diff README_REPO.md @ 7:37e5502441cc draft

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+# msconvert
+
+This repository contains Galaxy tool wrappers for msconvert, part of
+the ProteoWizard (http://proteowizard.sourceforge.net/) package.
+
+# Installing
+
+Due to potential difficulties installing ProteoWizard with vendor
+library support, tools for interacting with vendor types are seperated
+out into their own wrappers. Galaxy is generally deployed under Linux,
+but vendor support in ProteoWizard requires .NET 4.0. There are at
+least two ways to get this to work:
+
+  * Galaxy jobs may be configured to submit to a Windows host with
+    ProteoWizard installed using the
+    LWR. http://wiki.g2.bx.psu.edu/Admin/Config/LWR
+
+  * ProteoWizard can be installed under Wine. Guidance on how to set
+    this up and package such environments for cloud deployments can be
+    found here: https://github.com/jmchilton/proteomics-wine-env
+
+Wrappers for both msconvert version 2 and version 3+ are provided
+because version 3+ of msconvert with vendor library support requires
+.NET 4.0 and this may difficult or impossible under Wine in Linux with
+all but the most recent versions of Wine (1.4+).