From adbb6cc6fbfb5b7c9637a53638753e85dbf1427d Mon Sep 17 00:00:00 2001
From: Pablo Moreno <pcm32@users.noreply.github.com>
Date: Wed, 12 Sep 2018 15:57:37 +0100
Subject: [PATCH 1/2] Changes type of dispersion function to text

---
 tools/seurat_scripts/seurat_find_variable_genes.xml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/tools/seurat_scripts/seurat_find_variable_genes.xml b/tools/seurat_scripts/seurat_find_variable_genes.xml
index 0cfc1ebc0be..18f7fcbd0cb 100644
--- a/tools/seurat_scripts/seurat_find_variable_genes.xml
+++ b/tools/seurat_scripts/seurat_find_variable_genes.xml
@@ -34,7 +34,7 @@ seurat-find-variable-genes.R
     <inputs>
         <param name="input" type="data" format="rdata" label="RDS object" />
         <param name="mean" type="text" optional="True" label="Mean function" />
-        <param name="disp" type="float" optional="True" label="Dispersion function" />
+        <param name="disp" type="text" optional="True" label="Dispersion function" />
         <param name="xlow" type="float" optional="True" label="X-axis low cutoff" />
         <param name="xhigh" type="float" optional="True" label="X-axis high cutoff" />
         <param name="ylow" type="float" optional="True" label="Y-axis low cutoff" />

From 2ea71527cd819208e186ef017ba7678c380b4bcd Mon Sep 17 00:00:00 2001
From: Pablo Moreno <pcm32@users.noreply.github.com>
Date: Wed, 12 Sep 2018 16:02:24 +0100
Subject: [PATCH 2/2] Create seurat_read10x.xml

---
 tools/seurat_scripts/seurat_read10x.xml | 27 +++++++++++++++++++++++++
 1 file changed, 27 insertions(+)
 create mode 100644 tools/seurat_scripts/seurat_read10x.xml

diff --git a/tools/seurat_scripts/seurat_read10x.xml b/tools/seurat_scripts/seurat_read10x.xml
new file mode 100644
index 00000000000..4fe8eb9b7f1
--- /dev/null
+++ b/tools/seurat_scripts/seurat_read10x.xml
@@ -0,0 +1,27 @@
+<tool id="seurat-read10x" name="Seurat Read10x" version="0.1">
+  <macros>
+      <import>seurat_macros.xml</import>
+  </macros>
+  <expand macro="requirements" />
+<stdio>
+<exit_code range="1:" />
+</stdio>
+<description>Loads 10x data into a serialized seurat R object</description>
+<command><![CDATA[
+ln -s "$matrix" matrix.mtx;
+ln -s "$genes" genes.tsv;
+ln -s "$barcodes" barcodes.tsv;
+
+seurat-read-10x.R -d ./ -o "$R_seurat_serialized"
+]]></command>
+<inputs>
+    <param type="data" name="matrix" label="" help="" format="txt" />
+    <param type="data" name="genes" label="" help="" format="tsv"/>
+    <param type="data" name="barcodes" label="" help="" format="tsv"/>
+</inputs>
+<outputs>
+    <data name="R_seurat_serialized" type="data" format="rdata" label="" />
+</outputs>
+<help><![CDATA[
+]]></help>
+</tool>