Mercurial > repos > mingchen0919 > rmarkdown_collection_builder
view collection_list.Rmd @ 3:cb6efa0f0cb6 draft
planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_collection_builder commit 93b036c66fd754a7af459fa80d3f7f143a68477b-dirty
author | mingchen0919 |
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date | Mon, 25 Sep 2017 16:33:54 -0400 |
parents | 6be61cb4a1d5 |
children | 63e9500cdeec |
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--- title: 'Collection builder (collection type: list)' output: html_document: number_sections: true toc: true theme: cosmo highlight: tango --- ```{r setup, include=FALSE, warning=FALSE, message=FALSE} knitr::opts_chunk$set( echo = ECHO ) ``` # Command line arguments ```{r 'command line arguments'} str(opt) ``` ```{r 'rename files'} # create directory dir.create('./files_directory') # get full paths of original files from_files = strsplit("FILE_LIST", ',')[[1]] # copy files to the created directory. file.copy(from_files, './files_directory') # get original file names original_files = list.files('./files_directory') # create new files names from original file names new_files = gsub('\\.dat', '\\.FORMAT', original_files) # rename files file.copy(paste0('./files_directory/', original_files), paste0('./files_directory/', new_files)) ``` # End ```{r 'test'} ls() ```