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This page was generated on 2022-01-21 13:06:53 -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 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 1467/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
projectR 1.10.0  (landing page)
Genevieve Stein-O'Brien
Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/projectR
git_branch: RELEASE_3_14
git_last_commit: 36c5ad2
git_last_commit_date: 2021-10-26 12:50:23 -0500 (Tue, 26 Oct 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: projectR
Version: 1.10.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:projectR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings projectR_1.10.0.tar.gz
StartedAt: 2022-01-21 00:53:09 -0500 (Fri, 21 Jan 2022)
EndedAt: 2022-01-21 01:00:01 -0500 (Fri, 21 Jan 2022)
EllapsedTime: 411.9 seconds
RetCode: 0
Status:   OK  
CheckDir: projectR.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:projectR.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings projectR_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/projectR.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 'projectR/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'projectR' version '1.10.0'
* 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 48.92   0.02   49.05
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                  user system elapsed
projectR-methods 36.11      0   36.19
* 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-3.14-bioc/meat/projectR.Rcheck/00check.log'
for details.



Installation output

projectR.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/projectR_1.10.0.tar.gz && rm -rf projectR.buildbin-libdir && mkdir projectR.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=projectR.buildbin-libdir projectR_1.10.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL projectR_1.10.0.zip && rm projectR_1.10.0.tar.gz projectR_1.10.0.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
 18  868k   18  162k    0     0   724k      0  0:00:01 --:--:--  0:00:01  723k
100  868k  100  868k    0     0  1810k      0 --:--:-- --:--:-- --:--:-- 1809k

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_1.10.0.zip
* DONE (projectR)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'projectR' successfully unpacked and MD5 sums checked

Tests output

projectR.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(projectR)
> 
> test_check("projectR")

This is CoGAPS version 3.14.0 
Running Standard CoGAPS on p.RNAseq6l3c3t (108 genes and 54 samples) with parameters:

