Multiple platform build/check report for BioC 3.19 - CHECK results for spatialDE on kjohnson1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 22.04.3 LTS)	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4763
palomino7	Windows Server 2022 Datacenter	x64	4.4.1 (2024-06-14 ucrt) -- "Race for Your Life"	4500
merida1	macOS 12.7.5 Monterey	x86_64	4.4.1 (2024-06-14) -- "Race for Your Life"	4530
kjohnson1	macOS 13.6.6 Ventura	arm64	4.4.1 (2024-06-14) -- "Race for Your Life"	4480
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 spatialDE on kjohnson1

To the developers/maintainers of the spatialDE package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/spatialDE.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results

Summary

Package: spatialDE

Version: 1.10.0

Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:spatialDE.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings spatialDE_1.10.0.tar.gz

StartedAt: 2024-10-18 13:14:13 -0400 (Fri, 18 Oct 2024)

EndedAt: 2024-10-18 13:19:58 -0400 (Fri, 18 Oct 2024)

EllapsedTime: 344.3 seconds

RetCode: 0

Status: OK

CheckDir: spatialDE.Rcheck

Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:spatialDE.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings spatialDE_1.10.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.19-bioc/meat/spatialDE.Rcheck’
* using R version 4.4.1 (2024-06-14)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘spatialDE/DESCRIPTION’ ... OK
* this is package ‘spatialDE’ 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 ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘spatialDE’ can be installed ... NOTE
Found the following notes/warnings:
  Non-staged installation was used
See ‘/Users/biocbuild/bbs-3.19-bioc/meat/spatialDE.Rcheck/00install.out’ for details.
* 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 code 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 line endings in shell scripts ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
spatial_patterns 23.186  3.520  25.568
FSV_sig           7.240  2.302  14.509
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... 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
  ‘/Users/biocbuild/bbs-3.19-bioc/meat/spatialDE.Rcheck/00check.log’
for details.

Installation output

spatialDE.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL spatialDE
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library’
* installing *source* package ‘spatialDE’ ...
** using non-staged installation via StagedInstall field
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (spatialDE)

Tests output

spatialDE.Rcheck/tests/testthat.Rout


R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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(spatialDE)
> 
> test_check("spatialDE")
Loading required package: SingleCellExperiment
Loading required package: SummarizedExperiment
Loading required package: MatrixGenerics
Loading required package: matrixStats

Attaching package: 'MatrixGenerics'

The following objects are masked from 'package:matrixStats':

    colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
    colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
    colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
    colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
    colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
    colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
    colWeightedMeans, colWeightedMedians, colWeightedSds,
    colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
    rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
    rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
    rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
    rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
    rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
    rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
    rowWeightedSds, rowWeightedVars

Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: BiocGenerics

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:stats':

    IQR, mad, sd, var, xtabs

The following objects are masked from 'package:base':

    Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
    as.data.frame, basename, cbind, colnames, dirname, do.call,
    duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, setdiff, table, tapply,
    union, unique, unsplit, which.max, which.min

Loading required package: S4Vectors

Attaching package: 'S4Vectors'

The following object is masked from 'package:utils':

    findMatches

The following objects are masked from 'package:base':

    I, expand.grid, unname

Loading required package: IRanges
Loading required package: GenomeInfoDb
Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.


Attaching package: 'Biobase'

The following object is masked from 'package:MatrixGenerics':

    rowMedians

The following objects are masked from 'package:matrixStats':

    anyMissing, rowMedians


Models:   0%|          | 0/10 [00:00<?, ?it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 34%|███▍      | 34/100 [00:00<00:00, 336.34it/s][A

 68%|██████▊   | 68/100 [00:00<00:00, 337.35it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:02,  3.27it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 31%|███       | 31/100 [00:00<00:00, 307.89it/s][A

 62%|██████▏   | 62/100 [00:00<00:00, 269.51it/s][A

 90%|█████████ | 90/100 [00:00<00:00, 263.82it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:02,  2.85it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 25%|██▌       | 25/100 [00:00<00:00, 246.88it/s][A

 50%|█████     | 50/100 [00:00<00:00, 236.20it/s][A

 74%|███████▍  | 74/100 [00:00<00:00, 231.07it/s][A

 98%|█████████▊| 98/100 [00:00<00:00, 226.01it/s][A

                                                 [A
Models:  30%|███       | 3/10 [00:01<00:02,  2.56it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 23%|██▎       | 23/100 [00:00<00:00, 229.22it/s][A

