Multiple platform build/check report for BioC 3.21 - CHECK results for spatialDE on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences"	4704
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences"	4467
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-01-22 r87618) -- "Unsuffered Consequences"	4478
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 palomino7

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: 1.13.0

Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:spatialDE.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings spatialDE_1.13.0.tar.gz

StartedAt: 2025-02-03 05:28:53 -0500 (Mon, 03 Feb 2025)

EndedAt: 2025-02-03 05:34:04 -0500 (Mon, 03 Feb 2025)

EllapsedTime: 310.9 seconds

RetCode: 0

Status: OK

CheckDir: spatialDE.Rcheck

Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:spatialDE.install-out.txt --library=E:\biocbuild\bbs-3.21-bioc\R\library --no-vignettes --timings spatialDE_1.13.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'E:/biocbuild/bbs-3.21-bioc/meat/spatialDE.Rcheck'
* using R Under development (unstable) (2025-01-21 r87610 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'spatialDE/DESCRIPTION' ... OK
* this is package 'spatialDE' version '1.13.0'
* 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 whether package 'spatialDE' can be installed ... NOTE
Found the following notes/warnings:
  Non-staged installation was used
See 'E:/biocbuild/bbs-3.21-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 ... NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
  mockSVG.Rd: SpatialExperiment-class
  modelSearch.Rd: SpatialExperiment-class
  multiGenePlots.Rd: SpatialExperiment-class
  spatialDE.Rd: SpatialExperiment-class
  spatialPatterns.Rd: SpatialExperiment-class
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
* 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 11.89   0.38    6.14
FSV_sig           4.64   1.54   37.86
* 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: 2 NOTEs
See
  'E:/biocbuild/bbs-3.21-bioc/meat/spatialDE.Rcheck/00check.log'
for details.

Installation output

spatialDE.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD INSTALL spatialDE
###
##############################################################################
##############################################################################


* installing to library 'E:/biocbuild/bbs-3.21-bioc/R/library'
* installing *source* package 'spatialDE' ...
** this is package 'spatialDE' version '1.13.0'
** 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 Under development (unstable) (2025-01-21 r87610 ucrt) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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
Loading required package: generics

Attaching package: 'generics'

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

    as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
    setequal, union


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, is.unsorted, lapply,
    mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
    rank, rbind, rownames, sapply, saveRDS, table, tapply, 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

Attaching package: 'IRanges'

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

    windows

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

 29%|██▉       | 29/100 [00:00<00:00, 265.14it/s][A

 71%|███████   | 71/100 [00:00<00:00, 335.05it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:02,  3.56it/s]

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

 37%|███▋      | 37/100 [00:00<00:00, 338.27it/s][A

 74%|███████▍  | 74/100 [00:00<00:00, 338.28it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:02,  3.56it/s]

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

 30%|███       | 30/100 [00:00<00:00, 274.29it/s][A

 63%|██████▎   | 63/100 [00:00<00:00, 290.42it/s][A

                                                 [A
Models:  30%|███       | 3/10 [00:00<00:02,  3.38it/s]

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

 30%|███       | 30/100 [00:00<00:00, 273.16it/s][A

 64%|██████▍   | 64/100 [00:00<00:00, 295.30it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:01,  3.24it/s]

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

 29%|██▉       | 29/100 [00:00<00:00, 265.14it/s][A

 61%|██████    | 61/100 [00:00<00:00, 281.28it/s][A

 95%|█████████▌| 95/100 [00:00<00:00, 294.77it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:01<00:01,  3.11it/s]

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

 32%|███▏      | 32/100 [00:00<00:00, 292.58it/s][A

 65%|██████▌   | 65/100 [00:00<00:00, 297.95it/s][A

 99%|█████████▉| 99/100 [00:00<00:00, 303.84it/s][A

                                                 [A
Models:  60%|██████    | 6/10 [00:01<00:01,  3.09it/s]

