# HG changeset patch
# User p.lucas
# Date 1678380665 0
# Node ID 7f0de5b912b5031095d66a444f1b889db0a8f454
# Parent  e7dd595fb0ddb7f3ce7bcc7db134090acd9a6096
Uploaded 09 03 23 first upload of the wrapper

diff -r e7dd595fb0dd -r 7f0de5b912b5 TAXID_genusexpand_taxid2acc.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/TAXID_genusexpand_taxid2acc.xml	Thu Mar 09 16:51:05 2023 +0000
@@ -0,0 +1,26 @@
+<tool id="TAXID_genusexpand_taxid2acc" name="Get acc number for complete genome after MEGABLAST_TAB_select_acc_under_taxids" version="1">
+  <description>
+    From a taxid and acc number file of results (output of MEGABLAST_TAB_select_acc_under_taxids.py) 
+    provide 1 file:
+      - file with all acc numbers for complete genomes
+  </description>
+  <requirements>
+    <requirement type="package" version="3.9.16">python</requirement>
+    <requirement type="package" version="3.1.2">ete3</requirement>
+    <requirement type="package" version="3.0.0">ete_toolchain</requirement>
+    <requirement type="package" version="0.3.1">ncbi-genome-download</requirement>
+  </requirements>
+  <command detect_errors="exit_code"><![CDATA[
+    python '$__tool_directory__/TAXID_genusexpand_taxid2acc' -i ${input} -o ${output}
+  ]]></command>
+  <inputs>
+    <param name="input" format="tsv" type="data" label="Select tsv file with list of taxid and accession number." help="tsv output of MEGABLAST_TAB_select_acc_under_taxids.py (One taxid acc nbr per line)"/>
+  </inputs> 
+  <outputs>
+    <data name="output" format="txt" label="COMPLETE GENOME FROM ${tool.name} on ${on_string}"/>
+  </outputs>
+  <help>
+From the tsv output file of MEGABLAST_TAB_select_acc_under_taxids.py, provide 1 file:
+- file with all acc numbers of complete genome
+  </help>
+</tool>