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Installation and Setup of EMBOSS Grid Tools for Educational Use

This document provides detailed instructions for the installation and configuration of EMBOSS on a grid system, specifically tailored for educational environments. It covers the uncompressing of EMBOSS packages, compilation, and installation procedures. Additionally, it outlines the setup of databases and testing protocols to ensure the proper functioning of EMBOSS tools like 'seqret'. The guidelines are designed for a successful implementation in the 1st EELA Grid School held on December 6, 2006, ensuring participants can utilize EMBOSS effectively for bioinformatics tasks.

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Installation and Setup of EMBOSS Grid Tools for Educational Use

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  1. EMBOSS over a Grid Eduardo MURRIETA LEON Romualdo ZAYAS LAGUNAS Pierre-Alain BRANGER Jérôme VERLEYEN Roberto RODRIGUEZ César BONAVIDES Alfredo HERNANDEZ 1st EELA Grid School December 6th of 2006

  2. Installation • Uncompress EMBOSS-latest.tar.gz • configure, make, make install • Installation of embassy (non EMBOSS tools) • Setting up DB (4.4GB/3.5hs/20%) • Tests, OK!

  3. Plan A JDL File Type = "Job"; JobType = "Normal"; Executable = “seqret"; Arguments = "-outseq“,”salida.fasta”; StdError = “stderr.err"; InputSandbox = { “seqret”, “*fasta”, “*idx”, … }; OutputSandbox = {“salida.fasta“, “stderr.err”}; UI CE WNs BDII RB

  4. Plan B JDL File Type = "Job"; JobType = "Normal"; Tag = “EMBOSS-4.0.0”; Executable = “seqret"; Arguments = "-outseq“,”salida.fasta”; StdError = “stderr.err"; OutputSandbox = {“salida.fasta“, “stderr.err”}; UI CE WNs BDII RB

  5. Plan C UI CE WNs GFAL BDII RB SE

  6. ! Muito Obrigado Respostas

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