diff tools/effectiveT3/effectiveT3.xml @ 10:a46d7861c32c draft

"Update all the pico_galaxy tools on main Tool Shed"

--- a/tools/effectiveT3/effectiveT3.xml	Tue May 16 09:17:17 2017 -0400
+++ b/tools/effectiveT3/effectiveT3.xml	Fri Apr 16 22:34:56 2021 +0000
@@ -1,4 +1,4 @@
-<tool id="effectiveT3" name="Effective T3" version="0.0.18">
+<tool id="effectiveT3" name="Effective T3" version="0.0.20">
     <description>Find bacterial effectors in protein sequences</description>
     <requirements>
         <requirement type="package" version="1.0.1">effectiveT3</requirement>
@@ -16,7 +16,7 @@
 '$fasta_file' '$tabular_file'
     </command>
     <inputs>
-        <param name="fasta_file" type="data" format="fasta" label="FASTA file of protein sequences"/> 
+        <param name="fasta_file" type="data" format="fasta" label="FASTA file of protein sequences"/>
         <param name="module" type="select" display="radio" label="Classification module">
             <options from_file="effectiveT3.loc">
                 <column name="value" index="0"/>
@@ -62,7 +62,7 @@
         </test>
     </tests>
     <help>
-    
+
 **What it does**
 
 This calls the command line Effective T3 v1.0.1 tool for prediction of bacterial effector proteins.
@@ -87,17 +87,17 @@
 Peter J.A. Cock, Björn A. Grüning, Konrad Paszkiewicz and Leighton Pritchard (2013).
 Galaxy tools and workflows for sequence analysis with applications
 in molecular plant pathology. PeerJ 1:e167
-http://dx.doi.org/10.7717/peerj.167
+https://doi.org/10.7717/peerj.167
 
 Jehl, Arnold and Rattei (2011).
 Effective - a database of predicted secreted bacterial proteins
 Nucleic Acids Research, 39(Database issue), D591-5.
-http://dx.doi.org/10.1093/nar/gkq1154
+https://doi.org/10.1093/nar/gkq1154
 
 Arnold, Brandmaier, Kleine, Tischler, Heinz, Behrens, Niinikoski, Mewes, Horn and Rattei (2009).
 Sequence-based prediction of type III secreted proteins.
 PLoS Pathog. 5(4):e1000376.
-http://dx.doi.org/10.1371/journal.ppat.1000376
+https://doi.org/10.1371/journal.ppat.1000376
 
 See also http://effectors.org/