-- Standard Parameters --
nPatterns            5 
nIterations          50000 
seed                 90 
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: 187(A), 138(P), ChiSq: 52723, Time: 00:00:00 / 00:00:00
2000 of 50000, Atoms: 225(A), 180(P), ChiSq: 43816, Time: 00:00:00 / 00:00:00
3000 of 50000, Atoms: 240(A), 193(P), ChiSq: 39357, Time: 00:00:00 / 00:00:00
4000 of 50000, Atoms: 298(A), 207(P), ChiSq: 33864, Time: 00:00:01 / 00:00:36
5000 of 50000, Atoms: 287(A), 212(P), ChiSq: 33015, Time: 00:00:01 / 00:00:27
6000 of 50000, Atoms: 313(A), 209(P), ChiSq: 31981, Time: 00:00:02 / 00:00:45
7000 of 50000, Atoms: 314(A), 218(P), ChiSq: 31630, Time: 00:00:02 / 00:00:38
8000 of 50000, Atoms: 311(A), 210(P), ChiSq: 31812, Time: 00:00:02 / 00:00:32
9000 of 50000, Atoms: 329(A), 232(P), ChiSq: 31273, Time: 00:00:03 / 00:00:43
10000 of 50000, Atoms: 324(A), 224(P), ChiSq: 30885, Time: 00:00:03 / 00:00:38
11000 of 50000, Atoms: 350(A), 231(P), ChiSq: 30756, Time: 00:00:04 / 00:00:46
12000 of 50000, Atoms: 340(A), 231(P), ChiSq: 30782, Time: 00:00:04 / 00:00:41
13000 of 50000, Atoms: 360(A), 237(P), ChiSq: 30664, Time: 00:00:05 / 00:00:47
14000 of 50000, Atoms: 365(A), 244(P), ChiSq: 30564, Time: 00:00:05 / 00:00:43
15000 of 50000, Atoms: 351(A), 239(P), ChiSq: 30401, Time: 00:00:06 / 00:00:48
16000 of 50000, Atoms: 361(A), 252(P), ChiSq: 30479, Time: 00:00:06 / 00:00:45
17000 of 50000, Atoms: 374(A), 240(P), ChiSq: 30331, Time: 00:00:07 / 00:00:49
18000 of 50000, Atoms: 369(A), 241(P), ChiSq: 30391, Time: 00:00:07 / 00:00:46
19000 of 50000, Atoms: 366(A), 245(P), ChiSq: 30301, Time: 00:00:08 / 00:00:50
20000 of 50000, Atoms: 386(A), 253(P), ChiSq: 30204, Time: 00:00:08 / 00:00:47
21000 of 50000, Atoms: 374(A), 258(P), ChiSq: 30075, Time: 00:00:09 / 00:00:50
22000 of 50000, Atoms: 385(A), 250(P), ChiSq: 30158, Time: 00:00:09 / 00:00:47
23000 of 50000, Atoms: 382(A), 265(P), ChiSq: 30066, Time: 00:00:10 / 00:00:50
24000 of 50000, Atoms: 404(A), 264(P), ChiSq: 30051, Time: 00:00:10 / 00:00:48
25000 of 50000, Atoms: 398(A), 249(P), ChiSq: 30014, Time: 00:00:11 / 00:00:50
26000 of 50000, Atoms: 419(A), 252(P), ChiSq: 29985, Time: 00:00:11 / 00:00:48
27000 of 50000, Atoms: 415(A), 253(P), ChiSq: 30029, Time: 00:00:12 / 00:00:50
28000 of 50000, Atoms: 398(A), 257(P), ChiSq: 29942, Time: 00:00:12 / 00:00:48
29000 of 50000, Atoms: 402(A), 271(P), ChiSq: 30030, Time: 00:00:13 / 00:00:50
30000 of 50000, Atoms: 417(A), 271(P), ChiSq: 30010, Time: 00:00:14 / 00:00:52
31000 of 50000, Atoms: 403(A), 260(P), ChiSq: 30037, Time: 00:00:14 / 00:00:50
32000 of 50000, Atoms: 379(A), 253(P), ChiSq: 29969, Time: 00:00:15 / 00:00:52
33000 of 50000, Atoms: 389(A), 272(P), ChiSq: 29950, Time: 00:00:15 / 00:00:50
