William Nickols
| Snapshot Date: 2025-10-17 13:45 -0400 (Fri, 17 Oct 2025) |
| git_url: https://git.bioconductor.org/packages/maaslin3 |
| git_branch: devel |
| git_last_commit: e7106d5 |
| git_last_commit_date: 2025-10-12 11:00:51 -0400 (Sun, 12 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-10-18 12:06 -0400 (Sat, 18 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4887 |
| lconway | macOS 12.7.6 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4677 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4622 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4632 |
| 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 | ||||
| Package 1164/2353 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| maaslin3 1.1.2 (landing page) William Nickols
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| lconway | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the maaslin3 package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/maaslin3.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. |
| Package: maaslin3 |
| Version: 1.1.2 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:maaslin3.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings maaslin3_1.1.2.tar.gz |
| StartedAt: 2025-10-17 20:33:49 -0400 (Fri, 17 Oct 2025) |
| EndedAt: 2025-10-17 20:38:43 -0400 (Fri, 17 Oct 2025) |
| EllapsedTime: 294.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: maaslin3.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:maaslin3.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings maaslin3_1.1.2.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/maaslin3.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: aarch64-apple-darwin20
* R was compiled by
Apple clang version 16.0.0 (clang-1600.0.26.6)
GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘maaslin3/DESCRIPTION’ ... OK
* this is package ‘maaslin3’ version ‘1.1.2’
* 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 ‘maaslin3’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking 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 files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
maaslin_plot_results_from_output 16.228 0.669 17.290
maaslin_plot_results 16.188 0.557 16.876
maaslin3 8.294 0.529 8.947
maaslin_contrast_test 7.222 0.660 8.053
maaslin_write_results_lefse_format 5.773 0.556 6.356
maaslin_write_results 5.423 0.494 5.946
maaslin_fit 4.920 0.623 5.689
* 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: OK
maaslin3.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL maaslin3 ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library’ * installing *source* package ‘maaslin3’ ... ** this is package ‘maaslin3’ version ‘1.1.2’ ** using staged installation ** R ** 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 from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (maaslin3)
maaslin3.Rcheck/tests/testthat.Rout
R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 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(maaslin3)
>
> test_check("maaslin3")
2025-10-17 20:36:19.381973 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:36:19.410096 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:36:19.445255 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:36:19.454012 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:36:19.466089 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:36:19.492979 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:36:19.494918 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:36:19.498901 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:36:19.535099 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:36:19.53697 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:36:19.553748 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:36:19.567781 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:36:19.571981 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:36:19.590465 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:36:19.613323 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:36:26.499597 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:36:26.526755 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:36:26.553639 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:36:26.561908 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:36:26.574867 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:36:26.602121 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:36:26.60415 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:36:26.608533 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:36:26.651566 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:36:26.653614 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:36:26.670596 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:36:26.683716 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:36:26.687784 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:36:26.701193 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:36:26.724058 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:36:28.229 R[64967:489482685] XType: Using static font registry.
