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This page was generated on 2022-04-13 12:06:57 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (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

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? 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: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 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 -0400 (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: 2022-04-12 23:26:21 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 23:37:43 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 682.2 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 4.1.3 (2022-03-10)
* 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  18.67   0.69   19.36
score_ontargets    17.76   0.75   18.50
find_spacers       11.66   0.50   12.16
add_genome_matches  9.58   2.11   11.73
up_flank           10.86   0.09   10.95
extend_for_pe       9.92   0.59   10.58
plot_intervals      9.60   0.41   10.01
add_target_matches  8.88   0.73   13.56
index_genome        1.25   0.13   21.31
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
score_ontargets    19.39   0.91   20.30
find_primespacers  19.06   0.91   19.97
find_spacers       12.94   0.56   13.50
add_genome_matches 11.76   1.41   13.15
up_flank           11.44   0.05   11.49
plot_intervals     10.80   0.24   11.05
extend_for_pe      10.00   0.50   10.50
add_target_matches  8.88   0.50   13.33
index_genome        0.89   0.01   17.42
* 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  450k    0     0   694k      0  0:00:05 --:--:--  0:00:05  694k
 36 3842k   36 1393k    0     0   845k      0  0:00:04  0:00:01  0:00:03  845k
 67 3842k   67 2579k    0     0   967k      0  0:00:03  0:00:02  0:00:01  966k
100 3842k  100 3842k    0     0  1080k      0  0:00:03  0:00:03 --:--:-- 1080k

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 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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 
  12.87    2.39   15.26 

multicrispr.Rcheck/tests_x64/testthat.Rout


R version 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 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 
  14.15    1.45   22.09 

Example timings

multicrispr.Rcheck/examples_i386/multicrispr-Ex.timings

nameusersystemelapsed
add_genome_matches 9.58 2.1111.73
add_inverse_strand1.710.061.79
add_seq4.020.194.20
add_target_matches 8.88 0.7313.56
bed_to_granges0.810.050.86
char_to_granges1.030.021.05
double_flank2.800.012.81
extend_for_pe 9.92 0.5910.58
extend_pe_to_gg0.570.000.57
extract_matchranges3.010.113.14
extract_subranges0.810.000.81
find_gg2.180.052.22
find_primespacers18.67 0.6919.36
find_spacers11.66 0.5012.16
genes_to_granges3.630.303.92
gr2dt0.210.000.22
has_been_indexed000
index_genome 1.25 0.1321.31
index_targets2.040.152.86
plot_intervals 9.60 0.4110.01
plot_karyogram1.460.031.49
score_ontargets17.76 0.7518.50
up_flank10.86 0.0910.95
write_ranges0.260.000.26

multicrispr.Rcheck/examples_x64/multicrispr-Ex.timings

nameusersystemelapsed
add_genome_matches11.76 1.4113.15
add_inverse_strand2.130.062.19
add_seq3.970.174.14
add_target_matches 8.88 0.5013.33
bed_to_granges0.810.030.84
char_to_granges1.110.001.16
double_flank3.860.053.90
extend_for_pe10.0 0.510.5
extend_pe_to_gg0.610.000.61
extract_matchranges3.040.063.11
extract_subranges0.660.000.66
find_gg1.410.031.43
find_primespacers19.06 0.9119.97
find_spacers12.94 0.5613.50
genes_to_granges4.750.184.92
gr2dt0.270.000.27
has_been_indexed000
index_genome 0.89 0.0117.42
index_targets2.420.173.56
plot_intervals10.80 0.2411.05
plot_karyogram1.400.011.42
score_ontargets19.39 0.9120.30
up_flank11.44 0.0511.49
write_ranges0.230.000.23