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[bioontology-support] Help

Trish Whetzel whetzel at stanford.edu
Wed Jun 9 19:33:41 PDT 2010


Hi Elizabeth,

You can perform an anonymous checkout using the information for  
'Anonymous Subversion (SVN) access' at:
https://bmir-gforge.stanford.edu/gf/project/bioportal_core/scmsvn/?action=AccessInfo

Trish


On Jun 9, 2010, at 7:08 PM, Elizabeth Figueroa wrote:

> Hi Trish Whetzel,
>
> I am working in the installation of Bioportal and I am a little lost  
> with the instructions that my mentor gave me. I have installed Sun  
> Java 1.6, tomcat 6, MySQL 5.1 successfully. But when I proceed the  
> with the next step I do not know  what to do. After these steps, the  
> instructions say:
>
>
> Checkout bioportal_core sources from SVN:
> https://bmir-gforge.standford.edu/svn/bioportal_core
> trunk or some tag (ask Misha) - usually take latest tag
> svn co https://bmir-gforge.stanford.edu/svn/bioportal_core/tags/1018  
> bioportal_core
>
> Create some directory on your computer to hold the bioportal  
> resources, e.g.: /work/tools/bioportal/resources
> Edit the build.properties from the bioportal_core folder, especially:
> bioportal.resource.path/work/tools/bioportal/resources
> appserver.home/usr/share/tomcat5.5
> bioportal.jdbc.urljdbc:mysql://localhost:3306/bioportal
> bioportal.jdbc.drivercom.mysql.jdbc.Driver
> bioportal.jdbc.usernamebioportal_prd
> bioportal.jdbc.passwordbioportal_prd
>
> protege.jdbc.urljdbc:mysql://localhost/bioportal
> protege.jdbc.drivercom.mysql.jdbc.Driver
> protege.jdbc.usernamebioportal_prd
> protege.jdbc.passwordbioportal_prd
>
> lexgrid.db.urljdbc:mysql://localhost/bioportal_lexgrid
> lexgrid.db.userbioportal_prd
> lexgrid.db.passwordbioportal_prd
>
> lexgrid.email.totudorache at xxxxxxxxxxxx
>
>
> This is the part that I am lost by now. I want to know if you can  
> explain me how to access these web sites that request for username  
> and password? Or if you can explain me how to checkout  
> bioportal_core sources from svn to the create the directory that  
> holds bioportal resources.
>
> Thank you Trish,
> Elizabeth Figueroa
>
>
> From: whetzel at stanford.edu
> To: ely-ia at hotmail.com
> Subject: Re: Help
> Date: Wed, 9 Jun 2010 13:00:37 -0700
>
> Hi Elizabeth,
>
> I saw a later email related to installing BioPortal. Did this  
> address the question below?
>
> Best regards,
> Trish
>
>
> On Jun 9, 2010, at 11:28 AM, Elizabeth Figueroa wrote:
>
> Regards,
>
> My name is Elizabeth Figueroa, I am a Computer Engineering student  
> of Polytechnic University of Puerto Rico. Actually, I am doing now a  
> project that involves to use Bioportal. My mentor gave a guide to  
> install it, but the instructions are not clear to me. I  
> investigated, and the information said that the Standford University  
> has a developers of this program. Could you help me with the  
> installation of this program. Exists some page that help me with  
> this installation?
>
> I installed Sun Java 1.6, tomcat 6, MySQL 5.1 and I did all the  
> steps mentioned after, but when the instructions saids: "checkout  
> bioportal_core sources from SVN", the links required username and  
> password. Also the other steps are not clear to me. I need someone  
> that can help me to install this program to can do the project.
>
> Thank you,
> Elizabeth Figueroa
>
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