2025-10-17 20:36:36.100648 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:36:36.129672 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:36:36.157085 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:36:36.165025 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:36:36.177262 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:36:36.204417 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:36:36.20657 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:36:36.210868 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:36:36.24519 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:36:36.247344 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:36:36.264856 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:36:36.279846 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:36:36.284342 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:36:36.29854 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:36:36.322701 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:36:41.679701 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:36:41.706475 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:36:41.745615 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:36:41.753642 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:36:41.765948 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:36:41.792839 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:36:41.794962 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:36:41.799469 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:36:41.836899 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:36:41.839313 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:36:41.856581 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:36:41.870121 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:36:41.874316 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:36:41.888299 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:36:41.914738 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:36:41.989993 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/residuals_linear.rds
2025-10-17 20:36:42.022657 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/fitted_linear.rds
2025-10-17 20:36:42.061553 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/residuals_logistic.rds
2025-10-17 20:36:42.236872 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/fitted_logistic.rds
2025-10-17 20:36:50.776426 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:36:50.802536 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:36:50.827747 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:36:50.835139 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:36:50.846592 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:36:50.878032 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:36:50.880126 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:36:50.884215 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:36:50.91681 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:36:50.918934 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:36:50.937439 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:36:50.951978 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:36:51.033023 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:36:51.049574 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:36:51.074366 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:36:56.539147 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:36:56.564891 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:36:56.590377 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:36:56.59802 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:36:56.609624 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:36:56.652067 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:36:56.654034 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:36:56.658033 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:36:56.691136 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:36:56.693133 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:36:56.709859 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:36:56.724066 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:36:56.728643 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:36:56.74289 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:36:56.766961 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:36:56.841195 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/residuals_linear.rds
2025-10-17 20:36:56.874489 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/fitted_linear.rds
2025-10-17 20:36:56.909536 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/residuals_logistic.rds
2025-10-17 20:36:57.08326 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/fitted_logistic.rds
