Mercurial > repos > mingchen0919 > rmarkdown_fastq_dump

diff fastq_dump_se_render.R @ 4:c9b56151f112 draft

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planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastq_dump commit c9517f0b061cdca3b79678d9a2620e1e43115d42-dirty
author mingchen0919
date Wed, 27 Sep 2017 11:10:59 -0400
parents 7ec600e7dba7
children 4c84d748da08
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--- a/fastq_dump_se_render.R	Wed Sep 27 10:36:39 2017 -0400
+++ b/fastq_dump_se_render.R	Wed Sep 27 11:10:59 2017 -0400
@@ -59,7 +59,7 @@
 #----- 01 fastq_dump_se.Rmd -----------------------
 readLines(opt$fastq_dump_se_rmd) %>%
   (function(x) {
-    gsub('SRA_ACCESSION', opt$file_list, x)
+    gsub('SRA_ACCESSION', opt$sra_accession, x)
   }) %>%
   (function(x) {
     gsub('ECHO', opt$echo, x)