* using log directory ‘/srv/hornik/tmp/CRAN_pretest/lionfish.Rcheck’ * using R Under development (unstable) (2025-03-11 r87944) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 19.1.7 (1+b1) Debian flang-new version 19.1.7 (1+b1) * running under: Debian GNU/Linux trixie/sid * using session charset: UTF-8 * checking for file ‘lionfish/DESCRIPTION’ ... OK * this is package ‘lionfish’ version ‘1.0.25’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [4s/5s] NOTE Maintainer: ‘Matthias Medl ’ New submission Possibly misspelled words in DESCRIPTION: Wickham (12:14) al (12:26) et (12:22) * 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 executable files ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘lionfish’ can be installed ... [1s/1s] OK * checking package directory ... OK * checking for future file timestamps ... 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 ... [0s/0s] OK * checking whether the package can be loaded with stated dependencies ... [0s/0s] OK * checking whether the package can be unloaded cleanly ... [0s/0s] OK * checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK * checking whether the namespace can be unloaded cleanly ... [0s/0s] OK * checking loading without being on the library search path ... [0s/0s] OK * checking use of S3 registration ... 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 ... [2s/2s] OK * checking Rd files ... [0s/0s] OK * checking Rd metadata ... OK * checking Rd line widths ... 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 ... [0s/0s] OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking installed files from ‘inst/doc’ ... OK * checking files in ‘vignettes’ ... OK * checking examples ... [1s/1s] ERROR Running examples in ‘lionfish-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: check_env > ### Title: Check Whether 'python' Environment Exists > ### Aliases: check_env > > ### ** Examples > > check_env(env_name="r-lionfish") Error: Unable to find conda binary. Is Anaconda installed? Execution halted * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... [13s/13s] ERROR Error(s) in re-building vignettes: ... --- re-building ‘Bioprocess-Optimization.Rmd’ using knitr Quitting from lines 140-143 [unnamed-chunk-6] (Bioprocess-Optimization.Rmd) Error: processing vignette 'Bioprocess-Optimization.Rmd' failed with diagnostics: Unable to find conda binary. Is Anaconda installed? --- failed re-building ‘Bioprocess-Optimization.Rmd’ --- re-building ‘General-interactivity.Rmd’ using knitr Quitting from lines 40-48 [setup] (General-interactivity.Rmd) Error: processing vignette 'General-interactivity.Rmd' failed with diagnostics: Unable to find conda binary. Is Anaconda installed? --- failed re-building ‘General-interactivity.Rmd’ --- re-building ‘Market-segmentation.Rmd’ using knitr ** Processing: figure/intro figure 1-1.png 504x504 pixels, 8 bits/pixel, 238 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 13078 bytes Input file size = 13894 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 12003 zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 11985 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 11985 Output IDAT size = 11985 bytes (1093 bytes decrease) Output file size = 12063 bytes (1831 bytes = 13.18% decrease) ** Processing: figure/intro figure 2-1.png 504x504 pixels, 8 bits/pixel, 249 colors in palette Input IDAT size = 6969 bytes Input file size = 7806 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6160 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 6160 Output IDAT size = 6160 bytes (809 bytes decrease) Output file size = 6997 bytes (809 bytes = 10.36% decrease) ** Processing: figure/intro figure 3-1.png 504x504 pixels, 3x8 bits/pixel, RGB Input IDAT size = 37713 bytes Input file size = 37839 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 26646 zc = 9 zm = 8 zs = 1 f = 0 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 26646 Output IDAT size = 26646 bytes (11067 bytes decrease) Output file size = 26724 bytes (11115 bytes = 29.37% decrease) ** Processing: figure/figure 5-1.png 504x504 pixels, 8 bits/pixel, 256 colors in palette Reducing image to 8 bits/pixel, grayscale Input IDAT size = 21207 bytes Input file size = 22089 bytes Trying: zc = 9 zm = 8 zs = 0 f = 0 IDAT size = 18964 zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 18802 zc = 1 zm = 8 zs = 2 f = 0 zc = 9 zm = 8 zs = 3 f = 0 zc = 9 zm = 8 zs = 0 f = 5 zc = 9 zm = 8 zs = 1 f = 5 zc = 1 zm = 8 zs = 2 f = 5 zc = 9 zm = 8 zs = 3 f = 5 Selecting parameters: zc = 9 zm = 8 zs = 1 f = 0 IDAT size = 18802 Output IDAT size = 18802 bytes (2405 bytes decrease) Output file size = 18880 bytes (3209 bytes = 14.53% decrease) Quitting from lines 411-444 [figure 6] (Market-segmentation.Rmd) Error: processing vignette 'Market-segmentation.Rmd' failed with diagnostics: Unable to find conda binary. Is Anaconda installed? --- failed re-building ‘Market-segmentation.Rmd’ --- re-building ‘Plot-objects.Rmd’ using knitr Quitting from lines 287-301 [interactive_tour flea] (Plot-objects.Rmd) Error: processing vignette 'Plot-objects.Rmd' failed with diagnostics: Unable to find conda binary. Is Anaconda installed? --- failed re-building ‘Plot-objects.Rmd’ SUMMARY: processing the following files failed: ‘Bioprocess-Optimization.Rmd’ ‘General-interactivity.Rmd’ ‘Market-segmentation.Rmd’ ‘Plot-objects.Rmd’ Error: Vignette re-building failed. Execution halted * checking PDF version of manual ... [3s/3s] OK * checking HTML version of manual ... [0s/0s] OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 2 ERRORs, 1 NOTE