Tim Triche
| Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022) |
| git_url: https://git.bioconductor.org/packages/spiky |
| git_branch: master |
| git_last_commit: 6099339 |
| git_last_commit_date: 2021-10-26 13:10:41 -0400 (Tue, 26 Oct 2021) |
| Back to Multiple platform build/check report for BioC 3.15 |
|
This page was generated on 2022-03-18 11:08:46 -0400 (Fri, 18 Mar 2022).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
| riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
| palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
| merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
| 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? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1866/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| spiky 1.1.0 (landing page) Tim Triche
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| riesling1 | Windows Server 2019 Standard / x64 | OK | OK | OK | OK | |||||||||
| palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | | ||||||||
| merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: spiky |
| Version: 1.1.0 |
| Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:spiky.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings spiky_1.1.0.tar.gz |
| StartedAt: 2022-03-17 20:22:13 -0400 (Thu, 17 Mar 2022) |
| EndedAt: 2022-03-17 20:25:58 -0400 (Thu, 17 Mar 2022) |
| EllapsedTime: 225.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: spiky.Rcheck |
| Warnings: 0 |
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### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:spiky.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings spiky_1.1.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/spiky.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* 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 '1.1.0'
* 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 3.0Mb
* 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 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 ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
bin_pmol 7.42 2.2 10.12
* 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
'D:/biocbuild/bbs-3.15-bioc/meat/spiky.Rcheck/00check.log'
for details.
spiky.Rcheck/00install.out
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###
### Running command:
###
### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL spiky
###
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* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* 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
* DONE (spiky)
Making 'packages.html' ... done
spiky.Rcheck/spiky-Ex.timings
| name | user | system | elapsed | |
| add_frag_info | 0.14 | 0.00 | 0.14 | |
| bam_to_bins | 0.13 | 0.00 | 0.13 | |
| bin_pmol | 7.42 | 2.20 | 10.12 | |
| covg_to_df | 0.17 | 0.00 | 0.17 | |
| find_spike_contigs | 0.03 | 0.01 | 0.05 | |
| generate_spike_fasta | 0.08 | 0.02 | 0.09 | |
| get_base_name | 0.01 | 0.00 | 0.02 | |
| get_binned_coverage | 0.21 | 0.02 | 0.22 | |
| get_merged_gr | 0.04 | 0.00 | 0.04 | |
| get_spike_depth | 0.18 | 0.03 | 0.21 | |
| get_spiked_coverage | 0.18 | 0.00 | 0.18 | |
| kmax | 0.08 | 0.01 | 0.10 | |
| kmers | 0.06 | 0.02 | 0.08 | |
| methylation_specificity | 0.90 | 0.01 | 0.90 | |
| model_bam_standards | 4.01 | 0.36 | 4.38 | |
| model_glm_pmol | 0.11 | 0.02 | 0.12 | |
| predict_pmol | 3.72 | 1.09 | 4.82 | |
| process_spikes | 0.26 | 0.00 | 0.26 | |
| scan_genomic_contigs | 0.11 | 0.02 | 0.13 | |
| scan_methylation_specificity | 0.04 | 0.00 | 0.03 | |
| scan_spike_contigs | 0.20 | 0.03 | 0.23 | |
| scan_spike_counts | 0.09 | 0.00 | 0.10 | |
| scan_spiked_bam | 0.42 | 0.00 | 0.42 | |
| seqinfo_from_header | 0.07 | 0.02 | 0.08 | |
| spike_bland_altman_plot | 0.12 | 0.01 | 0.14 | |
| spike_counts | 0.05 | 0.00 | 0.04 | |
| tile_bins | 0.05 | 0.00 | 0.05 | |