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This page was generated on 2021-10-15 15:06:17 -0400 (Fri, 15 Oct 2021).

CHECK results for projectR on tokay2

To the developers/maintainers of the projectR package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/projectR.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 1442/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
projectR 1.8.0  (landing page)
Genevieve Stein-O'Brien
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/projectR
git_branch: RELEASE_3_13
git_last_commit: c86e61e
git_last_commit_date: 2021-05-19 12:42:08 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 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: projectR
Version: 1.8.0
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:projectR.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings projectR_1.8.0.tar.gz
StartedAt: 2021-10-15 03:45:33 -0400 (Fri, 15 Oct 2021)
EndedAt: 2021-10-15 03:52:35 -0400 (Fri, 15 Oct 2021)
EllapsedTime: 421.5 seconds
RetCode: 0
Status:   OK  
CheckDir: projectR.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:projectR.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings projectR_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/projectR.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'projectR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'projectR' version '1.8.0'
* 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 ... NOTE
Found the following hidden files and directories:
  .travis.yml
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'projectR' 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 ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* 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 ... NOTE
alluvialMat: no visible binding for global variable 'celltype'
alluvialMat: no visible binding for global variable 'variable'
alluvialMat: no visible binding for global variable 'value'
alluvialMat: no visible binding for global variable 'nCells'
alluvialMat: no visible binding for global variable 'nCells_per_type'
alluvialMat: no visible binding for global variable
  'nCells_per_pattern'
alluvialMat: no visible binding for global variable 'prop'
Undefined global functions or variables:
  celltype nCells nCells_per_pattern nCells_per_type prop value
  variable
* 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 LazyData ... 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
projectR-methods 51.9   0.02   51.92
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                 user system elapsed
projectR-methods 36.1   0.04   36.17
* 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: 3 NOTEs
See
  'C:/Users/biocbuild/bbs-3.13-bioc/meat/projectR.Rcheck/00check.log'
for details.



Installation output

projectR.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/projectR_1.8.0.tar.gz && rm -rf projectR.buildbin-libdir && mkdir projectR.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=projectR.buildbin-libdir projectR_1.8.0.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL projectR_1.8.0.zip && rm projectR_1.8.0.tar.gz projectR_1.8.0.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
 50  869k   50  441k    0     0  1174k      0 --:--:-- --:--:-- --:--:-- 1174k
100  869k  100  869k    0     0  1906k      0 --:--:-- --:--:-- --:--:-- 1906k

install for i386

* installing *source* package 'projectR' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'projectR'
    finding HTML links ... done
    AP.RNAseq6l3c3t                         html  
    alluvialMat                             html  
    aucMat                                  html  
    cluster2pattern-methods                 html  
    clusterPlotR-methods                    html  
    correlateR-class                        html  
    correlateR                              html  
    geneMatchR                              html  
    initialize-correlateR-method            html  
    initialize-rotatoR-method               html  
    intersectoR-methods                     html  
    map.ESepiGen4c1l                        html  
    map.RNAseq6l3c3t                        html  
    p.ESepiGen4c1l                          html  
    p.RNAseq6l3c3t                          html  
    pd.ESepiGen4c1l                         html  
    pd.RNAseq6l3c3t                         html  
    projectR-methods                        html  
    rotatoR-class                           html  
    rotatoR                                 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 'projectR' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'projectR' as projectR_1.8.0.zip
* DONE (projectR)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'projectR' successfully unpacked and MD5 sums checked

Tests output

projectR.Rcheck/tests_i386/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
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(projectR)
> 
> test_check("projectR")

This is CoGAPS version 3.12.0 
Running Standard CoGAPS on p.RNAseq6l3c3t (108 genes and 54 samples) with parameters:

-- Standard Parameters --
nPatterns            5 
nIterations          50000 
seed                 489 
sparseOptimization   FALSE 

