Dongmin Jung
| Snapshot Date: 2025-08-28 13:40 -0400 (Thu, 28 Aug 2025) |
| git_url: https://git.bioconductor.org/packages/ttgsea |
| git_branch: RELEASE_3_21 |
| git_last_commit: f73271e |
| git_last_commit_date: 2025-04-15 12:16:26 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-09-01 11:41 -0400 (Mon, 01 Sep 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" | 4824 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4606 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4547 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4579 |
| 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 2254/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| ttgsea 1.16.0 (landing page) Dongmin Jung
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | NA | ||||||||||
|
To the developers/maintainers of the ttgsea package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ttgsea.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: ttgsea |
| Version: 1.16.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ttgsea.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ttgsea_1.16.0.tar.gz |
| StartedAt: 2025-08-29 11:40:39 -0400 (Fri, 29 Aug 2025) |
| EndedAt: 2025-08-29 11:45:36 -0400 (Fri, 29 Aug 2025) |
| EllapsedTime: 297.8 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: ttgsea.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ttgsea.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ttgsea_1.16.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.21-bioc/meat/ttgsea.Rcheck’
* using R version 4.5.1 RC (2025-06-05 r88288)
* using platform: x86_64-apple-darwin20
* R was compiled by
Apple clang version 14.0.0 (clang-1400.0.29.202)
GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ttgsea/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ttgsea’ version ‘1.16.0’
* 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 ‘ttgsea’ can be installed ... OK
* 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 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 ... OK
* 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
fit_model 40.006 3.662 33.381
predict_model 38.806 3.681 29.162
bi_gru 16.899 2.463 21.793
token_vector 15.746 0.967 12.196
text_token 15.543 0.788 11.368
* 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: OK
ttgsea.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL ttgsea ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’ * installing *source* package ‘ttgsea’ ... ** this is package ‘ttgsea’ version ‘1.16.0’ ** using staged installation ** 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 ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (ttgsea)
ttgsea.Rcheck/tests/testthat.Rout
R version 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20
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(ttgsea)
Loading required package: keras
The keras package is deprecated. Use the keras3 package instead.
>
> test_check("ttgsea")
1/45 [..............................] - ETA: 7:00 - loss: 1.6156 - pearson_correlation: 0.0942
2/45 [>.............................] - ETA: 2s - loss: 1.6366 - pearson_correlation: -0.1094
3/45 [=>............................] - ETA: 2s - loss: 1.7450 - pearson_correlation: -0.0507
5/45 [==>...........................] - ETA: 2s - loss: 1.7255 - pearson_correlation: 0.0953
7/45 [===>..........................] - ETA: 1s - loss: 1.6436 - pearson_correlation: 0.0842
9/45 [=====>........................] - ETA: 1s - loss: 1.6070 - pearson_correlation: 0.0856
11/45 [======>.......................] - ETA: 1s - loss: 1.5871 - pearson_correlation: 0.0995
13/45 [=======>......................] - ETA: 1s - loss: 1.6049 - pearson_correlation: 0.0798
15/45 [=========>....................] - ETA: 1s - loss: 1.5980 - pearson_correlation: 0.1132
17/45 [==========>...................] - ETA: 1s - loss: 1.5921 - pearson_correlation: 0.0982
19/45 [===========>..................] - ETA: 0s - loss: 1.6022 - pearson_correlation: 0.0993
21/45 [=============>................] - ETA: 0s - loss: 1.5951 - pearson_correlation: 0.1000
23/45 [==============>...............] - ETA: 0s - loss: 1.5734 - pearson_correlation: 0.0864
25/45 [===============>..............] - ETA: 0s - loss: 1.5835 - pearson_correlation: 0.0759
27/45 [=================>............] - ETA: 0s - loss: 1.5808 - pearson_correlation: 0.0794
29/45 [==================>...........] - ETA: 0s - loss: 1.5800 - pearson_correlation: 0.0911
31/45 [===================>..........] - ETA: 0s - loss: 1.5843 - pearson_correlation: 0.1057
33/45 [=====================>........] - ETA: 0s - loss: 1.5712 - pearson_correlation: 0.1075
35/45 [======================>.......] - ETA: 0s - loss: 1.5741 - pearson_correlation: 0.1197
37/45 [=======================>......] - ETA: 0s - loss: 1.5838 - pearson_correlation: 0.1297
39/45 [=========================>....] - ETA: 0s - loss: 1.5642 - pearson_correlation: 0.1274
41/45 [==========================>...] - ETA: 0s - loss: 1.5661 - pearson_correlation: 0.1292
43/45 [===========================>..] - ETA: 0s - loss: 1.5676 - pearson_correlation: 0.1362
45/45 [==============================] - ETA: 0s - loss: 1.5638 - pearson_correlation: 0.1288
45/45 [==============================] - 11s 34ms/step - loss: 1.5638 - pearson_correlation: 0.1288
1/4 [======>.......................] - ETA: 2s
4/4 [==============================] - 1s 9ms/step
1/1 [==============================] - ETA: 0s
1/1 [==============================] - 0s 48ms/step
1/32 [..............................] - ETA: 1s
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1/1 [==============================] - 0s 52ms/step
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32/32 [==============================] - 0s 9ms/step
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
>
> proc.time()
user system elapsed
56.287 6.849 54.487
ttgsea.Rcheck/ttgsea-Ex.timings
| name | user | system | elapsed | |
| bi_gru | 16.899 | 2.463 | 21.793 | |
| bi_lstm | 0.571 | 0.036 | 0.687 | |
| fit_model | 40.006 | 3.662 | 33.381 | |
| metric_pearson_correlation | 0.024 | 0.003 | 0.029 | |
| plot_model | 0.457 | 0.048 | 0.571 | |
| predict_model | 38.806 | 3.681 | 29.162 | |
| sampling_generator | 0.001 | 0.001 | 0.002 | |
| text_token | 15.543 | 0.788 | 11.368 | |
| token_vector | 15.746 | 0.967 | 12.196 | |