diff ct_macros.xml @ 0:51816af2f7ac draft default tip

"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit a1ad1ddd9b8e4db5bb82c3accae8311e0e488b19"

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/ct_macros.xml	Fri Nov 27 13:37:59 2020 +0000
@@ -0,0 +1,65 @@
+<macros>
+    <token name="@TOOL_VERSION@">1.1.1</token>
+    <token name="@HELP@">More information can be found at https://github.com/ebi-gene-expression-group/cell-types-analysis</token>
+    <token name="@PROFILE@">18.01</token>
+    <xml name="requirements">
+      <requirements>
+        <requirement type="package" version="0.1.9">cell-types-analysis</requirement>
+            <yield/>
+      </requirements>
+    </xml>
+    <xml name="version">
+      <version_command><![CDATA[
+        conda list | grep cell-types-analysis | egrep -o [0-9]\.[0-9]\.[0-9]
+    ]]></version_command>
+    </xml>
+    <token name="@VERSION_HISTORY@"><![CDATA[
+**Version history**
+0.1.6+galaxy0: Add removing non-alphanumeric characters from labels in metadata files
+0.0.5+galaxy0: Initial contribution. Andrey Solovyev, Expression Atlas team https://www.ebi.ac.uk/gxa/home at EMBL-EBI https://www.ebi.ac.uk/.
+0.0.5+galaxy1: Standardise input/output format into .txt. 
+    ]]></token>
+    <xml name="sem_siml_options">
+      <param type="select" name="sem_siml_metric" label="Semantic similarity metric"  help="What semantic similarity metric should be used? NB: if include-sem-siml is set to True, make sure to use a metric that is in the [0;1] interval. See https://www.bioconductor.org/packages/release/bioc/html/Onassis.html for more detail.">
+            <option value="lin" selected="true">lin</option>
+            <option value="jaccard">jaccard</option>
+            <option value="jc_norm">jc_norm</option>
+            <option value="schlicker">schlicker</option>
+            <option value="edge_resnik">edge_resnik</option>
+            <option value="sim">sim</option>
+            <option value="edge_leachod">edge_leachod</option>
+            <option value="edge_slimani">edge_slimani</option>
+            <option value="edge_wupalmer">edge_wupalmer</option>
+            <option value="edge_rada_lca">edge_rada_lca</option>
+            <option value="edge_li">edge_li</option>
+            <option value="resnik">resnik</option>
+        </param>
+    </xml>
+    <xml name="sanitize_strings">
+        <sanitizer invalid_char="">
+        <valid initial="string.ascii_letters,string.digits">
+            <add value="_" />
+            <add value="-" />
+            <add value="[" />
+            <add value="]" />
+            <add value=" " />
+            </valid>
+    </sanitizer>
+    </xml>
+    <xml name="citations">
+      <citations>
+        <citation type="bibtex">
+          @misc{github-cell-types-analysis.git,
+            author = {Andrey Solovyev, EBI Gene Expression Team},
+            year = {2020},
+            title = {Suite of scripts for analysis of scRNA-seq cell type classification tool outputs},
+            publisher = {GitHub},
+            journal = {GitHub repository},
+            url = {https://github.com/ebi-gene-expression-group/cell-types-analysis.git},
+          }
+        </citation>
+        <citation type="doi">10.1101/2020.04.08.032698</citation>
+        <yield />
+      </citations>
+    </xml>
+</macros>