34000 of 50000, Atoms: 412(A), 257(P), ChiSq: 29974, Time: 00:00:16 / 00:00:52
35000 of 50000, Atoms: 407(A), 245(P), ChiSq: 29956, Time: 00:00:17 / 00:00:53
36000 of 50000, Atoms: 410(A), 251(P), ChiSq: 30019, Time: 00:00:18 / 00:00:55
37000 of 50000, Atoms: 417(A), 253(P), ChiSq: 29959, Time: 00:00:18 / 00:00:53
38000 of 50000, Atoms: 403(A), 258(P), ChiSq: 30028, Time: 00:00:19 / 00:00:55
39000 of 50000, Atoms: 406(A), 257(P), ChiSq: 29989, Time: 00:00:19 / 00:00:53
40000 of 50000, Atoms: 420(A), 241(P), ChiSq: 29951, Time: 00:00:20 / 00:00:54
41000 of 50000, Atoms: 414(A), 255(P), ChiSq: 30001, Time: 00:00:20 / 00:00:53
42000 of 50000, Atoms: 408(A), 270(P), ChiSq: 30021, Time: 00:00:21 / 00:00:54
43000 of 50000, Atoms: 397(A), 262(P), ChiSq: 30077, Time: 00:00:21 / 00:00:53
44000 of 50000, Atoms: 410(A), 259(P), ChiSq: 29932, Time: 00:00:22 / 00:00:54
45000 of 50000, Atoms: 405(A), 245(P), ChiSq: 29962, Time: 00:00:22 / 00:00:52
46000 of 50000, Atoms: 416(A), 250(P), ChiSq: 29981, Time: 00:00:23 / 00:00:53
47000 of 50000, Atoms: 391(A), 273(P), ChiSq: 29979, Time: 00:00:23 / 00:00:52
48000 of 50000, Atoms: 393(A), 257(P), ChiSq: 30000, Time: 00:00:24 / 00:00:53
49000 of 50000, Atoms: 407(A), 256(P), ChiSq: 29946, Time: 00:00:24 / 00:00:52
50000 of 50000, Atoms: 402(A), 254(P), ChiSq: 29983, Time: 00:00:25 / 00:00:53
-- Sampling Phase --
1000 of 50000, Atoms: 405(A), 249(P), ChiSq: 29980, Time: 00:00:25 / 00:00:52
2000 of 50000, Atoms: 403(A), 237(P), ChiSq: 30027, Time: 00:00:26 / 00:00:53
3000 of 50000, Atoms: 422(A), 264(P), ChiSq: 30057, Time: 00:00:26 / 00:00:52
4000 of 50000, Atoms: 389(A), 252(P), ChiSq: 29953, Time: 00:00:27 / 00:00:53
5000 of 50000, Atoms: 406(A), 263(P), ChiSq: 30019, Time: 00:00:27 / 00:00:52
6000 of 50000, Atoms: 407(A), 268(P), ChiSq: 29964, Time: 00:00:28 / 00:00:52
7000 of 50000, Atoms: 405(A), 258(P), ChiSq: 29993, Time: 00:00:28 / 00:00:51
8000 of 50000, Atoms: 408(A), 257(P), ChiSq: 29998, Time: 00:00:29 / 00:00:52
9000 of 50000, Atoms: 403(A), 250(P), ChiSq: 29948, Time: 00:00:29 / 00:00:51
10000 of 50000, Atoms: 389(A), 252(P), ChiSq: 29936, Time: 00:00:30 / 00:00:52
11000 of 50000, Atoms: 404(A), 241(P), ChiSq: 30000, Time: 00:00:30 / 00:00:51
12000 of 50000, Atoms: 405(A), 257(P), ChiSq: 30022, Time: 00:00:31 / 00:00:52
13000 of 50000, Atoms: 427(A), 241(P), ChiSq: 30000, Time: 00:00:31 / 00:00:51
14000 of 50000, Atoms: 403(A), 256(P), ChiSq: 29954, Time: 00:00:32 / 00:00:52
15000 of 50000, Atoms: 402(A), 255(P), ChiSq: 29970, Time: 00:00:32 / 00:00:51
16000 of 50000, Atoms: 402(A), 261(P), ChiSq: 29977, Time: 00:00:33 / 00:00:52
17000 of 50000, Atoms: 436(A), 236(P), ChiSq: 29950, Time: 00:00:33 / 00:00:51