-- Sparsity Parameters --
alpha          0.01 
maxGibbsMass   100 

Data Model: Dense, Normal
Sampler Type: Sequential
Loading Data...Done! (00:00:00)
-- Equilibration Phase --
1000 of 50000, Atoms: 203(A), 156(P), ChiSq: 48736, Time: 00:00:00 / 00:00:00
2000 of 50000, Atoms: 251(A), 158(P), ChiSq: 37650, Time: 00:00:00 / 00:00:00
3000 of 50000, Atoms: 266(A), 175(P), ChiSq: 35659, Time: 00:00:00 / 00:00:00
4000 of 50000, Atoms: 274(A), 172(P), ChiSq: 33926, Time: 00:00:01 / 00:00:36
5000 of 50000, Atoms: 311(A), 171(P), ChiSq: 32604, Time: 00:00:01 / 00:00:27
6000 of 50000, Atoms: 349(A), 188(P), ChiSq: 31108, Time: 00:00:02 / 00:00:45
7000 of 50000, Atoms: 350(A), 196(P), ChiSq: 30719, Time: 00:00:02 / 00:00:38
8000 of 50000, Atoms: 370(A), 204(P), ChiSq: 30419, Time: 00:00:02 / 00:00:32
9000 of 50000, Atoms: 392(A), 206(P), ChiSq: 29871, Time: 00:00:03 / 00:00:43
10000 of 50000, Atoms: 399(A), 200(P), ChiSq: 29604, Time: 00:00:03 / 00:00:38
11000 of 50000, Atoms: 408(A), 200(P), ChiSq: 29151, Time: 00:00:04 / 00:00:46
12000 of 50000, Atoms: 427(A), 222(P), ChiSq: 29125, Time: 00:00:04 / 00:00:41
13000 of 50000, Atoms: 405(A), 208(P), ChiSq: 28997, Time: 00:00:05 / 00:00:47
14000 of 50000, Atoms: 421(A), 200(P), ChiSq: 28828, Time: 00:00:05 / 00:00:43
15000 of 50000, Atoms: 420(A), 208(P), ChiSq: 28769, Time: 00:00:05 / 00:00:40
16000 of 50000, Atoms: 441(A), 220(P), ChiSq: 28709, Time: 00:00:06 / 00:00:45
17000 of 50000, Atoms: 439(A), 224(P), ChiSq: 28703, Time: 00:00:06 / 00:00:42
18000 of 50000, Atoms: 439(A), 221(P), ChiSq: 28525, Time: 00:00:07 / 00:00:46
19000 of 50000, Atoms: 442(A), 228(P), ChiSq: 28487, Time: 00:00:07 / 00:00:43
20000 of 50000, Atoms: 459(A), 236(P), ChiSq: 28428, Time: 00:00:08 / 00:00:47
21000 of 50000, Atoms: 458(A), 239(P), ChiSq: 28385, Time: 00:00:08 / 00:00:44
22000 of 50000, Atoms: 461(A), 222(P), ChiSq: 28269, Time: 00:00:09 / 00:00:47
23000 of 50000, Atoms: 470(A), 213(P), ChiSq: 28323, Time: 00:00:09 / 00:00:45
24000 of 50000, Atoms: 467(A), 233(P), ChiSq: 28240, Time: 00:00:10 / 00:00:48
25000 of 50000, Atoms: 471(A), 226(P), ChiSq: 28245, Time: 00:00:10 / 00:00:46
26000 of 50000, Atoms: 464(A), 241(P), ChiSq: 28260, Time: 00:00:10 / 00:00:44
27000 of 50000, Atoms: 460(A), 237(P), ChiSq: 28268, Time: 00:00:11 / 00:00:46
28000 of 50000, Atoms: 460(A), 226(P), ChiSq: 28246, Time: 00:00:11 / 00:00:44
29000 of 50000, Atoms: 467(A), 230(P), ChiSq: 28207, Time: 00:00:12 / 00:00:46
30000 of 50000, Atoms: 471(A), 255(P), ChiSq: 28194, Time: 00:00:12 / 00:00:45
31000 of 50000, Atoms: 460(A), 245(P), ChiSq: 28237, Time: 00:00:13 / 00:00:47
32000 of 50000, Atoms: 449(A), 244(P), ChiSq: 28181, Time: 00:00:13 / 00:00:45
33000 of 50000, Atoms: 461(A), 233(P), ChiSq: 28216, Time: 00:00:14 / 00:00:47
34000 of 50000, Atoms: 488(A), 229(P), ChiSq: 28199, Time: 00:00:14 / 00:00:45