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

 32%|███▏      | 32/100 [00:00<00:00, 293.00it/s][A

 62%|██████▏   | 62/100 [00:00<00:00, 260.10it/s][A

 89%|████████▉ | 89/100 [00:00<00:00, 226.10it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:02<00:01,  2.81it/s]

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

 16%|█▌        | 16/100 [00:00<00:00, 146.28it/s][A

 36%|███▌      | 36/100 [00:00<00:00, 167.79it/s][A

 56%|█████▌    | 56/100 [00:00<00:00, 174.67it/s][A

 75%|███████▌  | 75/100 [00:00<00:00, 174.29it/s][A

 93%|█████████▎| 93/100 [00:00<00:00, 170.78it/s][A

                                                 [A
Models:  80%|████████  | 8/10 [00:02<00:00,  2.32it/s]

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

 21%|██        | 21/100 [00:00<00:00, 134.00it/s][A

 41%|████      | 41/100 [00:00<00:00, 158.39it/s][A

 62%|██████▏   | 62/100 [00:00<00:00, 172.38it/s][A

 82%|████████▏ | 82/100 [00:00<00:00, 176.28it/s][A

                                                 [A
Models:  90%|█████████ | 9/10 [00:03<00:00,  2.12it/s]

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

 22%|██▏       | 22/100 [00:00<00:00, 201.12it/s][A

 45%|████▌     | 45/100 [00:00<00:00, 206.51it/s][A

 67%|██████▋   | 67/100 [00:00<00:00, 204.06it/s][A

 91%|█████████ | 91/100 [00:00<00:00, 210.12it/s][A

                                                 [A
Models: 100%|██████████| 10/10 [00:03<00:00,  2.10it/s]
Models: 100%|██████████| 10/10 [00:03<00:00,  2.54it/s]

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

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

 34%|███▍      | 34/100 [00:00<00:00, 310.87it/s][A

 66%|██████▌   | 66/100 [00:00<00:00, 276.84it/s][A

 94%|█████████▍| 94/100 [00:00<00:00, 267.74it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:03,  2.67it/s]

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

 24%|██▍       | 24/100 [00:00<00:00, 219.42it/s][A

 46%|████▌     | 46/100 [00:00<00:00, 192.04it/s][A

 66%|██████▌   | 66/100 [00:00<00:00, 188.04it/s][A

 94%|█████████▍| 94/100 [00:00<00:00, 214.12it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:03,  2.32it/s]

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

 38%|███▊      | 38/100 [00:00<00:00, 347.41it/s][A

 74%|███████▍  | 74/100 [00:00<00:00, 336.67it/s][A

                                                 [A
Models:  30%|███       | 3/10 [00:01<00:02,  2.61it/s]

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

 36%|███▌      | 36/100 [00:00<00:00, 329.12it/s][A

 70%|███████   | 70/100 [00:00<00:00, 318.39it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:02,  2.72it/s]

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

 32%|███▏      | 32/100 [00:00<00:00, 291.33it/s][A

 62%|██████▏   | 62/100 [00:00<00:00, 259.54it/s][A

 89%|████████▉ | 89/100 [00:00<00:00, 239.10it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:01<00:01,  2.62it/s]

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

 23%|██▎       | 23/100 [00:00<00:00, 209.37it/s][A

 44%|████▍     | 44/100 [00:00<00:00, 183.32it/s][A

 63%|██████▎   | 63/100 [00:00<00:00, 169.67it/s][A

 83%|████████▎ | 83/100 [00:00<00:00, 173.06it/s][A

                                                 [A
Models:  60%|██████    | 6/10 [00:02<00:01,  2.25it/s]

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

 25%|██▌       | 25/100 [00:00<00:00, 227.52it/s][A

 48%|████▊     | 48/100 [00:00<00:00, 216.85it/s][A

 70%|███████   | 70/100 [00:00<00:00, 196.53it/s][A

 90%|█████████ | 90/100 [00:00<00:00, 181.01it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:03<00:01,  2.14it/s]

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

 20%|██        | 20/100 [00:00<00:00, 182.85it/s][A

 45%|████▌     | 45/100 [00:00<00:00, 209.74it/s][A

 73%|███████▎  | 73/100 [00:00<00:00, 230.86it/s][A

 97%|█████████▋| 97/100 [00:00<00:00, 203.41it/s][A

                                                 [A
Models:  80%|████████  | 8/10 [00:03<00:00,  2.11it/s]

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

 26%|██▌       | 26/100 [00:00<00:00, 237.70it/s][A

 56%|█████▌    | 56/100 [00:00<00:00, 259.22it/s][A

 86%|████████▌ | 86/100 [00:00<00:00, 266.09it/s][A

                                                 [A
Models:  90%|█████████ | 9/10 [00:03<00:00,  2.21it/s]

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

 21%|██        | 21/100 [00:00<00:00, 191.22it/s][A

 43%|████▎     | 43/100 [00:00<00:00, 197.04it/s][A

 77%|███████▋  | 77/100 [00:00<00:00, 248.96it/s][A

                                                 [A
Models: 100%|██████████| 10/10 [00:04<00:00,  2.31it/s]
Models: 100%|██████████| 10/10 [00:04<00:00,  2.33it/s]
C:\Users\BIOCBU~1\BASILI~1\119~1.0\SPATIA~1\113~1.0\env\lib\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

 35%|███▌      | 35/100 [00:00<00:00, 319.99it/s][A

 67%|██████▋   | 67/100 [00:00<00:00, 303.86it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:02,  3.05it/s]

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

 42%|████▏     | 42/100 [00:00<00:00, 383.98it/s][A

 81%|████████  | 81/100 [00:00<00:00, 314.92it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:02,  3.14it/s]

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

 32%|███▏      | 32/100 [00:00<00:00, 291.23it/s][A

 66%|██████▌   | 66/100 [00:00<00:00, 302.75it/s][A

 97%|█████████▋| 97/100 [00:00<00:00, 293.95it/s][A

                                                 [A
Models:  30%|███       | 3/10 [00:00<00:02,  3.03it/s]

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

 24%|██▍       | 24/100 [00:00<00:00, 219.41it/s][A

 47%|████▋     | 47/100 [00:00<00:00, 214.05it/s][A

 73%|███████▎  | 73/100 [00:00<00:00, 224.85it/s][A

 96%|█████████▌| 96/100 [00:00<00:00, 207.40it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:02,  2.56it/s]

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

 23%|██▎       | 23/100 [00:00<00:00, 210.29it/s][A

 45%|████▌     | 45/100 [00:00<00:00, 188.58it/s][A

 65%|██████▌   | 65/100 [00:00<00:00, 186.08it/s][A

 84%|████████▍ | 84/100 [00:00<00:00, 181.33it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:02<00:02,  2.23it/s]

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

 24%|██▍       | 24/100 [00:00<00:00, 219.43it/s][A

 48%|████▊     | 48/100 [00:00<00:00, 219.43it/s][A

 72%|███████▏  | 72/100 [00:00<00:00, 219.42it/s][A

                                                 [A
Models:  60%|██████    | 6/10 [00:02<00:01,  2.28it/s]

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

 37%|███▋      | 37/100 [00:00<00:00, 338.06it/s][A

 71%|███████   | 71/100 [00:00<00:00, 322.17it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:02<00:01,  2.51it/s]

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

 36%|███▌      | 36/100 [00:00<00:00, 329.14it/s][A

 71%|███████   | 71/100 [00:00<00:00, 323.76it/s][A

                                                 [A
Models:  80%|████████  | 8/10 [00:03<00:00,  2.70it/s]

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

 28%|██▊       | 28/100 [00:00<00:00, 255.99it/s][A

 54%|█████▍    | 54/100 [00:00<00:00, 195.86it/s][A

 75%|███████▌  | 75/100 [00:00<00:00, 183.76it/s][A

 94%|█████████▍| 94/100 [00:00<00:00, 171.61it/s][A

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

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

 20%|██        | 20/100 [00:00<00:00, 182.02it/s][A

 40%|████      | 40/100 [00:00<00:00, 181.34it/s][A

 62%|██████▏   | 62/100 [00:00<00:00, 190.34it/s][A

 83%|████████▎ | 83/100 [00:00<00:00, 190.99it/s][A

                                                 [A
Models: 100%|██████████| 10/10 [00:04<00:00,  2.23it/s]
Models: 100%|██████████| 10/10 [00:04<00:00,  2.43it/s]

