diff seurat.xml @ 5:06ed31cf52ed draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seurat commit 98e7666ee048ec249fd3f65854feab03168fadef"

--- a/seurat.xml	Mon May 04 13:56:11 2020 -0400
+++ b/seurat.xml	Mon Jun 08 17:40:51 2020 -0400
@@ -1,13 +1,20 @@
-<tool id="seurat" name="Seurat" version="@TOOL_VERSION@">
+<tool id="seurat" name="Seurat" version="@TOOL_VERSION@+galaxy1">
     <description>- toolkit for exploration of single-cell RNA-seq data</description>
     <macros>
         <token name="@TOOL_VERSION@">3.1.5</token>
     </macros>
     <requirements>
         <requirement type="package" version="@TOOL_VERSION@">r-seurat</requirement>
-        <requirement type="package" version="2.1">r-rmarkdown</requirement>
-        <!-- Need to pin pandoc due to https://github.com/rstudio/rmarkdown/issues/1740 -->
-        <requirement type="package" version="2.7.3">pandoc</requirement>
+        <requirement type="package" version="2.2">r-rmarkdown</requirement>
+        <!-- Need to pin R-base due to
+*** caught segfault ***
+address (nil), cause 'memory not mapped'
+
+Traceback:
+ 1: cairoVersion()
+ 2: grSoftVersion()
+        -->
+        <requirement type="package" version="3.6">r-base</requirement>
     </requirements>
     <command detect_errors="exit_code"><![CDATA[
 #if "vln" in $meta.plots: