Mercurial > repos > mingchen0919 > rmarkdown_fastq_dump

diff fastq_dump_pe_render.R @ 21:3c859d094074 draft default tip

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planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/aurora-tools/rmarkdown_fastq_dump commit ffa886b188215708786e3c49877fc08fea60659e
author mingchen0919
date Wed, 04 Apr 2018 10:10:26 -0400
parents 42e154ba2d35
children
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--- a/fastq_dump_pe_render.R	Wed Sep 27 21:38:54 2017 -0400
+++ b/fastq_dump_pe_render.R	Wed Apr 04 10:10:26 2018 -0400
@@ -37,7 +37,6 @@
 spec_list=list()
 spec_list$SRA_ACCESSION = c('sra_accession', 'i', '1', 'character')
 spec_list$FORMAT = c('format', 'f', '1', 'character')
-spec_list$ECHO = c('echo', 'e', '1', 'character')
 ##--------2. output report and outputs --------------
 spec_list$REPORT_HTML = c('report_html', 'r', '1', 'character')
 spec_list$OUTPUT_DIR = c('output_dir', 'd', '1', 'character')
@@ -71,9 +70,6 @@
     gsub('FORMAT', opt$format, x)
   }) %>%
   (function(x) {
-    gsub('ECHO', opt$echo, x)
-  }) %>%
-  (function(x) {
     gsub('OUTPUT_DIR', opt$output_dir, x)
   }) %>%
   (function(x) {