comparison fastq_dump_se_render.R @ 4:c9b56151f112 draft

planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastq_dump commit c9517f0b061cdca3b79678d9a2620e1e43115d42-dirty

3:dce9200ef1b7

#         substitute variables with user input values and place them in the working directory.

#----- 01 fastq_dump_se.Rmd -----------------------
readLines(opt$fastq_dump_se_rmd) %>%
  (function(x) {
    gsub('SRA_ACCESSION', opt$file_list, x)
  }) %>%
  (function(x) {
    gsub('ECHO', opt$echo, x)
  }) %>%
  (function(x) {

4:c9b56151f112

#         substitute variables with user input values and place them in the working directory.

#----- 01 fastq_dump_se.Rmd -----------------------
readLines(opt$fastq_dump_se_rmd) %>%
  (function(x) {
    gsub('SRA_ACCESSION', opt$sra_accession, x)
  }) %>%
  (function(x) {
    gsub('ECHO', opt$echo, x)
  }) %>%
  (function(x) {