35000 of 50000, Atoms: 457(A), 242(P), ChiSq: 28166, Time: 00:00:15 / 00:00:47
36000 of 50000, Atoms: 465(A), 224(P), ChiSq: 28204, Time: 00:00:15 / 00:00:46
37000 of 50000, Atoms: 469(A), 230(P), ChiSq: 28235, Time: 00:00:16 / 00:00:47
38000 of 50000, Atoms: 461(A), 230(P), ChiSq: 28244, Time: 00:00:16 / 00:00:46
39000 of 50000, Atoms: 473(A), 231(P), ChiSq: 28278, Time: 00:00:17 / 00:00:47
40000 of 50000, Atoms: 478(A), 232(P), ChiSq: 28228, Time: 00:00:17 / 00:00:46
41000 of 50000, Atoms: 454(A), 230(P), ChiSq: 28196, Time: 00:00:18 / 00:00:47
42000 of 50000, Atoms: 437(A), 235(P), ChiSq: 28208, Time: 00:00:18 / 00:00:46
43000 of 50000, Atoms: 464(A), 235(P), ChiSq: 28251, Time: 00:00:19 / 00:00:48
44000 of 50000, Atoms: 445(A), 226(P), ChiSq: 28248, Time: 00:00:19 / 00:00:46
45000 of 50000, Atoms: 460(A), 231(P), ChiSq: 28270, Time: 00:00:20 / 00:00:48
46000 of 50000, Atoms: 462(A), 245(P), ChiSq: 28290, Time: 00:00:20 / 00:00:46
47000 of 50000, Atoms: 458(A), 230(P), ChiSq: 28270, Time: 00:00:21 / 00:00:48
48000 of 50000, Atoms: 468(A), 237(P), ChiSq: 28249, Time: 00:00:21 / 00:00:47
49000 of 50000, Atoms: 461(A), 221(P), ChiSq: 28278, Time: 00:00:22 / 00:00:48
50000 of 50000, Atoms: 453(A), 235(P), ChiSq: 28233, Time: 00:00:22 / 00:00:47
-- Sampling Phase --
1000 of 50000, Atoms: 463(A), 236(P), ChiSq: 28214, Time: 00:00:23 / 00:00:48
2000 of 50000, Atoms: 456(A), 242(P), ChiSq: 28215, Time: 00:00:24 / 00:00:49
3000 of 50000, Atoms: 468(A), 234(P), ChiSq: 28276, Time: 00:00:24 / 00:00:48
4000 of 50000, Atoms: 480(A), 236(P), ChiSq: 28195, Time: 00:00:25 / 00:00:49
5000 of 50000, Atoms: 454(A), 228(P), ChiSq: 28205, Time: 00:00:25 / 00:00:48
6000 of 50000, Atoms: 472(A), 228(P), ChiSq: 28183, Time: 00:00:26 / 00:00:49
7000 of 50000, Atoms: 487(A), 224(P), ChiSq: 28183, Time: 00:00:26 / 00:00:48
8000 of 50000, Atoms: 476(A), 236(P), ChiSq: 28291, Time: 00:00:27 / 00:00:49
9000 of 50000, Atoms: 484(A), 232(P), ChiSq: 28208, Time: 00:00:27 / 00:00:48
10000 of 50000, Atoms: 461(A), 226(P), ChiSq: 28230, Time: 00:00:28 / 00:00:49
11000 of 50000, Atoms: 465(A), 237(P), ChiSq: 28249, Time: 00:00:28 / 00:00:48
12000 of 50000, Atoms: 464(A), 233(P), ChiSq: 28255, Time: 00:00:29 / 00:00:49
13000 of 50000, Atoms: 472(A), 233(P), ChiSq: 28186, Time: 00:00:29 / 00:00:48
14000 of 50000, Atoms: 469(A), 226(P), ChiSq: 28225, Time: 00:00:30 / 00:00:48
15000 of 50000, Atoms: 478(A), 234(P), ChiSq: 28230, Time: 00:00:30 / 00:00:48
16000 of 50000, Atoms: 480(A), 225(P), ChiSq: 28200, Time: 00:00:31 / 00:00:48
17000 of 50000, Atoms: 472(A), 222(P), ChiSq: 28230, Time: 00:00:31 / 00:00:48
18000 of 50000, Atoms: 447(A), 222(P), ChiSq: 28327, Time: 00:00:32 / 00:00:48
19000 of 50000, Atoms: 474(A), 224(P), ChiSq: 28270, Time: 00:00:32 / 00:00:48