18000 of 50000, Atoms: 412(A), 248(P), ChiSq: 29961, Time: 00:00:34 / 00:00:51
19000 of 50000, Atoms: 403(A), 269(P), ChiSq: 29892, Time: 00:00:34 / 00:00:51
20000 of 50000, Atoms: 394(A), 265(P), ChiSq: 29980, Time: 00:00:35 / 00:00:51
21000 of 50000, Atoms: 413(A), 277(P), ChiSq: 29976, Time: 00:00:35 / 00:00:50
22000 of 50000, Atoms: 418(A), 253(P), ChiSq: 29917, Time: 00:00:36 / 00:00:51
23000 of 50000, Atoms: 388(A), 256(P), ChiSq: 29938, Time: 00:00:36 / 00:00:50
24000 of 50000, Atoms: 406(A), 260(P), ChiSq: 30025, Time: 00:00:37 / 00:00:51
25000 of 50000, Atoms: 415(A), 257(P), ChiSq: 29910, Time: 00:00:37 / 00:00:50
26000 of 50000, Atoms: 402(A), 249(P), ChiSq: 30077, Time: 00:00:38 / 00:00:51
27000 of 50000, Atoms: 410(A), 260(P), ChiSq: 29996, Time: 00:00:38 / 00:00:50
28000 of 50000, Atoms: 400(A), 261(P), ChiSq: 29996, Time: 00:00:39 / 00:00:51
29000 of 50000, Atoms: 404(A), 263(P), ChiSq: 29995, Time: 00:00:39 / 00:00:50
30000 of 50000, Atoms: 394(A), 267(P), ChiSq: 29951, Time: 00:00:40 / 00:00:51
31000 of 50000, Atoms: 399(A), 272(P), ChiSq: 29999, Time: 00:00:40 / 00:00:50
32000 of 50000, Atoms: 404(A), 258(P), ChiSq: 29980, Time: 00:00:41 / 00:00:50
33000 of 50000, Atoms: 412(A), 264(P), ChiSq: 29956, Time: 00:00:41 / 00:00:50
34000 of 50000, Atoms: 404(A), 260(P), ChiSq: 29980, Time: 00:00:42 / 00:00:50
35000 of 50000, Atoms: 408(A), 251(P), ChiSq: 29980, Time: 00:00:42 / 00:00:50
36000 of 50000, Atoms: 387(A), 259(P), ChiSq: 30020, Time: 00:00:43 / 00:00:50
37000 of 50000, Atoms: 392(A), 253(P), ChiSq: 30009, Time: 00:00:43 / 00:00:50
38000 of 50000, Atoms: 400(A), 264(P), ChiSq: 29974, Time: 00:00:44 / 00:00:50
39000 of 50000, Atoms: 392(A), 257(P), ChiSq: 29969, Time: 00:00:44 / 00:00:49
40000 of 50000, Atoms: 392(A), 264(P), ChiSq: 29971, Time: 00:00:45 / 00:00:50
41000 of 50000, Atoms: 415(A), 247(P), ChiSq: 30042, Time: 00:00:45 / 00:00:49
42000 of 50000, Atoms: 419(A), 255(P), ChiSq: 30059, Time: 00:00:46 / 00:00:50
43000 of 50000, Atoms: 403(A), 255(P), ChiSq: 30008, Time: 00:00:46 / 00:00:49
44000 of 50000, Atoms: 400(A), 265(P), ChiSq: 29961, Time: 00:00:47 / 00:00:50
45000 of 50000, Atoms: 385(A), 255(P), ChiSq: 29976, Time: 00:00:47 / 00:00:49
46000 of 50000, Atoms: 413(A), 251(P), ChiSq: 29922, Time: 00:00:48 / 00:00:50
47000 of 50000, Atoms: 405(A), 263(P), ChiSq: 29993, Time: 00:00:48 / 00:00:49
48000 of 50000, Atoms: 402(A), 255(P), ChiSq: 30002, Time: 00:00:49 / 00:00:50
49000 of 50000, Atoms: 398(A), 247(P), ChiSq: 30044, Time: 00:00:50 / 00:00:50
50000 of 50000, Atoms: 401(A), 263(P), ChiSq: 29980, Time: 00:00:50 / 00:00:50
[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 
  58.10    0.68   58.78 

