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This page was generated on 2022-01-21 13:06:43 -0500 (Fri, 21 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4079
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4140
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

CHECK results for multicrispr on tokay2


To the developers/maintainers of the multicrispr package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/multicrispr.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.

raw results

Package 1241/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
multicrispr 1.4.3  (landing page)
Aditya Bhagwat
Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/multicrispr
git_branch: RELEASE_3_14
git_last_commit: fae9a9e
git_last_commit_date: 2021-12-23 06:36:17 -0500 (Thu, 23 Dec 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: multicrispr
Version: 1.4.3
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:multicrispr.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings multicrispr_1.4.3.tar.gz
StartedAt: 2022-01-20 23:31:56 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 23:42:33 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 636.7 seconds
RetCode: 0
Status:   OK  
CheckDir: multicrispr.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:multicrispr.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings multicrispr_1.4.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/multicrispr.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'multicrispr/DESCRIPTION' ... OK
* this is package 'multicrispr' version '1.4.3'
* 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 'multicrispr' 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 ... 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 ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
find_primespacers  18.59   0.78   19.38
score_ontargets    15.85   0.79   16.67
find_spacers       12.03   0.64   12.67
add_genome_matches  9.62   1.71   11.33
up_flank           11.28   0.00   11.28
extend_for_pe       9.61   0.52   10.14
plot_intervals      9.79   0.31   10.11
add_target_matches  7.61   0.62   12.11
index_genome        1.37   0.09   19.42
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
find_primespacers  19.42   0.56   19.99
score_ontargets    18.85   0.58   19.42
find_spacers       12.75   0.60   13.35
add_genome_matches 11.92   1.37   13.28
up_flank           12.01   0.03   12.05
plot_intervals     11.09   0.47   11.56
add_target_matches 10.39   0.61   14.63
extend_for_pe       9.78   0.44   10.22
index_genome        1.02   0.09   17.69
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* 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: OK


Installation output

multicrispr.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/multicrispr_1.4.3.tar.gz && rm -rf multicrispr.buildbin-libdir && mkdir multicrispr.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=multicrispr.buildbin-libdir multicrispr_1.4.3.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL multicrispr_1.4.3.zip && rm multicrispr_1.4.3.tar.gz multicrispr_1.4.3.zip
###
##############################################################################
##############################################################################


  % 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 3842k   11  442k    0     0  1157k      0  0:00:03 --:--:--  0:00:03 1156k
 96 3842k   96 3720k    0     0  2692k      0  0:00:01  0:00:01 --:--:-- 2691k
100 3842k  100 3842k    0     0  2766k      0  0:00:01  0:00:01 --:--:-- 2766k

install for i386

* installing *source* package 'multicrispr' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'multicrispr'
    finding HTML links ... done
    add_genome_matches                      html  
    add_inverse_strand                      html  
    add_seq                                 html  
    add_target_matches                      html  
    bed_to_granges                          html  
    char_to_granges                         html  
    double_flank                            html  
    extend_for_pe                           html  
    extend_pe_to_gg                         html  
    extract_matchranges                     html  
    finding level-2 HTML links ... done

    extract_subranges                       html  
    find_gg                                 html  
    find_primespacers                       html  
    find_spacers                            html  
    genes_to_granges                        html  
    gr2dt                                   html  
    has_been_indexed                        html  
    index_genome                            html  
    index_targets                           html  
    plot_intervals                          html  
    plot_karyogram                          html  
    score_ontargets                         html  
    up_flank                                html  
    write_ranges                            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 'multicrispr' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'multicrispr' as multicrispr_1.4.3.zip
* DONE (multicrispr)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'multicrispr' successfully unpacked and MD5 sums checked

Tests output

multicrispr.Rcheck/tests_i386/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-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(multicrispr)
> 
> test_check("multicrispr")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
> 
> proc.time()
   user  system elapsed 
  12.90    2.23   15.12 

multicrispr.Rcheck/tests_x64/testthat.Rout


R version 4.1.2 (2021-11-01) -- "Bird Hippie"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (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(multicrispr)
> 
> test_check("multicrispr")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 13 ]
> 
> proc.time()
   user  system elapsed 
  13.98    1.48   17.87 

Example timings

multicrispr.Rcheck/examples_i386/multicrispr-Ex.timings

nameusersystemelapsed
add_genome_matches 9.62 1.7111.33
add_inverse_strand1.940.041.98
add_seq3.630.163.78
add_target_matches 7.61 0.6212.11
bed_to_granges0.810.040.84
char_to_granges0.890.000.89
double_flank2.810.012.83
extend_for_pe 9.61 0.5210.14
extend_pe_to_gg0.580.000.58
extract_matchranges3.190.183.37
extract_subranges0.640.020.65
find_gg2.160.082.24
find_primespacers18.59 0.7819.38
find_spacers12.03 0.6412.67
genes_to_granges3.290.223.51
gr2dt0.220.000.22
has_been_indexed000
index_genome 1.37 0.0919.42
index_targets2.320.163.48
plot_intervals 9.79 0.3110.11
plot_karyogram1.110.051.16
score_ontargets15.85 0.7916.67
up_flank11.28 0.0011.28
write_ranges0.220.000.22

multicrispr.Rcheck/examples_x64/multicrispr-Ex.timings

nameusersystemelapsed
add_genome_matches11.92 1.3713.28
add_inverse_strand2.030.032.06
add_seq2.970.253.21
add_target_matches10.39 0.6114.63
bed_to_granges0.910.050.95
char_to_granges1.890.021.91
double_flank2.550.012.56
extend_for_pe 9.78 0.4410.22
extend_pe_to_gg0.640.000.64
extract_matchranges3.300.053.35
extract_subranges0.670.000.67
find_gg1.330.011.34
find_primespacers19.42 0.5619.99
find_spacers12.75 0.6013.35
genes_to_granges3.550.113.65
gr2dt0.250.000.25
has_been_indexed000
index_genome 1.02 0.0917.69
index_targets2.420.083.53
plot_intervals11.09 0.4711.56
plot_karyogram1.690.041.73
score_ontargets18.85 0.5819.42
up_flank12.01 0.0312.05
write_ranges0.250.000.25