20000 of 50000, Atoms: 455(A), 229(P), ChiSq: 28211, Time: 00:00:33 / 00:00:48
21000 of 50000, Atoms: 480(A), 229(P), ChiSq: 28233, Time: 00:00:33 / 00:00:48
22000 of 50000, Atoms: 475(A), 227(P), ChiSq: 28259, Time: 00:00:34 / 00:00:48
23000 of 50000, Atoms: 482(A), 223(P), ChiSq: 28198, Time: 00:00:34 / 00:00:48
24000 of 50000, Atoms: 474(A), 233(P), ChiSq: 28219, Time: 00:00:35 / 00:00:48
25000 of 50000, Atoms: 468(A), 240(P), ChiSq: 28210, Time: 00:00:35 / 00:00:47
26000 of 50000, Atoms: 477(A), 243(P), ChiSq: 28233, Time: 00:00:36 / 00:00:48
27000 of 50000, Atoms: 462(A), 231(P), ChiSq: 28312, Time: 00:00:36 / 00:00:47
28000 of 50000, Atoms: 462(A), 231(P), ChiSq: 28193, Time: 00:00:37 / 00:00:48
29000 of 50000, Atoms: 470(A), 239(P), ChiSq: 28268, Time: 00:00:37 / 00:00:47
30000 of 50000, Atoms: 462(A), 234(P), ChiSq: 28221, Time: 00:00:38 / 00:00:48
31000 of 50000, Atoms: 474(A), 231(P), ChiSq: 28274, Time: 00:00:38 / 00:00:47
32000 of 50000, Atoms: 462(A), 232(P), ChiSq: 28251, Time: 00:00:39 / 00:00:48
33000 of 50000, Atoms: 479(A), 235(P), ChiSq: 28213, Time: 00:00:39 / 00:00:47
34000 of 50000, Atoms: 460(A), 232(P), ChiSq: 28231, Time: 00:00:40 / 00:00:48
35000 of 50000, Atoms: 470(A), 213(P), ChiSq: 28206, Time: 00:00:40 / 00:00:47
36000 of 50000, Atoms: 475(A), 221(P), ChiSq: 28164, Time: 00:00:41 / 00:00:48
37000 of 50000, Atoms: 475(A), 230(P), ChiSq: 28190, Time: 00:00:41 / 00:00:47
38000 of 50000, Atoms: 463(A), 233(P), ChiSq: 28294, Time: 00:00:42 / 00:00:48
39000 of 50000, Atoms: 469(A), 226(P), ChiSq: 28236, Time: 00:00:42 / 00:00:47
40000 of 50000, Atoms: 480(A), 234(P), ChiSq: 28264, Time: 00:00:43 / 00:00:48
41000 of 50000, Atoms: 479(A), 235(P), ChiSq: 28197, Time: 00:00:43 / 00:00:47
42000 of 50000, Atoms: 458(A), 232(P), ChiSq: 28234, Time: 00:00:44 / 00:00:48
43000 of 50000, Atoms: 484(A), 232(P), ChiSq: 28228, Time: 00:00:44 / 00:00:47
44000 of 50000, Atoms: 462(A), 242(P), ChiSq: 28222, Time: 00:00:45 / 00:00:48
45000 of 50000, Atoms: 481(A), 230(P), ChiSq: 28271, Time: 00:00:45 / 00:00:47
46000 of 50000, Atoms: 464(A), 226(P), ChiSq: 28130, Time: 00:00:46 / 00:00:48
47000 of 50000, Atoms: 471(A), 222(P), ChiSq: 28282, Time: 00:00:46 / 00:00:47
48000 of 50000, Atoms: 459(A), 223(P), ChiSq: 28241, Time: 00:00:47 / 00:00:48
49000 of 50000, Atoms: 473(A), 237(P), ChiSq: 28235, Time: 00:00:47 / 00:00:47
50000 of 50000, Atoms: 457(A), 242(P), ChiSq: 28244, Time: 00:00:48 / 00:00:48
[1] "93 row names matched between data and loadings"
[1] "Updated dimension of data: 93 9"
[1] "93 row names matched between data and loadings"
[1] "Updated dimension of data: 93 9"
[1] "93 row names matched between data and loadings"
[1] "Updated dimension of data: 93 9"
[ FAIL 0 | WARN 13 | SKIP 0 | PASS 24 ]
> 
> proc.time()
   user  system elapsed 
  56.53    0.65   57.17 

