Mercurial > repos > dfornika > ncbi_acc_download

changeset 26:8c604b5b286c draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_acc_download commit 92e900f2e63812885018aeaede2e67fbb5fcdddc-dirty"
author dfornika
date Fri, 29 Nov 2019 23:10:23 +0000
parents b46209a9771c
children 6d0001ef4067
files ncbi_acc_download.xml
diffstat 1 files changed, 2 insertions(+), 2 deletions(-) [+]
line wrap: on
line diff
--- a/ncbi_acc_download.xml	Fri Nov 29 23:06:37 2019 +0000
+++ b/ncbi_acc_download.xml	Fri Nov 29 23:10:23 2019 +0000
@@ -14,7 +14,7 @@
         #end if
         mkdir outdir &&
         cd outdir &&
-        for accession in \$(cat accessions); do
+        for accession in \$(cat ../accessions); do
         sleep 2 &&
         echo "Downloading accession number: " \$accession &&
         ncbi-acc-download
@@ -23,7 +23,7 @@
             #if $molecule.format != 'featuretable' and $molecule.format != 'gff3':
                 --extended-validation all
             #end if
-            \${accession}
+            \${accession};
         done 2> >(tee -a ../error.log >&2)
     ]]></command>
     <inputs>