projectR.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(projectR)
> 
> test_check("projectR")

This is CoGAPS version 3.14.0 
Running Standard CoGAPS on p.RNAseq6l3c3t (108 genes and 54 samples) with parameters:

-- Standard Parameters --
nPatterns            5 
nIterations          50000 
seed                 809 
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: 194(A), 145(P), ChiSq: 50990, Time: 00:00:00 / 00:00:00
2000 of 50000, Atoms: 228(A), 184(P), ChiSq: 38837, Time: 00:00:00 / 00:00:00
3000 of 50000, Atoms: 247(A), 200(P), ChiSq: 35117, Time: 00:00:00 / 00:00:00
4000 of 50000, Atoms: 265(A), 220(P), ChiSq: 33571, Time: 00:00:00 / 00:00:00
5000 of 50000, Atoms: 289(A), 210(P), ChiSq: 32849, Time: 00:00:01 / 00:00:27
6000 of 50000, Atoms: 296(A), 228(P), ChiSq: 32258, Time: 00:00:01 / 00:00:22
7000 of 50000, Atoms: 304(A), 221(P), ChiSq: 31913, Time: 00:00:01 / 00:00:19
8000 of 50000, Atoms: 318(A), 224(P), ChiSq: 31407, Time: 00:00:02 / 00:00:32
9000 of 50000, Atoms: 313(A), 230(P), ChiSq: 31302, Time: 00:00:02 / 00:00:28
10000 of 50000, Atoms: 340(A), 242(P), ChiSq: 31209, Time: 00:00:02 / 00:00:25
11000 of 50000, Atoms: 329(A), 247(P), ChiSq: 30984, Time: 00:00:03 / 00:00:34
12000 of 50000, Atoms: 356(A), 240(P), ChiSq: 30687, Time: 00:00:03 / 00:00:31
13000 of 50000, Atoms: 340(A), 235(P), ChiSq: 30743, Time: 00:00:03 / 00:00:28
14000 of 50000, Atoms: 355(A), 232(P), ChiSq: 30534, Time: 00:00:04 / 00:00:35
15000 of 50000, Atoms: 370(A), 240(P), ChiSq: 30445, Time: 00:00:04 / 00:00:32
16000 of 50000, Atoms: 380(A), 233(P), ChiSq: 30388, Time: 00:00:05 / 00:00:37
17000 of 50000, Atoms: 362(A), 237(P), ChiSq: 30321, Time: 00:00:05 / 00:00:35
18000 of 50000, Atoms: 378(A), 235(P), ChiSq: 30332, Time: 00:00:05 / 00:00:33
19000 of 50000, Atoms: 390(A), 264(P), ChiSq: 30290, Time: 00:00:06 / 00:00:37
20000 of 50000, Atoms: 393(A), 258(P), ChiSq: 30134, Time: 00:00:06 / 00:00:35
21000 of 50000, Atoms: 394(A), 260(P), ChiSq: 30080, Time: 00:00:06 / 00:00:33
22000 of 50000, Atoms: 388(A), 248(P), ChiSq: 30077, Time: 00:00:07 / 00:00:37
23000 of 50000, Atoms: 403(A), 254(P), ChiSq: 30093, Time: 00:00:07 / 00:00:35
24000 of 50000, Atoms: 405(A), 259(P), ChiSq: 30014, Time: 00:00:08 / 00:00:38
25000 of 50000, Atoms: 399(A), 259(P), ChiSq: 29954, Time: 00:00:08 / 00:00:36
26000 of 50000, Atoms: 407(A), 264(P), ChiSq: 29949, Time: 00:00:08 / 00:00:35
27000 of 50000, Atoms: 399(A), 253(P), ChiSq: 29971, Time: 00:00:09 / 00:00:38
28000 of 50000, Atoms: 401(A), 252(P), ChiSq: 29922, Time: 00:00:09 / 00:00:36
29000 of 50000, Atoms: 414(A), 248(P), ChiSq: 30031, Time: 00:00:10 / 00:00:39
30000 of 50000, Atoms: 391(A), 256(P), ChiSq: 29957, Time: 00:00:10 / 00:00:37
31000 of 50000, Atoms: 411(A), 253(P), ChiSq: 29969, Time: 00:00:10 / 00:00:36
32000 of 50000, Atoms: 402(A), 250(P), ChiSq: 29990, Time: 00:00:11 / 00:00:38
33000 of 50000, Atoms: 405(A), 252(P), ChiSq: 29963, Time: 00:00:11 / 00:00:37