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

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

 41%|████      | 41/100 [00:00<00:00, 374.85it/s][A

 82%|████████▏ | 82/100 [00:00<00:00, 374.82it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:02,  3.56it/s]

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

 23%|██▎       | 23/100 [00:00<00:00, 209.43it/s][A

 48%|████▊     | 48/100 [00:00<00:00, 220.62it/s][A

 78%|███████▊  | 78/100 [00:00<00:00, 245.10it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:02,  2.75it/s]

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

 23%|██▎       | 23/100 [00:00<00:00, 210.28it/s][A

 45%|████▌     | 45/100 [00:00<00:00, 153.36it/s][A

 63%|██████▎   | 63/100 [00:00<00:00, 157.68it/s][A

 81%|████████  | 81/100 [00:00<00:00, 160.13it/s][A

                                                 [A
Models:  30%|███       | 3/10 [00:01<00:03,  2.10it/s]

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

 21%|██        | 21/100 [00:00<00:00, 191.14it/s][A

 47%|████▋     | 47/100 [00:00<00:00, 218.49it/s][A

 73%|███████▎  | 73/100 [00:00<00:00, 227.25it/s][A

 96%|█████████▌| 96/100 [00:00<00:00, 208.79it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:02,  2.08it/s]

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

 22%|██▏       | 22/100 [00:00<00:00, 201.13it/s][A

 54%|█████▍    | 54/100 [00:00<00:00, 254.92it/s][A

 89%|████████▉ | 89/100 [00:00<00:00, 284.64it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:02<00:02,  2.29it/s]

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

 27%|██▋       | 27/100 [00:00<00:00, 246.84it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 201.69it/s][A

 74%|███████▍  | 74/100 [00:00<00:00, 201.45it/s][A

100%|██████████| 100/100 [00:00<00:00, 215.01it/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, 210.28it/s][A

 52%|█████▏    | 52/100 [00:00<00:00, 242.55it/s][A

 86%|████████▌ | 86/100 [00:00<00:00, 273.73it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:02<00:01,  2.39it/s]

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

 26%|██▌       | 26/100 [00:00<00:00, 237.71it/s][A

 50%|█████     | 50/100 [00:00<00:00, 226.96it/s][A

 75%|███████▌  | 75/100 [00:00<00:00, 227.69it/s][A

                                                 [A
Models:  80%|████████  | 8/10 [00:03<00:00,  2.41it/s]

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

 25%|██▌       | 25/100 [00:00<00:00, 228.49it/s][A

 48%|████▊     | 48/100 [00:00<00:00, 217.78it/s][A

 77%|███████▋  | 77/100 [00:00<00:00, 239.40it/s][A

                                                 [A
Models:  90%|█████████ | 9/10 [00:03<00:00,  2.34it/s]

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

 20%|██        | 20/100 [00:00<00:00, 182.85it/s][A

 43%|████▎     | 43/100 [00:00<00:00, 198.99it/s][A

 64%|██████▍   | 64/100 [00:00<00:00, 195.80it/s][A

 85%|████████▌ | 85/100 [00:00<00:00, 194.30it/s][A

                                                 [A
Models: 100%|██████████| 10/10 [00:04<00:00,  2.20it/s]
Models: 100%|██████████| 10/10 [00:04<00:00,  2.29it/s]

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

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

 37%|███▋      | 37/100 [00:00<00:00, 338.31it/s][A

 90%|█████████ | 90/100 [00:00<00:00, 424.35it/s][A

                                                 [A
Models:  10%|█         | 1/10 [00:00<00:02,  4.27it/s]