2025-10-17 20:37:05.184083 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:37:05.213204 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:37:05.240169 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:37:05.248784 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:37:05.262086 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:37:05.302516 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:37:05.305699 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:37:05.31049 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:37:05.344673 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:37:05.34678 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:37:05.364 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:37:05.379405 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:37:05.383861 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:37:05.398001 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:37:05.422947 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:37:11.102178 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:37:11.132996 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:37:11.161146 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:37:11.170487 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:37:11.187493 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:37:11.218902 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:37:11.220971 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:37:11.225086 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:37:11.257773 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:37:11.259851 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:37:11.277076 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:37:11.291244 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:37:11.295627 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:37:11.310251 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:37:11.335136 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:37:11.438202 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/residuals_linear.rds
2025-10-17 20:37:11.472231 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/fitted_linear.rds
2025-10-17 20:37:11.505451 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/residuals_logistic.rds
2025-10-17 20:37:11.684843 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75b2131e/fits/fitted_logistic.rds
2025-10-17 20:37:20.000989 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:37:20.02866 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:37:20.055682 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:37:20.063737 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:37:20.076313 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:37:20.10368 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:37:20.105796 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:37:20.11012 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:37:20.145499 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:37:20.147736 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:37:20.166628 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:37:20.181307 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:37:20.185632 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:37:20.199664 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:37:20.223924 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:37:24.825601 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:37:24.852816 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:37:24.879256 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:37:24.887025 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:37:24.899077 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:37:24.925941 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:37:24.928209 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:37:24.93241 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:37:24.964382 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:37:24.966468 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:37:24.983098 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:37:24.997298 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:37:25.001498 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:37:25.014802 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:37:25.037455 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:37:34.769349 WARNING::Fitting problem for feature 124 returning NA
2025-10-17 20:37:38.081286 WARNING::Fitting problem for feature 124 returning NA
2025-10-17 20:37:47.647825 WARNING::Fitting problem for feature 124 returning NA
2025-10-17 20:37:51.553254 WARNING::Fitting problem for feature 124 returning NA
2025-10-17 20:37:51.764267 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/residuals_linear.rds
2025-10-17 20:37:51.796737 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/fitted_linear.rds
2025-10-17 20:37:51.824011 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/residuals_logistic.rds
2025-10-17 20:37:51.865507 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/fitted_logistic.rds
2025-10-17 20:38:00.742111 WARNING::Fitting problem for feature 124 returning NA
2025-10-17 20:38:02.884167 WARNING::Fitting problem for feature 124 returning NA
2025-10-17 20:38:03.011775 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/residuals_linear.rds
2025-10-17 20:38:03.04505 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/fitted_linear.rds
2025-10-17 20:38:03.067659 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/residuals_logistic.rds
2025-10-17 20:38:03.108546 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/fitted_logistic.rds
2025-10-17 20:38:10.635728 WARNING::Fitting problem for feature 124 returning NA
2025-10-17 20:38:13.383771 WARNING::Fitting problem for feature 124 returning NA
2025-10-17 20:38:13.491503 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/residuals_linear.rds
2025-10-17 20:38:13.525834 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/fitted_linear.rds
2025-10-17 20:38:13.548227 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/residuals_logistic.rds
2025-10-17 20:38:13.588573 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/fitted_logistic.rds
