Mercurial > repos > dfornika > ncbi_acc_download

changeset 16:fad041840a03 draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ncbi_acc_download commit 44804f76d39f67ab7e11628daa4562fb8616425c-dirty"
author dfornika
date Thu, 28 Nov 2019 22:23:23 +0000
parents a400f226e85a
children 328a48cec6d3
files ncbi_acc_download.xml
diffstat 1 files changed, 4 insertions(+), 4 deletions(-) [+]
line wrap: on
line diff
--- a/ncbi_acc_download.xml	Thu Nov 28 21:41:18 2019 +0000
+++ b/ncbi_acc_download.xml	Thu Nov 28 22:23:23 2019 +0000
@@ -20,7 +20,7 @@
             --format '${molecule.format}'
             --extended-validation all
             \${accession} && sleep 5;
-        done < ../accessions 2>> ../error.log
+        done < ../accessions 2> >(tee -a ../error.log >&2)
     ]]></command>
     <inputs>
         <conditional name="query_source">
@@ -29,7 +29,7 @@
                 <option value="accession_list">Direct Entry</option>
             </param>
             <when value="accession_file">
-                <param label="Accession File" name="accession_file" type="data" format="text,tabular"/>
+                <param label="Accession File" name="accession_file" type="data" format="txt,tabular"/>
             </when>
             <when value="accession_list">
                 <param label="ID List" name="accession_list" type="text" area="true" help="Newline/Comma separated list of IDs"/>
@@ -141,12 +141,12 @@
                 <param name="accession_file" value="accessions_1.tsv"/>
             </conditional>
             <output_collection name="output" type="list">
-                <element name="CP011064" ftype="text">
+                <element name="CP011064" ftype="txt">
                     <assert_contents>
                         <has_line line=">Feature gb|CP011064.1|" />
                     </assert_contents>
                 </element>
-                <element name="CP021680" ftype="text">
+                <element name="CP021680" ftype="txt">
                     <assert_contents>
                         <has_line line=">Feature gb|CP021680.1|" />
                     </assert_contents>