projectR.Rcheck/tests_x64/testthat.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
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(projectR)
> 
> test_check("projectR")

This is CoGAPS version 3.12.0 
Running Standard CoGAPS on p.RNAseq6l3c3t (108 genes and 54 samples) with parameters:

-- Standard Parameters --
nPatterns            5 
nIterations          50000 
seed                 5 
sparseOptimization   FALSE 

-- Sparsity Parameters --
alpha          0.01 
maxGibbsMass   100 

Data Model: Dense, Normal
Sampler Type: Sequential
Loading Data...Done! (00:00:00)
-- Equilibration Phase --
1000 of 50000, Atoms: 171(A), 149(P), ChiSq: 52775, Time: 00:00:00 / 00:00:00
2000 of 50000, Atoms: 217(A), 166(P), ChiSq: 39788, Time: 00:00:00 / 00:00:00
3000 of 50000, Atoms: 255(A), 208(P), ChiSq: 35573, Time: 00:00:00 / 00:00:00
4000 of 50000, Atoms: 284(A), 197(P), ChiSq: 33761, Time: 00:00:01 / 00:00:36
5000 of 50000, Atoms: 303(A), 208(P), ChiSq: 32559, Time: 00:00:01 / 00:00:27
6000 of 50000, Atoms: 299(A), 209(P), ChiSq: 32130, Time: 00:00:01 / 00:00:22
7000 of 50000, Atoms: 320(A), 214(P), ChiSq: 31675, Time: 00:00:02 / 00:00:38
8000 of 50000, Atoms: 325(A), 219(P), ChiSq: 31336, Time: 00:00:02 / 00:00:32
9000 of 50000, Atoms: 329(A), 235(P), ChiSq: 31429, Time: 00:00:02 / 00:00:28
10000 of 50000, Atoms: 329(A), 235(P), ChiSq: 30816, Time: 00:00:03 / 00:00:38
11000 of 50000, Atoms: 341(A), 229(P), ChiSq: 30863, Time: 00:00:03 / 00:00:34
12000 of 50000, Atoms: 351(A), 228(P), ChiSq: 30874, Time: 00:00:03 / 00:00:31
13000 of 50000, Atoms: 337(A), 234(P), ChiSq: 30740, Time: 00:00:04 / 00:00:38
14000 of 50000, Atoms: 344(A), 228(P), ChiSq: 30578, Time: 00:00:04 / 00:00:35
15000 of 50000, Atoms: 357(A), 251(P), ChiSq: 30533, Time: 00:00:04 / 00:00:32
16000 of 50000, Atoms: 367(A), 264(P), ChiSq: 30450, Time: 00:00:05 / 00:00:37
17000 of 50000, Atoms: 386(A), 249(P), ChiSq: 30364, Time: 00:00:05 / 00:00:35
18000 of 50000, Atoms: 395(A), 241(P), ChiSq: 30293, Time: 00:00:05 / 00:00:33
19000 of 50000, Atoms: 392(A), 241(P), ChiSq: 30146, Time: 00:00:06 / 00:00:37
20000 of 50000, Atoms: 405(A), 271(P), ChiSq: 30160, Time: 00:00:06 / 00:00:35
21000 of 50000, Atoms: 392(A), 238(P), ChiSq: 30162, Time: 00:00:06 / 00:00:33
22000 of 50000, Atoms: 389(A), 250(P), ChiSq: 30088, Time: 00:00:07 / 00:00:37
23000 of 50000, Atoms: 396(A), 253(P), ChiSq: 30054, Time: 00:00:07 / 00:00:35