2025-10-17 20:38:20.728006 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:38:20.7562 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:38:20.783597 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:38:20.792131 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:38:20.805011 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:38:20.832631 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:38:20.83474 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:38:20.839078 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:38:20.873472 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:38:20.875569 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:38:20.893276 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:38:20.907631 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:38:20.912105 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:38:20.92648 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:38:20.974268 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:38:26.036693 WARNING::Fitting problem for feature 50 returning NA
2025-10-17 20:38:26.068428 WARNING::Fitting problem for feature 62 returning NA
2025-10-17 20:38:26.095323 WARNING::Fitting problem for feature 74 returning NA
2025-10-17 20:38:26.102993 WARNING::Fitting problem for feature 78 returning NA
2025-10-17 20:38:26.115023 WARNING::Fitting problem for feature 84 returning NA
2025-10-17 20:38:26.14161 WARNING::Fitting problem for feature 96 returning NA
2025-10-17 20:38:26.145182 WARNING::Fitting problem for feature 97 returning NA
2025-10-17 20:38:26.149988 WARNING::Fitting problem for feature 99 returning NA
2025-10-17 20:38:26.182534 WARNING::Fitting problem for feature 114 returning NA
2025-10-17 20:38:26.184584 WARNING::Fitting problem for feature 115 returning NA
2025-10-17 20:38:26.201277 WARNING::Fitting problem for feature 123 returning NA
2025-10-17 20:38:26.214874 WARNING::Fitting problem for feature 130 returning NA
2025-10-17 20:38:26.219146 WARNING::Fitting problem for feature 132 returning NA
2025-10-17 20:38:26.232802 WARNING::Fitting problem for feature 139 returning NA
2025-10-17 20:38:26.258208 WARNING::Fitting problem for feature 150 returning NA
2025-10-17 20:38:26.351356 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/residuals_linear.rds
2025-10-17 20:38:26.385436 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/fitted_linear.rds
2025-10-17 20:38:26.420322 WARNING::Deleting existing residuals file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/residuals_logistic.rds
2025-10-17 20:38:26.596774 WARNING::Deleting existing fitted file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728b55d85/fits/fitted_logistic.rds
2025-10-17 20:38:34.533028 ERROR::Please select a normalization from the list of available options : TSS, CLR, NONE
2025-10-17 20:38:34.539202 ERROR::Please select a transform from the list of available options : LOG, PLOG, NONE
2025-10-17 20:38:34.543439 ERROR::Please select a correction method from the list of available options : BH, holm, hochberg, hommel, bonferroni, BY
2025-10-17 20:38:34.562739 ERROR::No fixed, group, or
ordered effects included in formula.
2025-10-17 20:38:34.569247 ERROR::Effect name not found in metadata: d
2025-10-17 20:38:34.573484 ERROR::No user formula provided
2025-10-17 20:38:34.584205 ERROR::Effect name not found in metadata so not applied to formula as random effect: d
2025-10-17 20:38:34.589014 ERROR::No fixed/group/ordered/
feature-specific effects provided.
2025-10-17 20:38:35.641735 INFO::Writing function arguments to log file
2025-10-17 20:38:35.647238 INFO::Verifying options selected are valid
2025-10-17 20:38:36.533406 INFO::Writing function arguments to log file
2025-10-17 20:38:36.537898 INFO::Verifying options selected are valid
2025-10-17 20:38:36.538274 INFO::Determining format of input files
2025-10-17 20:38:36.538581 INFO::Input format is data samples as rows and metadata samples as rows
2025-10-17 20:38:36.539378 INFO::Running selected normalization method: TSS
2025-10-17 20:38:36.539913 INFO::Creating output feature tables folder
2025-10-17 20:38:36.540308 INFO::Writing normalized data to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/features/data_norm.tsv
2025-10-17 20:38:36.540915 INFO::Filter data based on min abundance, min prevalence, and max prevalence
2025-10-17 20:38:36.54123 INFO::Total samples in data: 16
2025-10-17 20:38:36.541525 INFO::Min samples required with min abundance for a feature not to be filtered: 0.000000
2025-10-17 20:38:36.541815 INFO::Max samples allowed with min abundance for a feature not to be filtered: 16.160000
2025-10-17 20:38:36.542441 INFO::Total filtered features: 0
2025-10-17 20:38:36.54277 INFO::Filtered feature names from abundance, min prevalence, and max prevalence filtering:
2025-10-17 20:38:36.543149 INFO::Total features filtered by non-zero variance filtering: 0
2025-10-17 20:38:36.543454 INFO::Filtered feature names from variance filtering:
2025-10-17 20:38:36.543751 INFO::Writing filtered data to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/features/filtered_data.tsv
2025-10-17 20:38:36.544296 INFO::Running selected transform method: LOG
2025-10-17 20:38:36.544682 INFO::Writing normalized, filtered, transformed data to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/features/data_transformed.tsv
2025-10-17 20:38:36.545297 INFO::Applying z-score to standardize continuous metadata
2025-10-17 20:38:36.547227 INFO::Running the linear model component
2025-10-17 20:38:36.552269 INFO::Fitting model to feature number 1, a