34000 of 50000, Atoms: 401(A), 263(P), ChiSq: 30028, Time: 00:00:11 / 00:00:36
35000 of 50000, Atoms: 413(A), 250(P), ChiSq: 29947, Time: 00:00:12 / 00:00:38
36000 of 50000, Atoms: 395(A), 242(P), ChiSq: 29983, Time: 00:00:12 / 00:00:36
37000 of 50000, Atoms: 416(A), 263(P), ChiSq: 29938, Time: 00:00:13 / 00:00:38
38000 of 50000, Atoms: 403(A), 258(P), ChiSq: 29991, Time: 00:00:13 / 00:00:37
39000 of 50000, Atoms: 426(A), 262(P), ChiSq: 30063, Time: 00:00:13 / 00:00:36
40000 of 50000, Atoms: 409(A), 255(P), ChiSq: 29936, Time: 00:00:14 / 00:00:38
41000 of 50000, Atoms: 403(A), 258(P), ChiSq: 29988, Time: 00:00:14 / 00:00:37
42000 of 50000, Atoms: 418(A), 254(P), ChiSq: 30017, Time: 00:00:14 / 00:00:36
43000 of 50000, Atoms: 412(A), 249(P), ChiSq: 29989, Time: 00:00:15 / 00:00:37
44000 of 50000, Atoms: 398(A), 249(P), ChiSq: 30004, Time: 00:00:15 / 00:00:36
45000 of 50000, Atoms: 408(A), 240(P), ChiSq: 29986, Time: 00:00:16 / 00:00:38
46000 of 50000, Atoms: 425(A), 253(P), ChiSq: 29993, Time: 00:00:16 / 00:00:37
47000 of 50000, Atoms: 399(A), 253(P), ChiSq: 29966, Time: 00:00:16 / 00:00:36
48000 of 50000, Atoms: 417(A), 260(P), ChiSq: 29943, Time: 00:00:17 / 00:00:38
49000 of 50000, Atoms: 384(A), 260(P), ChiSq: 29934, Time: 00:00:17 / 00:00:37
50000 of 50000, Atoms: 436(A), 247(P), ChiSq: 29954, Time: 00:00:17 / 00:00:36
-- Sampling Phase --
1000 of 50000, Atoms: 419(A), 270(P), ChiSq: 29965, Time: 00:00:18 / 00:00:37
2000 of 50000, Atoms: 393(A), 261(P), ChiSq: 29973, Time: 00:00:18 / 00:00:36
3000 of 50000, Atoms: 397(A), 251(P), ChiSq: 30026, Time: 00:00:18 / 00:00:36
4000 of 50000, Atoms: 413(A), 239(P), ChiSq: 30008, Time: 00:00:19 / 00:00:37
5000 of 50000, Atoms: 383(A), 259(P), ChiSq: 29979, Time: 00:00:19 / 00:00:36
6000 of 50000, Atoms: 396(A), 254(P), ChiSq: 29922, Time: 00:00:19 / 00:00:35
7000 of 50000, Atoms: 408(A), 248(P), ChiSq: 29992, Time: 00:00:20 / 00:00:37
8000 of 50000, Atoms: 406(A), 265(P), ChiSq: 30004, Time: 00:00:20 / 00:00:36
9000 of 50000, Atoms: 392(A), 269(P), ChiSq: 29987, Time: 00:00:21 / 00:00:37
10000 of 50000, Atoms: 394(A), 257(P), ChiSq: 30041, Time: 00:00:21 / 00:00:36
11000 of 50000, Atoms: 394(A), 265(P), ChiSq: 29917, Time: 00:00:21 / 00:00:36
12000 of 50000, Atoms: 398(A), 264(P), ChiSq: 29963, Time: 00:00:22 / 00:00:37
13000 of 50000, Atoms: 404(A), 243(P), ChiSq: 30029, Time: 00:00:22 / 00:00:36
14000 of 50000, Atoms: 401(A), 259(P), ChiSq: 29949, Time: 00:00:22 / 00:00:35
15000 of 50000, Atoms: 398(A), 248(P), ChiSq: 29959, Time: 00:00:23 / 00:00:36
16000 of 50000, Atoms: 397(A), 257(P), ChiSq: 29971, Time: 00:00:23 / 00:00:36
17000 of 50000, Atoms: 392(A), 259(P), ChiSq: 29938, Time: 00:00:23 / 00:00:35
18000 of 50000, Atoms: 421(A), 250(P), ChiSq: 29912, Time: 00:00:24 / 00:00:36
19000 of 50000, Atoms: 417(A), 243(P), ChiSq: 29925, Time: 00:00:24 / 00:00:36
20000 of 50000, Atoms: 395(A), 261(P), ChiSq: 29973, Time: 00:00:24 / 00:00:35
21000 of 50000, Atoms: 423(A), 243(P), ChiSq: 29966, Time: 00:00:25 / 00:00:36