24000 of 50000, Atoms: 411(A), 238(P), ChiSq: 29995, Time: 00:00:07 / 00:00:33
25000 of 50000, Atoms: 409(A), 264(P), ChiSq: 29985, Time: 00:00:08 / 00:00:36
26000 of 50000, Atoms: 401(A), 253(P), ChiSq: 29990, Time: 00:00:08 / 00:00:35
27000 of 50000, Atoms: 414(A), 255(P), ChiSq: 29928, Time: 00:00:08 / 00:00:33
28000 of 50000, Atoms: 389(A), 261(P), ChiSq: 30076, Time: 00:00:09 / 00:00:36
29000 of 50000, Atoms: 407(A), 253(P), ChiSq: 29908, Time: 00:00:09 / 00:00:35
30000 of 50000, Atoms: 418(A), 250(P), ChiSq: 29986, Time: 00:00:10 / 00:00:37
31000 of 50000, Atoms: 388(A), 251(P), ChiSq: 30000, Time: 00:00:10 / 00:00:36
32000 of 50000, Atoms: 396(A), 253(P), ChiSq: 30024, Time: 00:00:10 / 00:00:35
33000 of 50000, Atoms: 398(A), 259(P), ChiSq: 29989, Time: 00:00:11 / 00:00:37
34000 of 50000, Atoms: 413(A), 249(P), ChiSq: 30056, Time: 00:00:11 / 00:00:36
35000 of 50000, Atoms: 398(A), 255(P), ChiSq: 29950, Time: 00:00:12 / 00:00:38
36000 of 50000, Atoms: 398(A), 262(P), ChiSq: 30030, Time: 00:00:12 / 00:00:36
37000 of 50000, Atoms: 391(A), 266(P), ChiSq: 29957, Time: 00:00:12 / 00:00:35
38000 of 50000, Atoms: 411(A), 263(P), ChiSq: 30018, Time: 00:00:13 / 00:00:37
39000 of 50000, Atoms: 415(A), 248(P), ChiSq: 29986, Time: 00:00:13 / 00:00:36
40000 of 50000, Atoms: 402(A), 252(P), ChiSq: 29997, Time: 00:00:13 / 00:00:35
41000 of 50000, Atoms: 404(A), 251(P), ChiSq: 29947, Time: 00:00:14 / 00:00:37
42000 of 50000, Atoms: 409(A), 241(P), ChiSq: 29928, Time: 00:00:14 / 00:00:36
43000 of 50000, Atoms: 404(A), 263(P), ChiSq: 29979, Time: 00:00:14 / 00:00:35
44000 of 50000, Atoms: 410(A), 257(P), ChiSq: 29991, Time: 00:00:15 / 00:00:36
45000 of 50000, Atoms: 402(A), 255(P), ChiSq: 29944, Time: 00:00:15 / 00:00:36
46000 of 50000, Atoms: 407(A), 258(P), ChiSq: 29988, Time: 00:00:15 / 00:00:35
47000 of 50000, Atoms: 409(A), 243(P), ChiSq: 30039, Time: 00:00:16 / 00:00:36
48000 of 50000, Atoms: 407(A), 250(P), ChiSq: 29953, Time: 00:00:16 / 00:00:35
49000 of 50000, Atoms: 413(A), 272(P), ChiSq: 29952, Time: 00:00:16 / 00:00:35
50000 of 50000, Atoms: 398(A), 249(P), ChiSq: 30047, Time: 00:00:17 / 00:00:36
-- Sampling Phase --
1000 of 50000, Atoms: 417(A), 241(P), ChiSq: 29959, Time: 00:00:17 / 00:00:35
2000 of 50000, Atoms: 412(A), 256(P), ChiSq: 29914, Time: 00:00:17 / 00:00:34
