Back to Build/check report for BioC 3.17 |
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This page was generated on 2023-02-08 01:15:34 -0000 (Wed, 08 Feb 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" | 4164 |
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To the developers/maintainers of the ttgsea package: - Please 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 How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 2089/2164 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
ttgsea 1.7.1 (landing page) Dongmin Jung
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
Package: ttgsea |
Version: 1.7.1 |
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:ttgsea.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings ttgsea_1.7.1.tar.gz |
StartedAt: 2023-02-07 18:21:18 -0000 (Tue, 07 Feb 2023) |
EndedAt: 2023-02-07 18:25:23 -0000 (Tue, 07 Feb 2023) |
EllapsedTime: 245.3 seconds |
RetCode: 0 |
Status: OK |
CheckDir: ttgsea.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:ttgsea.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/library --timings ttgsea_1.7.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/ttgsea.Rcheck’ * using R Under development (unstable) (2023-01-14 r83615) * using platform: aarch64-unknown-linux-gnu (64-bit) * R was compiled by gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0 * running under: Ubuntu 22.04.1 LTS * using session charset: UTF-8 * checking for file ‘ttgsea/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘ttgsea’ version ‘1.7.1’ * 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 R 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 23.110 0.793 20.499 predict_model 22.483 0.915 22.091 token_vector 9.529 0.430 6.816 text_token 9.295 0.388 6.641 bi_gru 5.501 1.263 10.628 * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... ‘ttgsea.Rmd’ using ‘UTF-8’... OK NONE * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: OK
ttgsea.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL ttgsea ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/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 Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: aarch64-unknown-linux-gnu (64-bit) 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") /usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/__init__.py:98: UserWarning: unable to load libtensorflow_io_plugins.so: unable to open file: libtensorflow_io_plugins.so, from paths: ['/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io_plugins.so'] caused by: ["[Errno 2] The file to load file system plugin from does not exist.: '/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io_plugins.so'"] warnings.warn(f"unable to load libtensorflow_io_plugins.so: {e}") /usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/__init__.py:104: UserWarning: file system plugins are not loaded: unable to open file: libtensorflow_io.so, from paths: ['/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io.so'] caused by: ['/usr/local/lib/python3.10/dist-packages/tensorflow_io/python/ops/libtensorflow_io.so: cannot open shared object file: No such file or directory'] warnings.warn(f"file system plugins are not loaded: {e}") 1/45 [..............................] - ETA: 4:17 - loss: 1.5620 - pearson_correlation: -0.0308 3/45 [=>............................] - ETA: 1s - loss: 1.6173 - pearson_correlation: 0.0771 4/45 [=>............................] - ETA: 2s - loss: 1.6130 - pearson_correlation: 0.0784 5/45 [==>...........................] - ETA: 2s - loss: 1.5510 - pearson_correlation: 0.0484 6/45 [===>..........................] - ETA: 2s - loss: 1.5712 - pearson_correlation: 0.0134 7/45 [===>..........................] - ETA: 2s - loss: 1.5617 - pearson_correlation: 0.0123 8/45 [====>.........................] - ETA: 2s - loss: 1.5961 - pearson_correlation: 0.0196 9/45 [=====>........................] - ETA: 2s - loss: 1.5751 - pearson_correlation: 0.0500 11/45 [======>.......................] - ETA: 1s - loss: 1.5455 - pearson_correlation: 0.0486 12/45 [=======>......................] - ETA: 1s - loss: 1.5202 - pearson_correlation: 0.0511 13/45 [=======>......................] - ETA: 1s - loss: 1.5398 - pearson_correlation: 0.0516 14/45 [========>.....................] - ETA: 1s - loss: 1.5402 - pearson_correlation: 0.0441 15/45 [=========>....................] - ETA: 1s - loss: 1.5429 - pearson_correlation: 0.0517 16/45 [=========>....................] - ETA: 1s - loss: 1.5501 - pearson_correlation: 0.0656 17/45 [==========>...................] - ETA: 1s - loss: 1.5498 - pearson_correlation: 0.0683 18/45 [===========>..................] - ETA: 1s - loss: 1.5595 - pearson_correlation: 0.0749 19/45 [===========>..................] - ETA: 1s - loss: 1.5766 - pearson_correlation: 0.0773 20/45 [============>.................] - ETA: 1s - loss: 1.5811 - pearson_correlation: 0.0597 21/45 [=============>................] - ETA: 1s - loss: 1.5752 - pearson_correlation: 0.0559 22/45 [=============>................] - ETA: 1s - loss: 1.5848 - pearson_correlation: 0.0591 23/45 [==============>...............] - ETA: 1s - loss: 1.5857 - pearson_correlation: 0.0692 24/45 [===============>..............] - ETA: 1s - loss: 1.5896 - pearson_correlation: 0.0782 25/45 [===============>..............] - ETA: 1s - loss: 1.5754 - pearson_correlation: 0.0821 26/45 [================>.............] - ETA: 1s - loss: 1.5697 - pearson_correlation: 0.0768 27/45 [=================>............] - ETA: 1s - loss: 1.5790 - pearson_correlation: 0.0787 29/45 [==================>...........] - ETA: 0s - loss: 1.5714 - pearson_correlation: 0.0872 31/45 [===================>..........] - ETA: 0s - loss: 1.5656 - pearson_correlation: 0.0884 33/45 [=====================>........] - ETA: 0s - loss: 1.5626 - pearson_correlation: 0.0814 34/45 [=====================>........] - ETA: 0s - loss: 1.5664 - pearson_correlation: 0.0867 35/45 [======================>.......] - ETA: 0s - loss: 1.5698 - pearson_correlation: 0.0878 37/45 [=======================>......] - ETA: 0s - loss: 1.5651 - pearson_correlation: 0.0873 38/45 [========================>.....] - ETA: 0s - loss: 1.5642 - pearson_correlation: 0.0938 39/45 [=========================>....] - ETA: 0s - loss: 1.5660 - pearson_correlation: 0.0923 40/45 [=========================>....] - ETA: 0s - loss: 1.5596 - pearson_correlation: 0.0860 41/45 [==========================>...] - ETA: 0s - loss: 1.5581 - pearson_correlation: 0.0925 42/45 [===========================>..] - ETA: 0s - loss: 1.5553 - pearson_correlation: 0.0898 43/45 [===========================>..] - ETA: 0s - loss: 1.5537 - pearson_correlation: 0.0902 44/45 [============================>.] - ETA: 0s - loss: 1.5513 - pearson_correlation: 0.0994 45/45 [==============================] - ETA: 0s - loss: 1.5528 - pearson_correlation: 0.0958 45/45 [==============================] - 9s 62ms/step - loss: 1.5528 - pearson_correlation: 0.0958 1/4 [======>.......................] - ETA: 1s 4/4 [==============================] - 1s 9ms/step 1/1 [==============================] - ETA: 0s 1/1 [==============================] - 0s 32ms/step 1/32 [..............................] - ETA: 1s 5/32 [===>..........................] - ETA: 0s 10/32 [========>.....................] - ETA: 0s 14/32 [============>.................] - 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ETA: 0s 27/32 [========================>.....] - ETA: 0s 31/32 [============================>.] - ETA: 0s 32/32 [==============================] - 0s 11ms/step 1/32 [..............................] - ETA: 1s 5/32 [===>..........................] - ETA: 0s 10/32 [========>.....................] - ETA: 0s 14/32 [============>.................] - ETA: 0s 18/32 [===============>..............] - ETA: 0s 22/32 [===================>..........] - ETA: 0s 26/32 [=======================>......] - ETA: 0s 31/32 [============================>.] - ETA: 0s 32/32 [==============================] - 0s 12ms/step 1/32 [..............................] - ETA: 1s 4/32 [==>...........................] - ETA: 0s 8/32 [======>.......................] - ETA: 0s 12/32 [==========>...................] - ETA: 0s 16/32 [==============>...............] - ETA: 0s 20/32 [=================>............] - ETA: 0s 24/32 [=====================>........] - ETA: 0s 28/32 [=========================>....] - ETA: 0s 32/32 [==============================] - 0s 14ms/step 1/32 [..............................] - ETA: 1s 6/32 [====>.........................] - ETA: 0s 10/32 [========>.....................] - ETA: 0s 15/32 [=============>................] - ETA: 0s 19/32 [================>.............] - ETA: 0s 23/32 [====================>.........] - ETA: 0s 27/32 [========================>.....] - ETA: 0s 31/32 [============================>.] - ETA: 0s 32/32 [==============================] - 0s 12ms/step [ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ] > > proc.time() user system elapsed 27.502 1.058 30.696
ttgsea.Rcheck/ttgsea-Ex.timings
name | user | system | elapsed | |
bi_gru | 5.501 | 1.263 | 10.628 | |
bi_lstm | 0.351 | 0.012 | 0.363 | |
fit_model | 23.110 | 0.793 | 20.499 | |
metric_pearson_correlation | 0.03 | 0.00 | 0.03 | |
plot_model | 0.348 | 0.004 | 0.364 | |
predict_model | 22.483 | 0.915 | 22.091 | |
sampling_generator | 0.018 | 0.000 | 0.018 | |
text_token | 9.295 | 0.388 | 6.641 | |
token_vector | 9.529 | 0.430 | 6.816 | |