Jack Fu
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/polyester |
| git_branch: RELEASE_3_14 |
| git_last_commit: dc3cd74 |
| git_last_commit_date: 2021-10-26 12:16:15 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:07:06 -0400 (Wed, 13 Apr 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4324 |
| tokay2 | Windows Server 2012 R2 Standard | x64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4077 |
| machv2 | macOS 10.14.6 Mojave | x86_64 | 4.1.3 (2022-03-10) -- "One Push-Up" | 4137 |
| 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 | ||||
|
To the developers/maintainers of the polyester package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/polyester.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 1439/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| polyester 1.30.0 (landing page) Jack Fu
| nebbiolo2 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: polyester |
| Version: 1.30.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:polyester.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings polyester_1.30.0.tar.gz |
| StartedAt: 2022-04-13 00:40:27 -0400 (Wed, 13 Apr 2022) |
| EndedAt: 2022-04-13 00:43:35 -0400 (Wed, 13 Apr 2022) |
| EllapsedTime: 188.5 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: polyester.Rcheck |
| Warnings: 0 |
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### Running command:
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### C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:polyester.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings polyester_1.30.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/polyester.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'polyester/DESCRIPTION' ... OK
* this is package 'polyester' version '1.30.0'
* 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 whether package 'polyester' 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 ... NOTE
Namespace in Imports field not imported from: 'zlibbioc'
All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
add_platform_error: no visible binding for global variable 'model1'
add_platform_error: no visible binding for global variable 'model2'
add_platform_error: no visible binding for global variable 'model4'
add_platform_error: no visible binding for global variable 'model5'
add_platform_error: no visible binding for global variable 'model3'
add_platform_error: no visible binding for global variable 'model6'
add_platform_error: no visible binding for global variable 'model7'
generate_fragments: no visible binding for global variable
'empirical_density'
generate_fragments: no visible binding for global variable 'rnaf'
generate_fragments: no visible binding for global variable 'cdnaf'
simulate_experiment_countmat: no visible global function definition for
'is'
Undefined global functions or variables:
cdnaf empirical_density is model1 model2 model3 model4 model5 model6
model7 rnaf
Consider adding
importFrom("methods", "is")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
add_gc_bias 12.33 0.15 12.71
create_read_numbers 8.41 1.06 9.64
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
add_gc_bias 11.63 0.06 11.68
create_read_numbers 8.97 0.28 9.27
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... 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
'C:/Users/biocbuild/bbs-3.14-bioc/meat/polyester.Rcheck/00check.log'
for details.
polyester.Rcheck/00install.out
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###
### Running command:
###
### C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/polyester_1.30.0.tar.gz && rm -rf polyester.buildbin-libdir && mkdir polyester.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=polyester.buildbin-libdir polyester_1.30.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL polyester_1.30.0.zip && rm polyester_1.30.0.tar.gz polyester_1.30.0.zip
###
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% Total % Received % Xferd Average Speed Time Time Time Current
Dload Upload Total Spent Left Speed
0 0 0 0 0 0 0 0 --:--:-- --:--:-- --:--:-- 0
11 1879k 11 219k 0 0 727k 0 0:00:02 --:--:-- 0:00:02 728k
100 1879k 100 1879k 0 0 1478k 0 0:00:01 0:00:01 --:--:-- 1478k
install for i386
* installing *source* package 'polyester' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'polyester'
finding HTML links ... done
NB html
add_error html
add_gc_bias html
add_platform_error html
cdnaf html
count_transcripts html
create_read_numbers html
empirical_density html
finding level-2 HTML links ... done
fpkm_to_counts html
generate_fragments html
getAttributeField html
get_params html
get_reads html
gtf_dataframe html
loessfit1 html
loessfit2 html
loessfit3 html
loessfit4 html
loessfit5 html
loessfit6 html
loessfit7 html
model1 html
model2 html
model3 html
model4 html
model5 html
model6 html
model7 html
polyester html
reverse_complement html
rnaf html
seq_gtf html
simulate_experiment html
simulate_experiment_countmat html
simulate_experiment_empirical html
write_reads html
** 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
install for x64
* installing *source* package 'polyester' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'polyester' as polyester_1.30.0.zip
* DONE (polyester)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'polyester' successfully unpacked and MD5 sums checked
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polyester.Rcheck/examples_i386/polyester-Ex.timings
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polyester.Rcheck/examples_x64/polyester-Ex.timings
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