 46%|████▌     | 46/100 [00:00<00:00, 223.04it/s][A

 69%|██████▉   | 69/100 [00:00<00:00, 218.93it/s][A

 92%|█████████▏| 92/100 [00:00<00:00, 220.92it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:02,  2.39it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 22%|██▏       | 22/100 [00:00<00:00, 214.82it/s][A

 44%|████▍     | 44/100 [00:00<00:00, 215.48it/s][A

 67%|██████▋   | 67/100 [00:00<00:00, 216.98it/s][A

 89%|████████▉ | 89/100 [00:00<00:00, 216.91it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:02<00:02,  2.28it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 21%|██        | 21/100 [00:00<00:00, 208.20it/s][A

 43%|████▎     | 43/100 [00:00<00:00, 211.84it/s][A

 65%|██████▌   | 65/100 [00:00<00:00, 211.59it/s][A

 88%|████████▊ | 88/100 [00:00<00:00, 216.01it/s][A

                                                 [A
Models:  60%|██████    | 6/10 [00:02<00:01,  2.23it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 23%|██▎       | 23/100 [00:00<00:00, 224.94it/s][A

 46%|████▌     | 46/100 [00:00<00:00, 225.59it/s][A

 69%|██████▉   | 69/100 [00:00<00:00, 219.10it/s][A

 92%|█████████▏| 92/100 [00:00<00:00, 222.54it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:02<00:01,  2.22it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 24%|██▍       | 24/100 [00:00<00:00, 238.49it/s][A

 48%|████▊     | 48/100 [00:00<00:00, 225.08it/s][A

 71%|███████   | 71/100 [00:00<00:00, 225.49it/s][A

 94%|█████████▍| 94/100 [00:00<00:00, 222.64it/s][A

                                                 [A
Models:  80%|████████  | 8/10 [00:03<00:00,  2.14it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 25%|██▌       | 25/100 [00:00<00:00, 239.65it/s][A

 49%|████▉     | 49/100 [00:00<00:00, 227.41it/s][A

 72%|███████▏  | 72/100 [00:00<00:00, 226.75it/s][A

 95%|█████████▌| 95/100 [00:00<00:00, 227.52it/s][A

                                                 [A
Models:  90%|█████████ | 9/10 [00:03<00:00,  2.18it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 27%|██▋       | 27/100 [00:00<00:00, 262.07it/s][A

 54%|█████▍    | 54/100 [00:00<00:00, 248.17it/s][A

 79%|███████▉  | 79/100 [00:00<00:00, 246.83it/s][A

                                                 [A
Models: 100%|██████████| 10/10 [00:04<00:00,  2.25it/s]
Models: 100%|██████████| 10/10 [00:04<00:00,  2.31it/s]

Models:   0%|          | 0/10 [00:00<?, ?it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 35%|███▌      | 35/100 [00:00<00:00, 339.71it/s][A

 69%|██████▉   | 69/100 [00:00<00:00, 330.14it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:02,  3.22it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 29%|██▉       | 29/100 [00:00<00:00, 279.88it/s][A

 57%|█████▋    | 57/100 [00:00<00:00, 251.23it/s][A

 83%|████████▎ | 83/100 [00:00<00:00, 240.72it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:02,  2.68it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 27%|██▋       | 27/100 [00:00<00:00, 266.78it/s][A

 54%|█████▍    | 54/100 [00:00<00:00, 224.57it/s][A

 77%|███████▋  | 77/100 [00:00<00:00, 219.97it/s][A

100%|██████████| 100/100 [00:00<00:00, 213.48it/s][A

                                                  [A
Models:  30%|███       | 3/10 [00:01<00:02,  2.42it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 257.33it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 217.02it/s][A

 75%|███████▌  | 75/100 [00:00<00:00, 212.36it/s][A

 97%|█████████▋| 97/100 [00:00<00:00, 213.89it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:02,  2.31it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 248.28it/s][A

