Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-16 11:43 -0400 (Fri, 16 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4420 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4413 |
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 2174/2255 | 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 | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | ERROR | skipped | skipped | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
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: 2024-08-16 03:33:08 -0400 (Fri, 16 Aug 2024) |
EndedAt: 2024-08-16 03:40:49 -0400 (Fri, 16 Aug 2024) |
EllapsedTime: 461.0 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 (2024-06-14) * 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 ...Warning: unable to access index for repository https://CRAN.R-project.org/src/contrib: cannot open URL 'https://CRAN.R-project.org/src/contrib/PACKAGES' Warning: unable to access index for repository https://bioconductor.org/packages/3.19/bioc/src/contrib: cannot open URL 'https://bioconductor.org/packages/3.19/bioc/src/contrib/PACKAGES' Warning: unable to access index for repository https://bioconductor.org/packages/3.19/data/annotation/src/contrib: cannot open URL 'https://bioconductor.org/packages/3.19/data/annotation/src/contrib/PACKAGES' Warning: unable to access index for repository https://bioconductor.org/packages/3.19/data/experiment/src/contrib: cannot open URL 'https://bioconductor.org/packages/3.19/data/experiment/src/contrib/PACKAGES' 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 predict_model 14.522 4.477 9.448 fit_model 14.954 3.806 10.550 bi_gru 5.929 0.732 6.750 token_vector 6.160 0.193 4.042 text_token 6.149 0.196 4.005 * 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 (2024-06-14) -- "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") 2024-08-16 03:40:34.223037: 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: 1:43 - loss: 1.6660 - pearson_correlation: 0.1661 3/45 [=>............................] - ETA: 1s - loss: 1.6498 - pearson_correlation: -0.0381 6/45 [===>..........................] - ETA: 1s - loss: 1.5411 - pearson_correlation: 0.0657 9/45 [=====>........................] - ETA: 0s - loss: 1.5243 - pearson_correlation: 0.1130 12/45 [=======>......................] - ETA: 0s - loss: 1.5820 - pearson_correlation: 0.1544 15/45 [=========>....................] - ETA: 0s - loss: 1.5402 - pearson_correlation: 0.1595 18/45 [===========>..................] - ETA: 0s - loss: 1.5456 - pearson_correlation: 0.1525 21/45 [=============>................] - ETA: 0s - loss: 1.5516 - pearson_correlation: 0.1293 24/45 [===============>..............] - ETA: 0s - loss: 1.5730 - pearson_correlation: 0.1513 27/45 [=================>............] - ETA: 0s - loss: 1.5740 - pearson_correlation: 0.1549 30/45 [===================>..........] - ETA: 0s - loss: 1.5696 - pearson_correlation: 0.1573 33/45 [=====================>........] - ETA: 0s - loss: 1.5731 - pearson_correlation: 0.1675 36/45 [=======================>......] - ETA: 0s - loss: 1.5599 - pearson_correlation: 0.1760 39/45 [=========================>....] - ETA: 0s - loss: 1.5596 - pearson_correlation: 0.1808 42/45 [===========================>..] - ETA: 0s - loss: 1.5643 - pearson_correlation: 0.1726 45/45 [==============================] - ETA: 0s - loss: 1.5664 - pearson_correlation: 0.1554 45/45 [==============================] - 3s 21ms/step - loss: 1.5664 - pearson_correlation: 0.1554 1/4 [======>.......................] - ETA: 0s 4/4 [==============================] - 0s 7ms/step 1/1 [==============================] - ETA: 0s 1/1 [==============================] - 0s 17ms/step 1/32 [..............................] - ETA: 0s 12/32 [==========>...................] - ETA: 0s 23/32 [====================>.........] - ETA: 0s 32/32 [==============================] - 0s 5ms/step 1/32 [..............................] - ETA: 0s 12/32 [==========>...................] - ETA: 0s 23/32 [====================>.........] - ETA: 0s 32/32 [==============================] - 0s 5ms/step 1/1 [==============================] - ETA: 0s 1/1 [==============================] - 0s 18ms/step 1/32 [..............................] - ETA: 0s 12/32 [==========>...................] - ETA: 0s 23/32 [====================>.........] - ETA: 0s 32/32 [==============================] - 0s 5ms/step 1/32 [..............................] - ETA: 0s 12/32 [==========>...................] - ETA: 0s 23/32 [====================>.........] - ETA: 0s 32/32 [==============================] - 0s 5ms/step 1/32 [..............................] - ETA: 0s 12/32 [==========>...................] - ETA: 0s 23/32 [====================>.........] - ETA: 0s 32/32 [==============================] - 0s 5ms/step 1/32 [..............................] - ETA: 0s 12/32 [==========>...................] - ETA: 0s 23/32 [====================>.........] - ETA: 0s 32/32 [==============================] - 0s 5ms/step [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ] > > proc.time() user system elapsed 20.909 7.972 17.172
ttgsea.Rcheck/ttgsea-Ex.timings
name | user | system | elapsed | |
bi_gru | 5.929 | 0.732 | 6.750 | |
bi_lstm | 0.167 | 0.012 | 0.174 | |
fit_model | 14.954 | 3.806 | 10.550 | |
metric_pearson_correlation | 0.009 | 0.001 | 0.010 | |
plot_model | 0.131 | 0.024 | 0.141 | |
predict_model | 14.522 | 4.477 | 9.448 | |
sampling_generator | 0.001 | 0.000 | 0.000 | |
text_token | 6.149 | 0.196 | 4.005 | |
token_vector | 6.160 | 0.193 | 4.042 | |