Mercurial > repos > workflow4metabolomics > xcms_refine
comparison xcms_refine.r @ 1:20f8ebc3a391 draft
planemo upload for repository https://github.com/workflow4metabolomics/tools-metabolomics/ commit 2cb157bd9a8701a3d6874e084032cbd050b8953e
author | workflow4metabolomics |
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date | Mon, 11 Sep 2023 09:19:47 +0000 |
parents | eb115eb8f25c |
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0:eb115eb8f25c | 1:20f8ebc3a391 |
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17 } | 17 } |
18 source_local("lib.r") | 18 source_local("lib.r") |
19 | 19 |
20 pkgs <- c("xcms", "batch", "RColorBrewer") | 20 pkgs <- c("xcms", "batch", "RColorBrewer") |
21 loadAndDisplayPackages(pkgs) | 21 loadAndDisplayPackages(pkgs) |
22 cat("\n\n"); | 22 cat("\n\n") |
23 | 23 |
24 # ----- ARGUMENTS ----- | 24 # ----- ARGUMENTS ----- |
25 cat("\tARGUMENTS INFO\n") | 25 cat("\tARGUMENTS INFO\n") |
26 # interpretation of arguments given in command line as an R list of objects | 26 # interpretation of arguments given in command line as an R list of objects |
27 args <- parseCommandArgs(evaluate = FALSE) | 27 args <- parseCommandArgs(evaluate = FALSE) |
28 write.table(as.matrix(args), col.names = F, quote = F, sep = "\t") | 28 write.table(as.matrix(args), col.names = FALSE, quote = FALSE, sep = "\t") |
29 | 29 |
30 cat("\n\n") | 30 cat("\n\n") |
31 | 31 |
32 # ----- PROCESSING INFILE ----- | 32 # ----- PROCESSING INFILE ----- |
33 cat("\tARGUMENTS PROCESSING INFO\n") | 33 cat("\tARGUMENTS PROCESSING INFO\n") |