 51%|█████     | 51/100 [00:00<00:00, 218.09it/s][A

 74%|███████▍  | 74/100 [00:00<00:00, 213.27it/s][A

 96%|█████████▌| 96/100 [00:00<00:00, 209.36it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:02<00:02,  2.24it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 27%|██▋       | 27/100 [00:00<00:00, 256.41it/s][A

 53%|█████▎    | 53/100 [00:00<00:00, 227.41it/s][A

 76%|███████▌  | 76/100 [00:00<00:00, 226.38it/s][A

 99%|█████████▉| 99/100 [00:00<00:00, 222.54it/s][A

                                                 [A
Models:  60%|██████    | 6/10 [00:02<00:01,  2.24it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 27%|██▋       | 27/100 [00:00<00:00, 256.26it/s][A

 53%|█████▎    | 53/100 [00:00<00:00, 235.36it/s][A

 77%|███████▋  | 77/100 [00:00<00:00, 228.59it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:03<00:01,  2.26it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 250.22it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 228.52it/s][A

 75%|███████▌  | 75/100 [00:00<00:00, 222.04it/s][A

 98%|█████████▊| 98/100 [00:00<00:00, 224.22it/s][A

                                                 [A
Models:  80%|████████  | 8/10 [00:03<00:00,  2.25it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 27%|██▋       | 27/100 [00:00<00:00, 258.93it/s][A

 53%|█████▎    | 53/100 [00:00<00:00, 235.41it/s][A

 77%|███████▋  | 77/100 [00:00<00:00, 230.75it/s][A

                                                 [A
Models:  90%|█████████ | 9/10 [00:03<00:00,  2.27it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 27%|██▋       | 27/100 [00:00<00:00, 258.85it/s][A

 53%|█████▎    | 53/100 [00:00<00:00, 240.76it/s][A

 78%|███████▊  | 78/100 [00:00<00:00, 241.14it/s][A

                                                 [A
Models: 100%|██████████| 10/10 [00:04<00:00,  2.31it/s]
Models: 100%|██████████| 10/10 [00:04<00:00,  2.32it/s]
/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.16.0/spatialDE/1.10.0/env/lib/python3.9/site-packages/pandas/core/internals/blocks.py:351: RuntimeWarning: invalid value encountered in log
  result = func(self.values, **kwargs)

Models:   0%|          | 0/10 [00:00<?, ?it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 34%|███▍      | 34/100 [00:00<00:00, 335.60it/s][A

 71%|███████   | 71/100 [00:00<00:00, 351.22it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:02,  3.48it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 30%|███       | 30/100 [00:00<00:00, 297.67it/s][A

 60%|██████    | 60/100 [00:00<00:00, 265.39it/s][A

 87%|████████▋ | 87/100 [00:00<00:00, 263.88it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:02,  2.94it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 27%|██▋       | 27/100 [00:00<00:00, 265.36it/s][A

 54%|█████▍    | 54/100 [00:00<00:00, 245.31it/s][A

 79%|███████▉  | 79/100 [00:00<00:00, 236.68it/s][A

                                                 [A
Models:  30%|███       | 3/10 [00:01<00:02,  2.67it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 249.94it/s][A

 51%|█████     | 51/100 [00:00<00:00, 239.66it/s][A

 75%|███████▌  | 75/100 [00:00<00:00, 235.10it/s][A

 99%|█████████▉| 99/100 [00:00<00:00, 230.67it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:02,  2.51it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 252.21it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 241.41it/s][A

 77%|███████▋  | 77/100 [00:00<00:00, 234.34it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:01<00:02,  2.45it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 250.08it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 236.58it/s][A

 76%|███████▌  | 76/100 [00:00<00:00, 229.92it/s][A

100%|██████████| 100/100 [00:00<00:00, 230.81it/s][A

                                                  [A
Models:  60%|██████    | 6/10 [00:02<00:01,  2.40it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 252.80it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 241.57it/s][A

 77%|███████▋  | 77/100 [00:00<00:00, 231.86it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:02<00:01,  2.38it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 251.67it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 236.39it/s][A

 76%|███████▌  | 76/100 [00:00<00:00, 226.63it/s][A

 99%|█████████▉| 99/100 [00:00<00:00, 213.48it/s][A

                                                 [A
Models:  80%|████████  | 8/10 [00:03<00:00,  2.31it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 25%|██▌       | 25/100 [00:00<00:00, 243.63it/s][A

