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When I run the script I get the error CMD: R --vanilla #41

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sundongfang opened this issue Jan 27, 2022 · 1 comment
Open

When I run the script I get the error CMD: R --vanilla #41

sundongfang opened this issue Jan 27, 2022 · 1 comment

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@sundongfang
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I always get an error when I use scripts to process data with differential expressions
CMD: R --vanilla -q < genes1.counts.matrix.F2n_vs_M2n.DESeq2.Rscript
sh: R: command not found
Error, cmd: R --vanilla -q < genes1.counts.matrix.F2n_vs_M2n.DESeq2.Rscript died with ret (32512) at /public/home/sundf/miniconda3/opt/trinity-2.1.1/Analysis/DifferentialExpression/run_DE_analysis.pl line 712.
@R-Eatch
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R-Eatch commented Sep 12, 2023

Reconstructing an R environment with conda can solve this problem, although it is a bit awkward

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@sundongfang @R-Eatch