thierrygosselin / radiator

RADseq Data Exploration, Manipulation and Visualization using R
https://thierrygosselin.github.io/radiator/
GNU General Public License v3.0
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Error in file(con, "r") : cannot open the connection #170

Closed Glaucidium closed 1 year ago

Glaucidium commented 1 year ago

Hi Thierry I´m having a problem while running radiator::filter_rad and radiator::genomic_converter (the same issue)

################################################################################ ############################# radiator::filter_rad ############################# ################################################################################ Execution date@time: 20230111@1845 Folder created: filter_rad_20230111@1845 Function call and arguments stored in: radiator_filter_rad_args_20230111@1845.tsv File written: random.seed (740211) Filters parameters file generated: filters_parameters_20230111@1845.tsv Error in file(con, "r") : cannot open the connection

Computation time, overall: 3 sec ############################# completed filter_rad #############################

I am using the "sunflower.vcf" you used in the FST comparisson

The script was: data <- radiator::genomic_converter( data = "sunflower.vcf", strata = "sunflower.strata.tsv", output = c("genind", "stockr"), parallel.core = 1, filename = "a" )

devtools::session_info() ─ Session info ──────────────────────────────────────────────────────────────────────────────────────────────── setting value version R version 4.2.2 (2022-10-31 ucrt) os Windows 10 x64 (build 22000) system x86_64, mingw32 ui RStudio language (EN) collate Spanish_Argentina.utf8 ctype Spanish_Argentina.utf8 tz America/Buenos_Aires date 2023-01-11 rstudio 2022.12.0+353 Elsbeth Geranium (desktop) pandoc NA

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[1] C:/Users/mjrod/AppData/Local/R/win-library/4.2 [2] C:/Program Files/R/R-4.2.2/library

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I also open RStudio as admin, same problem.

thierrygosselin commented 1 year ago

@Glaucidium I cannot reproduce the error you're experiencing with newer version I'm working on for the past month.

Try reinstalling radiator with latest version 1.2.5 (will be updated in a few hours) Re-run the command and re-open issue if you are still having problem

Best Thierry