BioPerl-DB
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href="mailto:dag@sonsorol.org">dag@sonsorol.org</a><o:p></o:p></span></p>
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<p class=MsoPlainText><b><span style='font-size:12.0pt;mso-bidi-font-size:10.0pt;
font-family:Arial'>Assumptions<o:p></o:p></span></b></p>
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style='font-family:Symbol;mso-bidi-font-family:Arial'>·<span style='font:7.0pt "Times New Roman"'>
</span></span><![endif]><span style='font-family:Arial'>This document describes
installing a biosql-compliant database on an x86-based server running RedHat
7.2. <o:p></o:p></span></p>
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</span></span><![endif]><span style='font-family:Arial'>Different hardware
architectures or OS’s may require different install procedures. Specifically
the server used for this process was a Dell PowerEdge 6450 system with dual
Xeon CPUs, 4GB physical memory and the 2.4.18 linux kernel.<o:p></o:p></span></p>
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</span></span><![endif]><span style='font-family:Arial'>This document assumes
the user has root access to the server system for the purposes of installing
software and perl modules.<o:p></o:p></span></p>
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</span></span><![endif]><span style='font-family:Arial'>This document assumes
at least basic knowledge of RPM packages and how to install them<o:p></o:p></span></p>
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</span></span><![endif]><span style='font-family:Arial'>The process described
here includes downloading code from the internet via anonymous CVS which some
firewalls may not allow. Explaining the use of CVS-over-SSH is not within the
scope of this document.</span><b><span style='font-size:12.0pt;mso-bidi-font-size:
10.0pt;font-family:Arial'> <o:p></o:p></span></b></p>
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<p class=MsoPlainText><b><span style='font-size:12.0pt;mso-bidi-font-size:10.0pt;
font-family:Arial'>About the Open Bio Database Access (OBDA) effort<o:p></o:p></span></b></p>
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<p class=MsoBodyText>OBDA is standard developed by the <a
href="http://www.open-bio.org/">Open Bioinformatics Foundation</a> to
standardize the way all of the OBF-affiliated projects access sequence data
resources. This includes local sequence resources (indexed flatfiles), remote
databases (web accessible sequence resources), CORBA servers (implementing the <a
href="http://www.biocorba.org/">BioCORBA/BSANE</a> specification) and
relational databases using the <a
href="http://cvs.open-bio.org/cgi-bin/viewcvs/viewcvs.cgi/biosql-schema/sql/?cvsroot=biosql">BioSQL</a>
schema.</p>
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<p class=MsoBodyText>The website for the OBDA effort will eventually be <a
href="http://obda.open-bio.org/">http://obda.open-bio.org/</a> . At this time
though the site is only online in template form. The OBF is actively soliciting
people to take over the website and OBDA documentation efforts. </p>
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<p class=MsoBodyText>The primary discussion forum for the OBDA effort is the
“open-bio-l” mailing list. The list signup page is located at: <a
href="http://open-bio.org/mailman/listinfo/open-bio-l">http://open-bio.org/mailman/listinfo/open-bio-l</a>
. The list archives are online at <a
href="http://open-bio.org/pipermail/open-bio-l/">http://open-bio.org/pipermail/open-bio-l/</a>.
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