2025-10-17 20:38:36.55375 INFO::Fitting model to feature number 2, b
2025-10-17 20:38:36.555037 INFO::Fitting model to feature number 3, c
2025-10-17 20:38:36.557392 INFO::Counting total values for each feature
2025-10-17 20:38:36.558076 INFO::Running the logistic model component
2025-10-17 20:38:36.563161 INFO::Fitting model to feature number 1, a
2025-10-17 20:38:36.565686 INFO::Fitting model to feature number 2, b
2025-10-17 20:38:36.567901 INFO::Fitting model to feature number 3, c
2025-10-17 20:38:36.571425 INFO::Counting total values for each feature
2025-10-17 20:38:36.572352 INFO::Re-running abundances for warn_prevalence
2025-10-17 20:38:36.572801 INFO::Running selected normalization method: TSS
2025-10-17 20:38:36.573392 INFO::Running selected transform method: LOG
2025-10-17 20:38:36.578888 INFO::Fitting model to feature number 1, a
2025-10-17 20:38:36.580694 INFO::Fitting model to feature number 2, b
2025-10-17 20:38:36.582287 INFO::Fitting model to feature number 3, c
2025-10-17 20:38:36.610254 INFO::Creating fits folder
2025-10-17 20:38:36.610871 INFO::Writing residuals to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/fits/residuals_linear.rds
2025-10-17 20:38:36.61142 INFO::Writing fitted values to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/fits/fitted_linear.rds
2025-10-17 20:38:36.611907 INFO::Writing residuals to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/fits/residuals_logistic.rds
2025-10-17 20:38:36.612402 INFO::Writing fitted values to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/fits/fitted_logistic.rds
2025-10-17 20:38:36.613451 INFO::Writing all the results to file (ordered
by increasing individual q-values): /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/all_results.tsv
2025-10-17 20:38:36.614189 INFO::Writing the significant results without errors (those which have joint q-values less than or equal to the threshold of 0.100000 ) to file (ordered by increasing individual q-values): /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/significant_results.tsv
2025-10-17 20:38:36.614731 INFO::Creating output figures folder
2025-10-17 20:38:36.615244 INFO::Writing summary plot of significant
results to file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/figures/summary_plot.pdf
2025-10-17 20:38:37.229738 INFO::Writing association plots (one for each significant association) to output folder: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/figures
2025-10-17 20:38:37.230542 INFO::Plotting associations from most to least significant, grouped by metadata
2025-10-17 20:38:37.232601 INFO::Creating boxplot for continuous data (logistic), var1 vs a
2025-10-17 20:38:37.445075 INFO::Writing summary plot of
significant results to file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/figures/summary_plot.pdf
2025-10-17 20:38:38.044203 INFO::Writing association plots (one for each significant association) to output folder: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc728916fc/figures
2025-10-17 20:38:38.044771 INFO::Plotting associations from most to least significant, grouped by metadata
2025-10-17 20:38:38.04655 INFO::Creating boxplot for continuous data (logistic), var1 vs a
2025-10-17 20:38:38.247623 INFO::Running the linear model component
2025-10-17 20:38:38.250517 INFO::Fitting model to feature number 1, a
2025-10-17 20:38:38.252042 INFO::Fitting model to feature number 2, b
2025-10-17 20:38:38.253295 INFO::Fitting model to feature number 3, c
2025-10-17 20:38:38.255675 INFO::Counting total values for each feature
2025-10-17 20:38:38.256225 INFO::Running the logistic model component
2025-10-17 20:38:38.258824 INFO::Fitting model to feature number 1, a
2025-10-17 20:38:38.260955 INFO::Fitting model to feature number 2, b
2025-10-17 20:38:38.262878 INFO::Fitting model to feature number 3, c
2025-10-17 20:38:38.266064 INFO::Counting total values for each feature
2025-10-17 20:38:38.266792 INFO::Re-running abundances for warn_prevalence
2025-10-17 20:38:38.267041 INFO::Running selected normalization method: TSS
2025-10-17 20:38:38.267488 INFO::Running selected transform method: LOG
2025-10-17 20:38:38.270298 INFO::Fitting model to feature number 1, a
2025-10-17 20:38:38.271805 INFO::Fitting model to feature number 2, b
2025-10-17 20:38:38.273106 INFO::Fitting model to feature number 3, c
2025-10-17 20:38:38.304624 INFO::Creating output folder
2025-10-17 20:38:38.305138 INFO::Creating output figures folder
2025-10-17 20:38:38.305614 INFO::Writing summary plot of significant
results to file: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc731b44044/figures/summary_plot.pdf
2025-10-17 20:38:38.909201 INFO::Writing association plots (one for each significant association) to output folder: /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc731b44044/figures
2025-10-17 20:38:38.909933 INFO::Plotting associations from most to least significant, grouped by metadata
2025-10-17 20:38:38.912192 INFO::Creating boxplot for continuous data (logistic), var1 vs a
2025-10-17 20:38:39.309759 INFO::Applying z-score to standardize continuous metadata
2025-10-17 20:38:39.312356 INFO::Factor detected for categorial metadata 'c'. Using as-is.
2025-10-17 20:38:39.312621 INFO::Bypass z-score application to metadata
2025-10-17 20:38:39.313349 INFO::Bypass z-score application to metadata
2025-10-17 20:38:39.319744 INFO::Determining format of input files
2025-10-17 20:38:39.320057 INFO::Input format is data samples as rows and metadata samples as rows
