0.0623942
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.436
ELB improved by 0.0556766
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.386
ELB improved by 0.0500387
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.34
ELB improved by 0.0452456
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.299
ELB improved by 0.04113
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.262
ELB improved by 0.0375683
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.227
ELB improved by 0.0344663
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.196
ELB improved by 0.0317501
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.166
ELB improved by 0.0293608
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.139
ELB improved by 0.0272507
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.114
ELB improved by 0.0253805
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.09
ELB improved by 0.0237177
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.068
ELB improved by 0.0222352
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.047
ELB improved by 0.02091
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.027
ELB improved by 0.0197229
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-439.008
ELB improved by 0.0186572
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.991
ELB improved by 0.0176988
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.974
ELB improved by 0.0168356
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.958
ELB improved by 0.0160569
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.942
ELB improved by 0.0153535
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.928
ELB improved by 0.0147176
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.914
ELB improved by 0.014142
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.9
ELB improved by 0.0136206
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.887
ELB improved by 0.013148
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.874
ELB improved by 0.0127193
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.862
ELB improved by 0.0123303
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.85
ELB improved by 0.0119771
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.838
ELB improved by 0.0116564
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.827
ELB improved by 0.0113651
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.816
ELB improved by 0.0111005
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.805
ELB improved by 0.01086
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.794
ELB improved by 0.0106414
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.784
ELB improved by 0.0104428
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.773
ELB improved by 0.0102623
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.763
ELB improved by 0.0100983
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-438.753
ELB improved by 0.0099491
ELB converged
iteration 1
Updating parameters of variational distributions...
Calculating ELB..
ELB=-815.538
ELB improved by inf
iteration 2
Updating parameters of variational distributions...
Calculating ELB..
ELB=-531.453
ELB improved by 284.085
iteration 3
Updating parameters of variational distributions...
Calculating ELB..
ELB=-474.865
ELB improved by 56.5873
iteration 4
Updating parameters of variational distributions...
Calculating ELB..
ELB=-445.676
ELB improved by 29.1892
iteration 5
Updating parameters of variational distributions...
Calculating ELB..
ELB=-435.715
ELB improved by 9.96165
iteration 6
Updating parameters of variational distributions...
Calculating ELB..
ELB=-431.987
ELB improved by 3.72742
iteration 7
Updating parameters of variational distributions...
Calculating ELB..
ELB=-429.687
ELB improved by 2.29981
iteration 8
Updating parameters of variational distributions...
Calculating ELB..
ELB=-427.893
ELB improved by 1.79454
iteration 9
Updating parameters of variational distributions...
Calculating ELB..
ELB=-426.376
ELB improved by 1.51676
iteration 10
Updating parameters of variational distributions...
Calculating ELB..
ELB=-425.062
ELB improved by 1.3145
iteration 11
Updating parameters of variational distributions...
Calculating ELB..
ELB=-423.916
ELB improved by 1.14549
iteration 12
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.917
ELB improved by 0.999537
iteration 13
Updating parameters of variational distributions...
Calculating ELB..
ELB=-422.043
ELB improved by 0.873874
iteration 14
Updating parameters of variational distributions...
Calculating ELB..
ELB=-421.276
ELB improved by 0.766776
iteration 15
Updating parameters of variational distributions...
Calculating ELB..
ELB=-420.6
ELB improved by 0.67637
iteration 16
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.999
ELB improved by 0.600682
iteration 17
Updating parameters of variational distributions...
Calculating ELB..
ELB=-419.461
ELB improved by 0.537857
iteration 18
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.975
ELB improved by 0.486318
iteration 19
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.53
ELB improved by 0.444824
iteration 20
Updating parameters of variational distributions...
Calculating ELB..
ELB=-418.117
ELB improved by 0.412474
iteration 21
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.729
ELB improved by 0.388676
iteration 22
Updating parameters of variational distributions...
Calculating ELB..
ELB=-417.356
ELB improved by 0.373124
iteration 23
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.99
ELB improved by 0.365779
iteration 24
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.623
ELB improved by 0.366862
iteration 25
Updating parameters of variational distributions...
Calculating ELB..
ELB=-416.246
ELB improved by 0.376846
iteration 26
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.85
ELB improved by 0.396433
iteration 27
Updating parameters of variational distributions...
Calculating ELB..
ELB=-415.423
ELB improved by 0.426495
iteration 28
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.955
ELB improved by 0.467979
iteration 29
Updating parameters of variational distributions...
Calculating ELB..
ELB=-414.433
ELB improved by 0.521752
iteration 30
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.845
ELB improved by 0.588404
iteration 31
Updating parameters of variational distributions...
Calculating ELB..
ELB=-413.177
ELB improved by 0.667977
iteration 32
Updating parameters of variational distributions...
Calculating ELB..
ELB=-412.418
ELB improved by 0.759563
iteration 33
Updating parameters of variational distributions...
