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diff tools/ncbi_blast_plus/ncbi_blastdbcmd_info.xml @ 27:6f8ea4b9a2c4 draft

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"planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/tools/ncbi_blast_plus commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
author peterjc
date Wed, 09 Sep 2020 15:32:17 +0000
parents 6f386c5dc4fb
children
line wrap: on
line diff
--- a/tools/ncbi_blast_plus/ncbi_blastdbcmd_info.xml	Sat Jul 20 18:36:36 2019 -0400
+++ b/tools/ncbi_blast_plus/ncbi_blastdbcmd_info.xml	Wed Sep 09 15:32:17 2020 +0000
@@ -1,4 +1,4 @@
-<tool id="ncbi_blastdbcmd_info" name="NCBI BLAST+ database info" version="@WRAPPER_VERSION@">
+<tool id="ncbi_blastdbcmd_info" name="NCBI BLAST+ database info" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
     <description>Show BLAST database information from blastdbcmd</description>
     <macros>
         <token name="@BINARY@">blastdbcmd</token>
@@ -6,29 +6,36 @@
     </macros>
     <expand macro="preamble" />
     <command detect_errors="aggressive">
-blastdbcmd -dbtype $db_opts.db_type -db "${db_opts.database.fields.path}" -info -out "$info"
+blastdbcmd
+@DBCMD_OPTS@
+-info -out "$info"
     </command>
     <inputs>
         <expand macro="input_conditional_choose_db_type" />
     </inputs>
     <outputs>
-        <data name="info" format="txt" label="${db_opts.database.fields.name} info" />
+        <data name="info" format="txt" label="@ON_DBCMD_OPTS@ info" />
     </outputs>
     <tests>
         <test>
             <param name="db_opts|db_type" value="prot" />
-            <param name="db_opts|database" value="four_human_proteins" />
-            <output name="info" file="four_human_proteins.dbinfo.txt" ftype="txt" lines_diff="4" />
+            <param name="db_opts|db_origin|database" value="four_human_proteins" />
+            <output name="info" file="four_human_proteins.dbinfo.txt" ftype="txt" compare="contains" />
         </test>
         <test>
             <param name="db_opts|db_type" value="nucl" />
-            <param name="db_opts|database" value="three_human_mRNA" />
-            <output name="info" file="three_human_mRNA.dbinfo.txt" ftype="txt" lines_diff="4" />
+            <param name="db_opts|db_origin|database" value="three_human_mRNA" />
+            <output name="info" file="three_human_mRNA.dbinfo.txt" ftype="txt" compare="contains" />
         </test>
         <test>
             <param name="db_opts|db_type" value="nucl" />
-            <param name="db_opts|database" value="rhodopsin_nucs" />
-            <output name="info" file="rhodopsin_nucs.dbinfo.txt" ftype="txt" lines_diff="4" />
+            <param name="db_opts|db_origin|database" value="rhodopsin_nucs" />
+            <output name="info" file="rhodopsin_nucs.dbinfo.txt" ftype="txt" compare="contains" />
+        </test>
+        <test>
+            <param name="db_opts|db_type" value="nucl" />
+            <param name="db_opts|db_origin|database" value="three_human_mRNA,rhodopsin_nucs" />
+            <output name="info" file="three_human_mRNA_and_rhodopsin_nucs.dbinfo.txt" ftype="txt" compare="contains" />
         </test>
     </tests>
     <help>