Mercurial > repos > mandorodriguez > fastqdump_paired

changeset 8:daebdda744fc draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author mandorodriguez
date Thu, 10 Mar 2016 12:23:29 -0500
parents dbee556cf940
children f21bcc7ffacf
files fastq_dump_paired.xml
diffstat 1 files changed, 3 insertions(+), 1 deletions(-) [+]
line wrap: on
line diff
--- a/fastq_dump_paired.xml	Thu Jan 21 12:56:46 2016 -0500
+++ b/fastq_dump_paired.xml	Thu Mar 10 12:23:29 2016 -0500
@@ -1,4 +1,4 @@
-<tool id="fastq_dump_paired" name="FASTQ Dump paired downloader" version="1.1.3">
+<tool id="fastq_dump_paired" name="FASTQ Dump paired downloader" version="1.1.4">
     <description>Downloads a set of paired reads by their accession number using fastq-dump tool from sra-toolkit.</description>
     <requirements>
        <!-- Should just use the samtools that's installed in the path -->
@@ -12,6 +12,8 @@
 ls -lh | grep ${accession_number};
 mv -v ${accession_number}_1.fastq R1.fastq;
 mv -v ${accession_number}_2.fastq R2.fastq;
+echo "Deleting any stored files in ~/ncbi";
+rm -rf ~/ncbi/*
     </command>
     <inputs>
         <param name="accession_number" size="10" type="text" value="" label="Accession Number"/>