Calculating ELB..
ELB=-411.557
ELB improved by 0.86067
iteration 34
Updating parameters of variational distributions...
Calculating ELB..
ELB=-410.591
ELB improved by 0.966272
iteration 35
Updating parameters of variational distributions...
Calculating ELB..
ELB=-409.523
ELB improved by 1.06771
iteration 36
Updating parameters of variational distributions...
Calculating ELB..
ELB=-408.37
ELB improved by 1.15239
iteration 37
Updating parameters of variational distributions...
Calculating ELB..
ELB=-407.164
ELB improved by 1.20602
iteration 38
Updating parameters of variational distributions...
Calculating ELB..
ELB=-405.945
ELB improved by 1.21937
iteration 39
Updating parameters of variational distributions...
Calculating ELB..
ELB=-404.746
ELB improved by 1.19865
iteration 40
Updating parameters of variational distributions...
Calculating ELB..
ELB=-403.572
ELB improved by 1.17469
iteration 41
Updating parameters of variational distributions...
Calculating ELB..
ELB=-402.381
ELB improved by 1.19051
iteration 42
Updating parameters of variational distributions...
Calculating ELB..
ELB=-401.174
ELB improved by 1.20768
iteration 43
Updating parameters of variational distributions...
Calculating ELB..
ELB=-400.088
ELB improved by 1.08549
iteration 44
Updating parameters of variational distributions...
Calculating ELB..
ELB=-399.187
ELB improved by 0.901134
iteration 45
Updating parameters of variational distributions...
Calculating ELB..
ELB=-398.328
ELB improved by 0.859333
iteration 46
Updating parameters of variational distributions...
Calculating ELB..
ELB=-397.232
ELB improved by 1.09608
iteration 47
Updating parameters of variational distributions...
Calculating ELB..
ELB=-395.745
ELB improved by 1.48636
iteration 48
Updating parameters of variational distributions...
Calculating ELB..
ELB=-394.381
ELB improved by 1.3646
iteration 49
Updating parameters of variational distributions...
Calculating ELB..
ELB=-393.488
ELB improved by 0.892961
iteration 50
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.94
ELB improved by 0.547218
iteration 51
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.579
ELB improved by 0.361145
iteration 52
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.308
ELB improved by 0.271362
iteration 53
Updating parameters of variational distributions...
Calculating ELB..
ELB=-392.081
ELB improved by 0.226914
iteration 54
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.885
ELB improved by 0.196326
iteration 55
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.715
ELB improved by 0.169601
iteration 56
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.562
ELB improved by 0.153209
iteration 57
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.403
ELB improved by 0.158545
iteration 58
Updating parameters of variational distributions...
Calculating ELB..
ELB=-391.202
ELB improved by 0.200996
iteration 59
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.91
ELB improved by 0.291929
iteration 60
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.548
ELB improved by 0.362053
iteration 61
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.263
ELB improved by 0.285259
iteration 62
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.1
ELB improved by 0.162901
iteration 63
Updating parameters of variational distributions...
Calculating ELB..
ELB=-390.004
ELB improved by 0.0964463
iteration 64
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.939
ELB improved by 0.0642917
iteration 65
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.893
ELB improved by 0.0468279
iteration 66
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.856
ELB improved by 0.0366105
iteration 67
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.826
ELB improved by 0.0302044
iteration 68
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.8
ELB improved by 0.0258489
iteration 69
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.777
ELB improved by 0.0226412
iteration 70
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.757
ELB improved by 0.0201208
iteration 71
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.739
ELB improved by 0.018049
iteration 72
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.723
ELB improved by 0.0162956
iteration 73
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.708
ELB improved by 0.0147847
iteration 74
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.695
ELB improved by 0.0134681
iteration 75
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.682
ELB improved by 0.0123127
iteration 76
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.671
ELB improved by 0.0112937
iteration 77
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.661
ELB improved by 0.0103919
iteration 78
Updating parameters of variational distributions...
Calculating ELB..
ELB=-389.651
ELB improved by 0.00959154
ELB converged
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 24 ]
>
> proc.time()
user system elapsed
3.083 0.177 3.259
graper.Rcheck/graper-Ex.timings
| name | user | system | elapsed | |
| coef.graper | 0.087 | 0.000 | 0.090 | |
| getPIPs | 0.080 | 0.001 | 0.082 | |
| graper | 0.128 | 0.000 | 0.128 | |
| makeExampleData | 0.010 | 0.004 | 0.014 | |
| makeExampleDataWithUnequalGroups | 0.017 | 0.000 | 0.017 | |
| plotELBO | 0.485 | 0.008 | 0.495 | |
| plotGroupPenalties | 1.687 | 0.052 | 1.743 | |
| plotPosterior | 1.012 | 0.068 | 1.082 | |
| predict.graper | 3.093 | 0.020 | 3.121 | |
| print.graper | 0.088 | 0.000 | 0.089 | |