3000 of 50000, Atoms: 399(A), 268(P), ChiSq: 29959, Time: 00:00:18 / 00:00:36
4000 of 50000, Atoms: 407(A), 272(P), ChiSq: 30012, Time: 00:00:18 / 00:00:35
5000 of 50000, Atoms: 405(A), 245(P), ChiSq: 29972, Time: 00:00:19 / 00:00:36
6000 of 50000, Atoms: 413(A), 263(P), ChiSq: 29976, Time: 00:00:19 / 00:00:35
7000 of 50000, Atoms: 405(A), 257(P), ChiSq: 29903, Time: 00:00:19 / 00:00:35
8000 of 50000, Atoms: 403(A), 255(P), ChiSq: 29848, Time: 00:00:20 / 00:00:36
9000 of 50000, Atoms: 411(A), 253(P), ChiSq: 29877, Time: 00:00:20 / 00:00:35
10000 of 50000, Atoms: 392(A), 255(P), ChiSq: 29970, Time: 00:00:20 / 00:00:35
11000 of 50000, Atoms: 405(A), 246(P), ChiSq: 29954, Time: 00:00:21 / 00:00:36
12000 of 50000, Atoms: 410(A), 247(P), ChiSq: 30024, Time: 00:00:21 / 00:00:35
13000 of 50000, Atoms: 401(A), 263(P), ChiSq: 30006, Time: 00:00:21 / 00:00:34
14000 of 50000, Atoms: 400(A), 258(P), ChiSq: 30038, Time: 00:00:22 / 00:00:35
15000 of 50000, Atoms: 399(A), 254(P), ChiSq: 29883, Time: 00:00:22 / 00:00:35
16000 of 50000, Atoms: 423(A), 256(P), ChiSq: 30000, Time: 00:00:22 / 00:00:34
17000 of 50000, Atoms: 411(A), 250(P), ChiSq: 30011, Time: 00:00:23 / 00:00:35
18000 of 50000, Atoms: 403(A), 262(P), ChiSq: 30018, Time: 00:00:23 / 00:00:35
19000 of 50000, Atoms: 415(A), 262(P), ChiSq: 29956, Time: 00:00:24 / 00:00:36
20000 of 50000, Atoms: 410(A), 247(P), ChiSq: 29980, Time: 00:00:24 / 00:00:35
21000 of 50000, Atoms: 407(A), 249(P), ChiSq: 29972, Time: 00:00:25 / 00:00:36
22000 of 50000, Atoms: 401(A), 256(P), ChiSq: 30011, Time: 00:00:25 / 00:00:35
23000 of 50000, Atoms: 407(A), 259(P), ChiSq: 29971, Time: 00:00:25 / 00:00:35
24000 of 50000, Atoms: 387(A), 238(P), ChiSq: 30058, Time: 00:00:26 / 00:00:36
25000 of 50000, Atoms: 419(A), 257(P), ChiSq: 29993, Time: 00:00:26 / 00:00:35
26000 of 50000, Atoms: 408(A), 254(P), ChiSq: 29973, Time: 00:00:26 / 00:00:35
27000 of 50000, Atoms: 396(A), 252(P), ChiSq: 29978, Time: 00:00:27 / 00:00:35
28000 of 50000, Atoms: 414(A), 264(P), ChiSq: 29994, Time: 00:00:27 / 00:00:35
29000 of 50000, Atoms: 402(A), 255(P), ChiSq: 29924, Time: 00:00:28 / 00:00:36
30000 of 50000, Atoms: 409(A), 249(P), ChiSq: 29992, Time: 00:00:28 / 00:00:35
31000 of 50000, Atoms: 396(A), 261(P), ChiSq: 29970, Time: 00:00:29 / 00:00:36
32000 of 50000, Atoms: 410(A), 254(P), ChiSq: 30027, Time: 00:00:29 / 00:00:36
33000 of 50000, Atoms: 406(A), 265(P), ChiSq: 29979, Time: 00:00:29 / 00:00:35