22000 of 50000, Atoms: 404(A), 248(P), ChiSq: 30073, Time: 00:00:25 / 00:00:35
23000 of 50000, Atoms: 405(A), 244(P), ChiSq: 29936, Time: 00:00:26 / 00:00:36
24000 of 50000, Atoms: 390(A), 263(P), ChiSq: 30044, Time: 00:00:26 / 00:00:36
25000 of 50000, Atoms: 392(A), 260(P), ChiSq: 30013, Time: 00:00:26 / 00:00:35
26000 of 50000, Atoms: 395(A), 275(P), ChiSq: 29996, Time: 00:00:27 / 00:00:36
27000 of 50000, Atoms: 396(A), 246(P), ChiSq: 30049, Time: 00:00:27 / 00:00:35
28000 of 50000, Atoms: 411(A), 259(P), ChiSq: 29948, Time: 00:00:27 / 00:00:35
29000 of 50000, Atoms: 420(A), 264(P), ChiSq: 29961, Time: 00:00:28 / 00:00:36
30000 of 50000, Atoms: 397(A), 259(P), ChiSq: 29997, Time: 00:00:28 / 00:00:35
31000 of 50000, Atoms: 414(A), 258(P), ChiSq: 30023, Time: 00:00:28 / 00:00:35
32000 of 50000, Atoms: 395(A), 270(P), ChiSq: 29995, Time: 00:00:29 / 00:00:36
33000 of 50000, Atoms: 397(A), 263(P), ChiSq: 30011, Time: 00:00:29 / 00:00:35
34000 of 50000, Atoms: 412(A), 262(P), ChiSq: 29938, Time: 00:00:30 / 00:00:36
35000 of 50000, Atoms: 401(A), 247(P), ChiSq: 29963, Time: 00:00:30 / 00:00:35
36000 of 50000, Atoms: 386(A), 248(P), ChiSq: 29963, Time: 00:00:30 / 00:00:35
37000 of 50000, Atoms: 407(A), 275(P), ChiSq: 29916, Time: 00:00:31 / 00:00:36
38000 of 50000, Atoms: 394(A), 250(P), ChiSq: 30030, Time: 00:00:31 / 00:00:35
39000 of 50000, Atoms: 389(A), 246(P), ChiSq: 30034, Time: 00:00:31 / 00:00:35
40000 of 50000, Atoms: 394(A), 263(P), ChiSq: 29990, Time: 00:00:32 / 00:00:35
41000 of 50000, Atoms: 402(A), 249(P), ChiSq: 29993, Time: 00:00:32 / 00:00:35
42000 of 50000, Atoms: 401(A), 264(P), ChiSq: 29942, Time: 00:00:32 / 00:00:35
43000 of 50000, Atoms: 391(A), 255(P), ChiSq: 30044, Time: 00:00:33 / 00:00:35
44000 of 50000, Atoms: 414(A), 263(P), ChiSq: 29970, Time: 00:00:33 / 00:00:35
45000 of 50000, Atoms: 402(A), 249(P), ChiSq: 30027, Time: 00:00:33 / 00:00:34
46000 of 50000, Atoms: 400(A), 255(P), ChiSq: 29988, Time: 00:00:34 / 00:00:35
47000 of 50000, Atoms: 401(A), 247(P), ChiSq: 29983, Time: 00:00:34 / 00:00:35
48000 of 50000, Atoms: 407(A), 256(P), ChiSq: 29984, Time: 00:00:34 / 00:00:34
49000 of 50000, Atoms: 398(A), 248(P), ChiSq: 29974, Time: 00:00:35 / 00:00:35
50000 of 50000, Atoms: 413(A), 268(P), ChiSq: 30012, 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 
  43.93    0.34   44.26 

Example timings

projectR.Rcheck/examples_i386/projectR-Ex.timings

nameusersystemelapsed
alluvialMat0.430.030.47
aucMat0.100.000.09
cluster2pattern-methods0.140.050.19
clusterPlotR-methods000
correlateR0.110.000.11
geneMatchR0.010.010.03
intersectoR-methods0.020.000.02
projectR-methods48.92 0.0249.05
rotatoR000

projectR.Rcheck/examples_x64/projectR-Ex.timings

nameusersystemelapsed
alluvialMat0.450.010.47
aucMat0.080.000.08
cluster2pattern-methods0.210.020.22
clusterPlotR-methods000
correlateR0.090.000.09
geneMatchR0.030.000.03
intersectoR-methods0.020.000.02
projectR-methods36.11 0.0036.19
rotatoR000