Mercurial > repos > mingchen0919 > rmarkdown_bdss_client

diff bdss_client.Rmd @ 23:fd15cf620d5d draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_bdss_client commit 3d2a2c46f10b7f00a36771d2a0fc334d2c177730-dirty
author mingchen0919
date Sun, 15 Oct 2017 00:50:10 -0400
parents a709a705ce09
children a1c0ebd05f2f
line wrap: on
line diff
--- a/bdss_client.Rmd	Sat Oct 14 22:59:06 2017 -0400
+++ b/bdss_client.Rmd	Sun Oct 15 00:50:10 2017 -0400
@@ -41,7 +41,7 @@
 # loop through SRA accessions to download and extract reads.
 for(url in urls) {
     print(url)
-    bdss_command = paste0('/tool_deps/_conda/bin/bdss transfer --destination read_files_directory -u ', url)
+    bdss_command = paste0('/main/sites/galaxy/galaxy/tools/_conda/bin/bdss transfer --destination read_files_directory -u ', url)
     print(bdss_command)
     print(system(bdss_command, intern = TRUE))
 }