34000 of 50000, Atoms: 413(A), 252(P), ChiSq: 29990, Time: 00:00:30 / 00:00:36
35000 of 50000, Atoms: 422(A), 252(P), ChiSq: 29901, Time: 00:00:30 / 00:00:35
36000 of 50000, Atoms: 394(A), 262(P), ChiSq: 30009, Time: 00:00:30 / 00:00:35
37000 of 50000, Atoms: 379(A), 258(P), ChiSq: 30035, Time: 00:00:31 / 00:00:36
38000 of 50000, Atoms: 409(A), 257(P), ChiSq: 30005, Time: 00:00:31 / 00:00:35
39000 of 50000, Atoms: 394(A), 244(P), ChiSq: 30067, Time: 00:00:31 / 00:00:35
40000 of 50000, Atoms: 400(A), 254(P), ChiSq: 29995, Time: 00:00:32 / 00:00:35
41000 of 50000, Atoms: 397(A), 260(P), ChiSq: 29940, Time: 00:00:32 / 00:00:35
42000 of 50000, Atoms: 422(A), 254(P), ChiSq: 29944, Time: 00:00:32 / 00:00:35
43000 of 50000, Atoms: 392(A), 262(P), ChiSq: 30044, Time: 00:00:33 / 00:00:35
44000 of 50000, Atoms: 411(A), 260(P), ChiSq: 29989, Time: 00:00:33 / 00:00:35
45000 of 50000, Atoms: 411(A), 261(P), ChiSq: 30001, Time: 00:00:33 / 00:00:34
46000 of 50000, Atoms: 412(A), 242(P), ChiSq: 29967, Time: 00:00:34 / 00:00:35
47000 of 50000, Atoms: 394(A), 253(P), ChiSq: 29979, Time: 00:00:34 / 00:00:35
48000 of 50000, Atoms: 414(A), 266(P), ChiSq: 29987, Time: 00:00:34 / 00:00:34
49000 of 50000, Atoms: 407(A), 238(P), ChiSq: 29965, Time: 00:00:35 / 00:00:35
50000 of 50000, Atoms: 399(A), 247(P), ChiSq: 29968, Time: 00:00:35 / 00:00:35
[1] "93 row names matched between data and loadings"
[1] "Updated dimension of data: 93 9"
[1] "93 row names matched between data and loadings"
[1] "Updated dimension of data: 93 9"
[1] "93 row names matched between data and loadings"
[1] "Updated dimension of data: 93 9"
[ FAIL 0 | WARN 13 | SKIP 0 | PASS 24 ]
> 
> proc.time()
   user  system elapsed 
  43.89    0.42   44.28 

Example timings

projectR.Rcheck/examples_i386/projectR-Ex.timings

nameusersystemelapsed
alluvialMat0.460.050.50
aucMat0.090.020.11
cluster2pattern-methods0.140.060.21
clusterPlotR-methods000
correlateR0.110.000.10
geneMatchR0.030.000.04
intersectoR-methods0.020.000.01
projectR-methods51.90 0.0251.92
rotatoR0.020.000.02

projectR.Rcheck/examples_x64/projectR-Ex.timings

nameusersystemelapsed
alluvialMat0.630.020.64
aucMat0.080.000.08
cluster2pattern-methods0.220.020.24
clusterPlotR-methods000
correlateR0.130.000.12
geneMatchR0.030.000.03
intersectoR-methods0.010.000.02
projectR-methods36.10 0.0436.17
rotatoR0.010.000.02