2025-10-17 20:38:39.320304 INFO::Input format is data samples as rows and feature_specific_covariate samples as rows
2025-10-17 20:38:39.322469 INFO::Determining format of input files
2025-10-17 20:38:39.322805 INFO::Input format is data samples as columns and metadata samples as rows
2025-10-17 20:38:39.32318 INFO::Input format is feature_specific_covariate samples as columns
2025-10-17 20:38:39.325589 INFO::Determining format of input files
2025-10-17 20:38:39.325885 INFO::Input format is data samples as rows and metadata samples as rows
2025-10-17 20:38:39.326185 INFO::Input format is feature_specific_covariate samples as columns
2025-10-17 20:38:39.326638 INFO::The following samples were found to have metadata but no features (or feature specific covariates if applicable). They will be removed. sample1
2025-10-17 20:38:39.32685 INFO::The following samples were found to have feature specific covariates but no features or no metadata. They will be removed. sample1
2025-10-17 20:38:39.330336 INFO::Running selected transform method: LOG
2025-10-17 20:38:39.330678 INFO::Creating output feature tables folder
2025-10-17 20:38:39.331044 INFO::Writing normalized, filtered, transformed data to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75322aca9/features/data_transformed.tsv
2025-10-17 20:38:39.332363 INFO::Running selected transform method: LOG
2025-10-17 20:38:39.332691 INFO::Writing normalized, filtered, transformed data to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75322aca9/features/data_transformed.tsv
2025-10-17 20:38:39.33383 INFO::Running selected transform method: PLOG
2025-10-17 20:38:39.334303 INFO::Writing normalized, filtered, transformed data to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75322aca9/features/data_transformed.tsv
2025-10-17 20:38:39.335199 INFO::Running selected transform method: NONE
2025-10-17 20:38:39.335433 INFO::Writing normalized, filtered, transformed data to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc75322aca9/features/data_transformed.tsv
2025-10-17 20:38:39.338058 INFO::Running the linear model component
2025-10-17 20:38:39.340653 INFO::Fitting model to feature number 1, a
2025-10-17 20:38:39.342063 INFO::Fitting model to feature number 2, b
2025-10-17 20:38:39.343322 INFO::Fitting model to feature number 3, c
2025-10-17 20:38:39.345595 INFO::Counting total values for each feature
2025-10-17 20:38:39.346129 INFO::Running the logistic model component
2025-10-17 20:38:39.348646 INFO::Fitting model to feature number 1, a
2025-10-17 20:38:39.350551 INFO::Fitting model to feature number 2, b
2025-10-17 20:38:39.352276 INFO::Fitting model to feature number 3, c
2025-10-17 20:38:39.354985 INFO::Counting total values for each feature
2025-10-17 20:38:39.355661 INFO::Re-running abundances for warn_prevalence
2025-10-17 20:38:39.355897 INFO::Running selected normalization method: TSS
2025-10-17 20:38:39.356318 INFO::Running selected transform method: LOG
2025-10-17 20:38:39.358919 INFO::Fitting model to feature number 1, a
2025-10-17 20:38:39.360262 INFO::Fitting model to feature number 2, b
2025-10-17 20:38:39.368375 INFO::Fitting model to feature number 3, c
2025-10-17 20:38:39.398686 INFO::Creating output folder
2025-10-17 20:38:39.399139 INFO::Creating fits folder
2025-10-17 20:38:39.399446 INFO::Writing residuals to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc7975b5e3/fits/residuals_linear.rds
2025-10-17 20:38:39.399866 INFO::Writing fitted values to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc7975b5e3/fits/fitted_linear.rds
2025-10-17 20:38:39.40022 INFO::Writing residuals to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc7975b5e3/fits/residuals_logistic.rds
2025-10-17 20:38:39.400589 INFO::Writing fitted values to file /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc7975b5e3/fits/fitted_logistic.rds
2025-10-17 20:38:39.401455 INFO::Writing all the results to file (ordered
by increasing individual q-values): /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc7975b5e3/all_results.tsv
2025-10-17 20:38:39.402069 INFO::Writing the significant results without errors (those which have joint q-values less than or equal to the threshold of 0.100000 ) to file (ordered by increasing individual q-values): /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T//Rtmp6ftdPx/filefdc7975b5e3/significant_results.tsv
[ FAIL 0 | WARN 16 | SKIP 0 | PASS 95 ]
[ FAIL 0 | WARN 16 | SKIP 0 | PASS 95 ]
>
>
> proc.time()
user system elapsed
137.382 5.112 144.744
maaslin3.Rcheck/maaslin3-Ex.timings
| name | user | system | elapsed | |
| maaslin3 | 8.294 | 0.529 | 8.947 | |
| maaslin_check_arguments | 0.061 | 0.002 | 0.067 | |
| maaslin_check_formula | 0.058 | 0.003 | 0.067 | |
| maaslin_compute_formula | 0.061 | 0.004 | 0.071 | |
| maaslin_contrast_test | 7.222 | 0.660 | 8.053 | |
| maaslin_filter | 0.209 | 0.015 | 0.225 | |
| maaslin_fit | 4.920 | 0.623 | 5.689 | |
| maaslin_log_arguments | 0.056 | 0.004 | 0.059 | |
| maaslin_normalize | 0.127 | 0.016 | 0.147 | |
| maaslin_plot_results | 16.188 | 0.557 | 16.876 | |
| maaslin_plot_results_from_output | 16.228 | 0.669 | 17.290 | |
| maaslin_process_metadata | 0.241 | 0.024 | 0.270 | |
| maaslin_read_data | 0.057 | 0.002 | 0.060 | |
| maaslin_reorder_data | 0.053 | 0.003 | 0.060 | |
| maaslin_transform | 0.270 | 0.022 | 0.294 | |
| maaslin_write_results | 5.423 | 0.494 | 5.946 | |
| maaslin_write_results_lefse_format | 5.773 | 0.556 | 6.356 | |
| preprocess_dna_mtx | 0.002 | 0.000 | 0.001 | |
| preprocess_taxa_mtx | 0.001 | 0.000 | 0.002 | |