diff long_reads_sampling.xml @ 0:dd46956ff61f draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/long_reads_sampling.xml	Fri Dec 08 09:57:17 2017 -0500
@@ -0,0 +1,30 @@
+<tool id="long_reads_sampling" name="Create sample of long reads" version="0.1.0">
+  <requirements>
+    <requirement type="package">biopython</requirement>
+    <requirement type="package">python3</requirement>
+  </requirements>
+  <command detect_errors="exit_code"><![CDATA[
+  python3 $__tool_directory__/long_reads_sampling.py -i "$input1" -o "$output1" -l ${total_length} -s ${seed}
+  ]]></command>
+  <inputs>
+    <param type="data" name="input1" format="fasta" label="input sequence in fasta format"/>
+    <param name="total_length" type="integer" label="Total length of sampled sequences" value="10000" />
+    <param name="seed" type="integer" label="seed for setting random number generator" value="123" />
+  </inputs>
+  <outputs>
+    <data name="output1" format="fasta" />
+  </outputs>
+  <tests>
+    <test>
+      <param name="input1" value="read_10k_ALL_oxford_nanopore_sample" />
+      <param name="total_length" value="1000000" />
+      <param name="seed" value="1234" />
+      <output name="output1" file="sampled.fasta"/>
+    </test>
+  </tests>
+  <help><![CDATA[
+  This tools is for random sampling of long reads te get specified total amount of data
+  ]]></help>
+  <citations>
+  </citations>
+</tool>