 50%|█████     | 50/100 [00:00<00:00, 223.74it/s][A

 75%|███████▌  | 75/100 [00:00<00:00, 233.27it/s][A

100%|██████████| 100/100 [00:00<00:00, 236.45it/s][A

                                                  [A
Models:  90%|█████████ | 9/10 [00:03<00:00,  2.32it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 24%|██▍       | 24/100 [00:00<00:00, 234.98it/s][A

 49%|████▉     | 49/100 [00:00<00:00, 241.71it/s][A

 75%|███████▌  | 75/100 [00:00<00:00, 244.76it/s][A

100%|██████████| 100/100 [00:00<00:00, 246.03it/s][A

                                                  [A
Models: 100%|██████████| 10/10 [00:04<00:00,  2.35it/s]
Models: 100%|██████████| 10/10 [00:04<00:00,  2.44it/s]

Models:   0%|          | 0/10 [00:00<?, ?it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 60%|██████    | 60/100 [00:00<00:00, 585.54it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:01,  6.01it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 47%|████▋     | 47/100 [00:00<00:00, 452.38it/s][A

 93%|█████████▎| 93/100 [00:00<00:00, 373.65it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:01,  4.43it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 32%|███▏      | 32/100 [00:00<00:00, 316.43it/s][A

 64%|██████▍   | 64/100 [00:00<00:00, 268.40it/s][A

 94%|█████████▍| 94/100 [00:00<00:00, 281.17it/s][A

                                                 [A
Models:  30%|███       | 3/10 [00:00<00:01,  3.51it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 32%|███▏      | 32/100 [00:00<00:00, 302.32it/s][A

 63%|██████▎   | 63/100 [00:00<00:00, 240.51it/s][A

 88%|████████▊ | 88/100 [00:00<00:00, 230.79it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:02,  2.90it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 23%|██▎       | 23/100 [00:00<00:00, 219.99it/s][A

 45%|████▌     | 45/100 [00:00<00:00, 206.78it/s][A

 66%|██████▌   | 66/100 [00:00<00:00, 202.25it/s][A

 87%|████████▋ | 87/100 [00:00<00:00, 198.60it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:01<00:02,  2.48it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 22%|██▏       | 22/100 [00:00<00:00, 210.68it/s][A

 44%|████▍     | 44/100 [00:00<00:00, 142.72it/s][A

 65%|██████▌   | 65/100 [00:00<00:00, 164.26it/s][A

 86%|████████▌ | 86/100 [00:00<00:00, 179.01it/s][A

                                                 [A
Models:  60%|██████    | 6/10 [00:02<00:01,  2.18it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 23%|██▎       | 23/100 [00:00<00:00, 219.64it/s][A

 45%|████▌     | 45/100 [00:00<00:00, 217.31it/s][A

 67%|██████▋   | 67/100 [00:00<00:00, 207.88it/s][A

 88%|████████▊ | 88/100 [00:00<00:00, 206.36it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:02<00:01,  2.15it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 23%|██▎       | 23/100 [00:00<00:00, 215.81it/s][A

 46%|████▌     | 46/100 [00:00<00:00, 214.03it/s][A

 68%|██████▊   | 68/100 [00:00<00:00, 213.86it/s][A

 90%|█████████ | 90/100 [00:00<00:00, 204.66it/s][A

                                                 [A
Models:  80%|████████  | 8/10 [00:03<00:00,  2.12it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 25%|██▌       | 25/100 [00:00<00:00, 245.70it/s][A

 50%|█████     | 50/100 [00:00<00:00, 225.85it/s][A

 74%|███████▍  | 74/100 [00:00<00:00, 229.06it/s][A

 97%|█████████▋| 97/100 [00:00<00:00, 221.31it/s][A

                                                 [A
Models:  90%|█████████ | 9/10 [00:03<00:00,  2.15it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 22%|██▏       | 22/100 [00:00<00:00, 217.24it/s][A

 48%|████▊     | 48/100 [00:00<00:00, 240.80it/s][A

 73%|███████▎  | 73/100 [00:00<00:00, 242.15it/s][A

 99%|█████████▉| 99/100 [00:00<00:00, 248.38it/s][A

                                                 [A
Models: 100%|██████████| 10/10 [00:04<00:00,  2.22it/s]
Models: 100%|██████████| 10/10 [00:04<00:00,  2.42it/s]

