diff macros.xml @ 0:8f71aaf6e59d draft

planemo upload for repository https://github.com/lldelisle/tools-lldelisle/blob/master/tools/cooler/.shed.yml commit 67c1d2510db398d4f942bb59aca520fdf9cbe296

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/macros.xml	Mon Oct 24 15:20:46 2022 +0000
@@ -0,0 +1,44 @@
+<macros>
+  <token name="@VERSION@">0.8.11</token>
+  <xml name="requirements">
+    <requirements>
+      <requirement type="package" version="1.16">htslib</requirement>
+      <requirement type="package" version="3.7.0">h5py</requirement>
+      <requirement type="package" version="@VERSION@">cooler</requirement>
+    </requirements>
+  </xml>
+  <xml name="stdio">
+    <stdio>
+      <!-- Anything other than zero is an error -->
+      <exit_code range="1:" />
+      <exit_code range=":-1" />
+      <!-- In case the return code has not been set propery check stderr too -->
+      <regex match="Error:" />
+      <regex match="Exception:" />
+    </stdio>
+    <version_command>cooler --version</version_command>
+  </xml>
+  <xml name="size_macro">
+    <conditional name="size_source">
+      <param name="size_source_selector" type="select" label="Choose the source for the chromosome sizes">
+          <option value="cached">Locally cached</option>
+          <option value="history">History</option>
+      </param>
+      <when value="cached">
+          <param name="fasta_cached" type="select" label="Fasta availables">
+              <options from_data_table="fasta_indexes">
+                  <validator type="no_options" message="No cached fasta is available"/>
+              </options>
+          </param>
+      </when>
+      <when value="history">
+        <param name="chromosomeSize" multiple="false" type="data" format="tabular" label="Select a file with the size of chromosome (One column with the chromosome names in the desired order, one column with the sizes)."/>
+      </when>
+    </conditional>
+  </xml>
+  <xml name="citation_cooler">
+      <citations>
+          <citation type="doi">10.1093/bioinformatics/btz540</citation>
+      </citations>
+  </xml>
+</macros>