Tim Triche
| Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022) |
| git_url: https://git.bioconductor.org/packages/spiky |
| git_branch: RELEASE_3_14 |
| git_last_commit: 1b25b68 |
| git_last_commit_date: 2021-10-26 13:10:41 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.14 |
|
This page was generated on 2022-04-13 12:07:24 -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 spiky package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/spiky.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 1859/2083 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| spiky 1.0.0 (landing page) Tim Triche
| 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: spiky |
| Version: 1.0.0 |
| Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:spiky.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings spiky_1.0.0.tar.gz |
| StartedAt: 2022-04-13 03:25:36 -0400 (Wed, 13 Apr 2022) |
| EndedAt: 2022-04-13 03:31:49 -0400 (Wed, 13 Apr 2022) |
| EllapsedTime: 373.4 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: spiky.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:spiky.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings spiky_1.0.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/spiky.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 'spiky/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'spiky' version '1.0.0'
* package encoding: UTF-8
* 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 'spiky' can be installed ... OK
* checking installed package size ... NOTE
installed size is 5.2Mb
sub-directories of 1Mb or more:
data 1.8Mb
extdata 2.9Mb
* 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 ... 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 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
bin_pmol 9.62 1.64 11.48
predict_pmol 7.25 1.18 8.43
model_bam_standards 6.21 0.03 6.25
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
bin_pmol 7.22 1.70 9.10
predict_pmol 5.33 0.74 6.07
model_bam_standards 5.67 0.01 5.71
* 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: 1 NOTE
See
'C:/Users/biocbuild/bbs-3.14-bioc/meat/spiky.Rcheck/00check.log'
for details.
spiky.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/spiky_1.0.0.tar.gz && rm -rf spiky.buildbin-libdir && mkdir spiky.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=spiky.buildbin-libdir spiky_1.0.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL spiky_1.0.0.zip && rm spiky_1.0.0.tar.gz spiky_1.0.0.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
2 4742k 2 101k 0 0 445k 0 0:00:10 --:--:-- 0:00:10 444k
25 4742k 25 1210k 0 0 983k 0 0:00:04 0:00:01 0:00:03 983k
67 4742k 67 3181k 0 0 1424k 0 0:00:03 0:00:02 0:00:01 1423k
100 4742k 100 4742k 0 0 1697k 0 0:00:02 0:00:02 --:--:-- 1697k
install for i386
Warning in untar2(tarfile, files, list, exdir, restore_times) :
failed to copy 'spiky/inst/extdata/spikes.fa' to 'spiky/inst/extdata/cfMeDIPspikes.fa'
* installing *source* package 'spiky' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
converting help for package 'spiky'
finding HTML links ... done
add_frag_info html
bam_to_bins html
bin_pmol html
covg_to_df html
dedup html
find_spike_contigs html
genbank_mito html
generate_spike_fasta html
get_base_name html
get_binned_coverage html
get_merged_gr html
get_spike_depth html
get_spiked_coverage html
kmax html
kmers html
methylation_specificity html
model_bam_standards html
model_glm_pmol html
parse_spike_UMI html
phage html
predict_pmol html
process_spikes html
rename_spike_seqlevels html
rename_spikes html
scan_genomic_contigs html
scan_methylation_specificity html
scan_spike_contigs html
scan_spike_counts html
scan_spiked_bam html
seqinfo_from_header html
spike html
spike_bland_altman_plot html
spike_counts html
spike_cram_counts html
spike_read_counts html
spiky-methods html
ssb_res html
testGR html
tile_bins 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
Warning in untar2(tarfile, files, list, exdir, restore_times) :
failed to copy 'spiky/inst/extdata/spikes.fa' to 'spiky/inst/extdata/cfMeDIPspikes.fa'
* installing *source* package 'spiky' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'spiky' as spiky_1.0.0.zip
* DONE (spiky)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'spiky' successfully unpacked and MD5 sums checked
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spiky.Rcheck/examples_i386/spiky-Ex.timings
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spiky.Rcheck/examples_x64/spiky-Ex.timings
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