Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-06-19 12:11 -0400 (Wed, 19 Jun 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.0 RC (2024-04-16 r86468) -- "Puppy Cup" | 4687 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 RC (2024-06-06 r86719) -- "Race for Your Life" | 4402 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 RC (2024-06-06 r86719) -- "Race for Your Life" | 4351 |
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 2161/2242 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
ttgsea 1.13.0 (landing page) Dongmin Jung
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
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: 1.13.0 |
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_1.13.0.tar.gz |
StartedAt: 2024-06-18 23:43:52 -0400 (Tue, 18 Jun 2024) |
EndedAt: 2024-06-18 23:46:39 -0400 (Tue, 18 Jun 2024) |
EllapsedTime: 166.6 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_1.13.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.20-bioc/meat/ttgsea.Rcheck’ * using R version 4.4.1 RC (2024-06-06 r86719) * using platform: x86_64-apple-darwin20 * R was compiled by Apple clang version 14.0.0 (clang-1400.0.29.202) GNU Fortran (GCC) 12.2.0 * running under: macOS Monterey 12.7.1 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘ttgsea/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘ttgsea’ version ‘1.13.0’ * 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 22.819 5.045 16.798 predict_model 21.651 5.211 14.639 bi_gru 9.926 1.752 12.967 token_vector 9.248 0.599 6.159 text_token 9.188 0.594 6.147 * 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/4.4-x86_64/Resources/library’ * installing *source* package ‘ttgsea’ ... ** 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 4.4.1 RC (2024-06-06 r86719) -- "Race for Your Life" Copyright (C) 2024 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 > > test_check("ttgsea") 2024-06-18 23:46:14.275292: I tensorflow/core/platform/cpu_feature_guard.cc:182] This TensorFlow binary is optimized to use available CPU instructions in performance-critical operations. To enable the following instructions: AVX2 AVX512F AVX512_VNNI FMA, in other operations, rebuild TensorFlow with the appropriate compiler flags. /Library/Python/3.9/site-packages/urllib3/__init__.py:34: NotOpenSSLWarning: urllib3 v2 only supports OpenSSL 1.1.1+, currently the 'ssl' module is compiled with 'LibreSSL 2.8.3'. See: https://github.com/urllib3/urllib3/issues/3020 warnings.warn( 1/45 [..............................] - ETA: 2:57 - loss: 1.8084 - pearson_correlation: -0.0808 3/45 [=>............................] - ETA: 1s - loss: 1.5645 - pearson_correlation: -0.1080 6/45 [===>..........................] - ETA: 1s - loss: 1.6824 - pearson_correlation: -0.0212 8/45 [====>.........................] - ETA: 1s - loss: 1.6511 - pearson_correlation: 0.0113 11/45 [======>.......................] - ETA: 0s - loss: 1.6702 - pearson_correlation: 0.0659 14/45 [========>.....................] - ETA: 0s - loss: 1.6458 - pearson_correlation: 0.0773 17/45 [==========>...................] - ETA: 0s - loss: 1.6268 - pearson_correlation: 0.1017 19/45 [===========>..................] - ETA: 0s - loss: 1.6156 - pearson_correlation: 0.0834 22/45 [=============>................] - ETA: 0s - loss: 1.5873 - pearson_correlation: 0.0947 24/45 [===============>..............] - ETA: 0s - loss: 1.5787 - pearson_correlation: 0.1004 27/45 [=================>............] - ETA: 0s - loss: 1.5762 - pearson_correlation: 0.1176 29/45 [==================>...........] - ETA: 0s - loss: 1.5819 - pearson_correlation: 0.1300 31/45 [===================>..........] - ETA: 0s - loss: 1.5689 - pearson_correlation: 0.1294 33/45 [=====================>........] - ETA: 0s - loss: 1.5652 - pearson_correlation: 0.1409 36/45 [=======================>......] - ETA: 0s - loss: 1.5636 - pearson_correlation: 0.1387 39/45 [=========================>....] - ETA: 0s - loss: 1.5654 - pearson_correlation: 0.1410 42/45 [===========================>..] - ETA: 0s - loss: 1.5641 - pearson_correlation: 0.1498 45/45 [==============================] - ETA: 0s - loss: 1.5591 - pearson_correlation: 0.1553 45/45 [==============================] - 5s 27ms/step - loss: 1.5591 - pearson_correlation: 0.1553 1/4 [======>.......................] - ETA: 1s 4/4 [==============================] - 1s 9ms/step 1/1 [==============================] - ETA: 0s 1/1 [==============================] - 0s 24ms/step 1/32 [..............................] - ETA: 0s 9/32 [=======>......................] - ETA: 0s 17/32 [==============>...............] - ETA: 0s 25/32 [======================>.......] - ETA: 0s 32/32 [==============================] - 0s 7ms/step 1/32 [..............................] - ETA: 0s 9/32 [=======>......................] - ETA: 0s 17/32 [==============>...............] - ETA: 0s 25/32 [======================>.......] - ETA: 0s 32/32 [==============================] - ETA: 0s 32/32 [==============================] - 0s 7ms/step 1/1 [==============================] - ETA: 0s 1/1 [==============================] - 0s 29ms/step 1/32 [..............................] - ETA: 0s 9/32 [=======>......................] - ETA: 0s 17/32 [==============>...............] - ETA: 0s 25/32 [======================>.......] - ETA: 0s 32/32 [==============================] - 0s 7ms/step 1/32 [..............................] - ETA: 0s 8/32 [======>.......................] - ETA: 0s 16/32 [==============>...............] - ETA: 0s 24/32 [=====================>........] - ETA: 0s 32/32 [==============================] - ETA: 0s 32/32 [==============================] - 0s 7ms/step 1/32 [..............................] - ETA: 0s 9/32 [=======>......................] - ETA: 0s 17/32 [==============>...............] - ETA: 0s 25/32 [======================>.......] - ETA: 0s 32/32 [==============================] - 0s 7ms/step 1/32 [..............................] - ETA: 0s 9/32 [=======>......................] - ETA: 0s 17/32 [==============>...............] - ETA: 0s 24/32 [=====================>........] - ETA: 0s 32/32 [==============================] - ETA: 0s 32/32 [==============================] - 0s 7ms/step [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ] > > proc.time() user system elapsed 32.081 9.944 27.735
ttgsea.Rcheck/ttgsea-Ex.timings
name | user | system | elapsed | |
bi_gru | 9.926 | 1.752 | 12.967 | |
bi_lstm | 0.278 | 0.019 | 0.293 | |
fit_model | 22.819 | 5.045 | 16.798 | |
metric_pearson_correlation | 0.016 | 0.001 | 0.017 | |
plot_model | 0.228 | 0.038 | 0.260 | |
predict_model | 21.651 | 5.211 | 14.639 | |
sampling_generator | 0.001 | 0.000 | 0.000 | |
text_token | 9.188 | 0.594 | 6.147 | |
token_vector | 9.248 | 0.599 | 6.159 | |