Mercurial > repos > iuc > dram_annotate

changeset 1:4058af4457c0 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/dram commit e0934fc66bfd742731505cacd18cbf53b26d4f2a
author iuc
date Tue, 11 Jul 2023 23:46:40 +0000
parents cf3f6929b52c
children 0515750e7b10
files dram_annotate.xml macros.xml
diffstat 2 files changed, 10 insertions(+), 10 deletions(-) [+]
line wrap: on
line diff
--- a/dram_annotate.xml	Sat Dec 10 21:14:46 2022 +0000
+++ b/dram_annotate.xml	Tue Jul 11 23:46:40 2023 +0000
@@ -1,4 +1,4 @@
-<tool id="dram_annotate" name="DRAM annotate" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
+<tool id="dram_annotate" name="DRAM annotate" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@">
     <description>metagenome-assembled-genomes (MAGs)</description>
     <macros>
         <import>macros.xml</import>
@@ -41,14 +41,14 @@
 $low_mem_mode
 $skip_trnascan
 --threads \${GALAXY_SLOTS:-10}
-&& test -f 'output_dir/genes.faa' && mv 'output_dir/genes.faa' '$output_genes_faa' || echo 'No genes.faa output produced'
-&& test -f 'output_dir/genes.fna' && mv 'output_dir/genes.fna' '$output_genes_fna' || echo 'No genes.fna output produced'
-&& test -f 'output_dir/genes.gff' && mv 'output_dir/genes.gff' '$output_genes_gff' || echo 'No genes.gff output produced'
-&& test -f 'output_dir/scaffolds.fna' && mv 'output_dir/scaffolds.fna' '$output_scaffolds_fna' || echo 'No scaffolds.fna output produced'
-&& test -f 'output_dir/rrnas.tsv' && mv 'output_dir/rrnas.tsv' '$output_rrnas' || echo 'No rrnas.tsv output produced'
-&& test -f 'output_dir/trnas.tsv' && mv 'output_dir/trnas.tsv' '$output_trnas' || echo 'No trnas.tsv output produced'
-&& test -f 'output_dir/genbank/$output_gbk_file_name' && mv 'output_dir/genbank/$output_gbk_file_name' '$output_genbank' || echo 'No genbank output produced'
-&& test -f 'output_dir/annotations.tsv' && mv 'output_dir/annotations.tsv' '$output_annotations' || echo 'No annotations.tsv output produced'
+&& (test -f 'output_dir/genes.faa' && mv 'output_dir/genes.faa' '$output_genes_faa' || echo 'No genes.faa output produced')
+&& (test -f 'output_dir/genes.fna' && mv 'output_dir/genes.fna' '$output_genes_fna' || echo 'No genes.fna output produced')
+&& (test -f 'output_dir/genes.gff' && mv 'output_dir/genes.gff' '$output_genes_gff' || echo 'No genes.gff output produced')
+&& (test -f 'output_dir/scaffolds.fna' && mv 'output_dir/scaffolds.fna' '$output_scaffolds_fna' || echo 'No scaffolds.fna output produced')
+&& (test -f 'output_dir/rrnas.tsv' && mv 'output_dir/rrnas.tsv' '$output_rrnas' || echo 'No rrnas.tsv output produced')
+&& (test -f 'output_dir/trnas.tsv' && mv 'output_dir/trnas.tsv' '$output_trnas' || echo 'No trnas.tsv output produced')
+&& (test -f 'output_dir/genbank/$output_gbk_file_name' && mv 'output_dir/genbank/$output_gbk_file_name' '$output_genbank' || echo 'No genbank output produced')
+&& (test -f 'output_dir/annotations.tsv' && mv 'output_dir/annotations.tsv' '$output_annotations' || echo 'No annotations.tsv output produced')
     ]]></command>
     <inputs>
         <param argument="--input_fasta" type="data" format="fasta,fasta.gz" label="FASTA file"/>
--- a/macros.xml	Sat Dec 10 21:14:46 2022 +0000
+++ b/macros.xml	Tue Jul 11 23:46:40 2023 +0000
@@ -1,6 +1,6 @@
 <macros>
     <token name="@TOOL_VERSION@">1.3.5</token>
-    <token name="@VERSION_SUFFIX@">0</token>
+    <!-- token name="@VERSION_SUFFIX@">0</token -->
     <token name="@PROFILE@">20.09</token>
     <xml name="requirements">
         <requirements>