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

 29%|██▉       | 29/100 [00:00<00:00, 265.14it/s][A

 56%|█████▌    | 56/100 [00:00<00:00, 217.78it/s][A

 79%|███████▉  | 79/100 [00:00<00:00, 214.64it/s][A

                                                 [A
Models:  20%|██        | 2/10 [00:00<00:02,  2.69it/s]

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

 21%|██        | 21/100 [00:00<00:00, 191.12it/s][A

 41%|████      | 41/100 [00:00<00:00, 186.27it/s][A

 60%|██████    | 60/100 [00:00<00:00, 180.54it/s][A

 81%|████████  | 81/100 [00:00<00:00, 185.06it/s][A

                                                 [A
Models:  30%|███       | 3/10 [00:01<00:03,  2.25it/s]

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

 23%|██▎       | 23/100 [00:00<00:00, 210.28it/s][A

 45%|████▌     | 45/100 [00:00<00:00, 204.91it/s][A

 72%|███████▏  | 72/100 [00:00<00:00, 224.06it/s][A

 95%|█████████▌| 95/100 [00:00<00:00, 218.62it/s][A

                                                 [A
Models:  40%|████      | 4/10 [00:01<00:02,  2.20it/s]

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

 23%|██▎       | 23/100 [00:00<00:00, 209.35it/s][A

 44%|████▍     | 44/100 [00:00<00:00, 183.76it/s][A

 63%|██████▎   | 63/100 [00:00<00:00, 179.37it/s][A

 82%|████████▏ | 82/100 [00:00<00:00, 177.20it/s][A

                                                 [A
Models:  50%|█████     | 5/10 [00:02<00:02,  2.05it/s]

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

 21%|██        | 21/100 [00:00<00:00, 191.99it/s][A

 53%|█████▎    | 53/100 [00:00<00:00, 251.15it/s][A

 83%|████████▎ | 83/100 [00:00<00:00, 261.72it/s][A

                                                 [A
Models:  60%|██████    | 6/10 [00:02<00:01,  2.15it/s]

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

 33%|███▎      | 33/100 [00:00<00:00, 300.45it/s][A

 64%|██████▍   | 64/100 [00:00<00:00, 248.67it/s][A

 90%|█████████ | 90/100 [00:00<00:00, 197.03it/s][A

                                                 [A
Models:  70%|███████   | 7/10 [00:03<00:01,  2.12it/s]

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

 21%|██        | 21/100 [00:00<00:00, 191.99it/s][A

 41%|████      | 41/100 [00:00<00:00, 186.62it/s][A

 60%|██████    | 60/100 [00:00<00:00, 180.72it/s][A

 79%|███████▉  | 79/100 [00:00<00:00, 177.95it/s][A

                                                 [A
Models:  80%|████████  | 8/10 [00:03<00:00,  2.06it/s]

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

 32%|███▏      | 32/100 [00:00<00:00, 291.39it/s][A

 66%|██████▌   | 66/100 [00:00<00:00, 302.76it/s][A

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

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

 29%|██▉       | 29/100 [00:00<00:00, 265.12it/s][A

 56%|█████▌    | 56/100 [00:00<00:00, 253.72it/s][A

 82%|████████▏ | 82/100 [00:00<00:00, 230.91it/s][A

                                                 [A
Models: 100%|██████████| 10/10 [00:04<00:00,  2.30it/s]
Models: 100%|██████████| 10/10 [00:04<00:00,  2.26it/s]
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 29 ]
> 
> proc.time()
   user  system elapsed 
  57.73    2.21   65.60

Example timings

spatialDE.Rcheck/spatialDE-Ex.timings

name	user	system	elapsed
FSV_sig	4.64	1.54	37.86
mockSVG	0.25	0.02	0.27
modelSearch	2.40	0.09	1.38
model_search	2.14	0.21	1.17
multiGenePlots	2.46	0.15	1.83
regress_out	0.18	0.03	0.15
run	1.12	0.09	0.61
spatialDE	1.17	0.14	0.72
spatialPatterns	1.16	0.14	0.69
spatial_patterns	11.89	0.38	6.14
stabilize	0.11	0.01	0.06