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  "Title": "Microarray Analysis tool",
  "Author": "Ana Patricia Gomez Mayen <pgomez@ifc.unam.mx>,\\\\ Gustavo Corral\nGuille <gcorral@ifc.unam.mx>, \\\\ Lina Riego Ruiz\n<lriego@ifc.unam.mx>,\\\\ Gerardo Coello Coutino\n<gcoello@ifc.unam.mx>",
  "Acknowledgements": "Jorge Ramirez Salcedo and Microarray Unit IFC",
  "Maintainer": "IFC Development Team <info-genarise@ifc.unam.mx>",
  "Description": "genArise is an easy to use tool for dual color microarray\ndata. Its GUI-Tk based environment let any non-experienced user\nperforms a basic, but not simple, data analysis just following\na wizard. In addition it provides some tools for the developer.",
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    "message": "bump x.y.z version to odd y following creation of RELEASE_3_23 branch\n",
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