Models:   0%|          | 0/10 [00:00<?, ?it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 35%|███▌      | 35/100 [00:00<00:00, 345.47it/s][A

 72%|███████▏  | 72/100 [00:00<00:00, 356.85it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:02,  3.03it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 259.23it/s][A

 53%|█████▎    | 53/100 [00:00<00:00, 264.52it/s][A

 80%|████████  | 80/100 [00:00<00:00, 262.88it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:02,  2.74it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 258.11it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 241.25it/s][A

 77%|███████▋  | 77/100 [00:00<00:00, 241.35it/s][A

                                                 [A
Models:  30%|███       | 3/10 [00:01<00:02,  2.56it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 24%|██▍       | 24/100 [00:00<00:00, 228.85it/s][A

 47%|████▋     | 47/100 [00:00<00:00, 219.91it/s][A

 70%|███████   | 70/100 [00:00<00:00, 221.08it/s][A

 93%|█████████▎| 93/100 [00:00<00:00, 216.63it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:02,  2.39it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 25%|██▌       | 25/100 [00:00<00:00, 243.75it/s][A

 50%|█████     | 50/100 [00:00<00:00, 231.40it/s][A

 74%|███████▍  | 74/100 [00:00<00:00, 221.74it/s][A

 97%|█████████▋| 97/100 [00:00<00:00, 221.25it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:02<00:02,  2.33it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 24%|██▍       | 24/100 [00:00<00:00, 230.93it/s][A

 48%|████▊     | 48/100 [00:00<00:00, 215.91it/s][A

 70%|███████   | 70/100 [00:00<00:00, 203.22it/s][A

 92%|█████████▏| 92/100 [00:00<00:00, 206.65it/s][A

                                                 [A
Models:  60%|██████    | 6/10 [00:02<00:01,  2.24it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 25%|██▌       | 25/100 [00:00<00:00, 238.90it/s][A

 49%|████▉     | 49/100 [00:00<00:00, 216.96it/s][A

 71%|███████   | 71/100 [00:00<00:00, 203.95it/s][A

 94%|█████████▍| 94/100 [00:00<00:00, 213.25it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:02<00:01,  2.20it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 26%|██▌       | 26/100 [00:00<00:00, 252.00it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 233.26it/s][A

 76%|███████▌  | 76/100 [00:00<00:00, 230.63it/s][A

100%|██████████| 100/100 [00:00<00:00, 231.33it/s][A

                                                  [A
Models:  80%|████████  | 8/10 [00:03<00:00,  2.23it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 22%|██▏       | 22/100 [00:00<00:00, 210.54it/s][A

 45%|████▌     | 45/100 [00:00<00:00, 217.95it/s][A

 69%|██████▉   | 69/100 [00:00<00:00, 226.89it/s][A

 94%|█████████▍| 94/100 [00:00<00:00, 234.20it/s][A

                                                 [A
Models:  90%|█████████ | 9/10 [00:03<00:00,  2.24it/s]

  0%|          | 0/100 [00:00<?, ?it/s][A

 27%|██▋       | 27/100 [00:00<00:00, 265.65it/s][A

 54%|█████▍    | 54/100 [00:00<00:00, 267.78it/s][A

 81%|████████  | 81/100 [00:00<00:00, 258.70it/s][A

                                                 [A
Models: 100%|██████████| 10/10 [00:04<00:00,  2.34it/s]
Models: 100%|██████████| 10/10 [00:04<00:00,  2.35it/s]
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
> 
> proc.time()
   user  system elapsed 
 61.654   3.475  68.917

Example timings

spatialDE.Rcheck/spatialDE-Ex.timings

name	user	system	elapsed
FSV_sig	7.240	2.302	14.509
mockSVG	0.324	0.070	0.403
modelSearch	2.369	0.437	2.751
model_search	2.177	0.419	2.507
multiGenePlots	1.894	0.282	2.130
regress_out	0.135	0.008	0.145
run	1.086	0.168	1.214
spatialDE	1.287	0.177	1.576
spatialPatterns	1.123	0.308	1.516
spatial_patterns	23.186	3.520	25.568
stabilize	0.138	0.004	0.143