From juan294 at gmail.com Sun Aug 1 19:15:37 2010 From: juan294 at gmail.com (=?iso-8859-1?Q?Juan_Gonz=E1lez?=) Date: Sun, 1 Aug 2010 18:45:37 -0430 Subject: [Biocatalogue-hackers] Biocatalogue installation Message-ID: <4B78F490-D13E-408C-A52B-0C868A39F253@gmail.com> Hello List, I'm reaching out to you today because I'm interested in installing a biocatalogue-like portal for a set of web services we've been developing inside the European VAMDC project. I've been following installation and configuration instructions from this site: http://www.biocatalogue.org/wiki/doku.php?id=development:codebase_guidelines, and almost anything has come out as expected so here I am. I have a testing debian server with a previous and functional installation of PHP 5.2, Apache 2, Tomcat 5.5. I have never used Ruby or Rails before so I just installed them for this purpose using aptitude. I did the svn checkout, no problem there, I'm assuming that biocatalogue folder will be located on the Apache web root. I modified every config file as stated on the instructions and I created the additional folder structure. Problems start right here when I try to install the "gems". After I figured out what "gems" actually was, I installed using aptitude again. Now I seem to have installed gem, gem1.8, and gem1.9 for some reason. When I try to install some of the several gems, most of times I get this message: "ERROR: could not find gem dnsruby locally or in a repository". One exception was addressable since that one went ok. I noticed the "Note: some of these gems may come from GitHub so add ?http://gems.github.com/? to your gem sources." message so I went after the link and it seems they've stopped building gems so I went after the new link and executed the "gem sources -a http://gems.github.com". I got a success message there. Does this mean I have the GitHub in my gem sources as the message suggests or do I need to perform an extra step here? I'm still getting errors when I try to install individual gems. I'd like to leave this mail up until here so I can solve one thing at a time and avoid a movie script for the list. Any help you can provide would be extremely helpful and appreciated. Thanks in advanced for your time and help. Regards, -- Juan Gonz?lez Telef.: +58416-6097260 "Las acciones que mi raz?n justifica en un instante, resultan ins?litas para los que desean reproducirlas en su vida pero no se atreven." -------------- next part -------------- An HTML attachment was scrubbed... URL: From jits at cs.man.ac.uk Mon Aug 2 05:06:16 2010 From: jits at cs.man.ac.uk (Jiten Bhagat) Date: Mon, 02 Aug 2010 10:06:16 +0100 Subject: [BioCatalogue-hackers] [Biocatalogue-hackers] Biocatalogue installation In-Reply-To: <4B78F490-D13E-408C-A52B-0C868A39F253@gmail.com> References: <4B78F490-D13E-408C-A52B-0C868A39F253@gmail.com> Message-ID: <4C568A88.4060809@cs.man.ac.uk> Hi Juan, We haven't (yet) had any experience installing the BioCatalogue software on Debian, but we have on Ubuntu many times. I'll have a go at setting up Debian in a virtual machine and will add some instructions to the wiki page you mention. I'll get back to you soon, hopefully, on this :-) Cheers, Jits Juan Gonz?lez wrote: > Hello List, > > I'm reaching out to you today because I'm interested in installing a biocatalogue-like portal for a set of web services we've been developing inside the European VAMDC project. > > I've been following installation and configuration instructions from this site: http://www.biocatalogue.org/wiki/doku.php?id=development:codebase_guidelines, and almost anything has come out as expected so here I am. > > I have a testing debian server with a previous and functional installation of PHP 5.2, Apache 2, Tomcat 5.5. > > I have never used Ruby or Rails before so I just installed them for this purpose using aptitude. > > I did the svn checkout, no problem there, I'm assuming that biocatalogue folder will be located on the Apache web root. I modified every config file as stated on the instructions and I created the additional folder structure. > > Problems start right here when I try to install the "gems". After I figured out what "gems" actually was, I installed using aptitude again. Now I seem to have installed gem, gem1.8, and gem1.9 for some reason. > > When I try to install some of the several gems, most of times I get this message: "ERROR: could not find gem dnsruby locally or in a repository". One exception was addressable since that one went ok. > > I noticed the "Note: some of these gems may come from GitHub so add ?http://gems.github.com/? to your gem sources." message so I went after the link and it seems they've stopped building gems so I went after the new link and executed the "gem sources -a http://gems.github.com". I got a success message there. Does this mean I have the GitHub in my gem sources as the message suggests or do I need to perform an extra step here? I'm still getting errors when I try to install individual gems. > > I'd like to leave this mail up until here so I can solve one thing at a time and avoid a movie script for the list. > > Any help you can provide would be extremely helpful and appreciated. > > Thanks in advanced for your time and help. > > Regards, > > -- > Juan Gonz?lez > Telef.: +58416-6097260 > "Las acciones que mi raz?n justifica en un instante, resultan ins?litas para los que desean reproducirlas en su vida pero no se atreven." > > > > ------------------------------------------------------------------------ > > _______________________________________________ > Biocatalogue-hackers mailing list > Biocatalogue-hackers at rubyforge.org > http://rubyforge.org/mailman/listinfo/biocatalogue-hackers > From jits at cs.man.ac.uk Mon Aug 2 12:22:29 2010 From: jits at cs.man.ac.uk (Jiten Bhagat) Date: Mon, 02 Aug 2010 17:22:29 +0100 Subject: [BioCatalogue-hackers] [Biocatalogue-hackers] Biocatalogue installation In-Reply-To: <4C568A88.4060809@cs.man.ac.uk> References: <4B78F490-D13E-408C-A52B-0C868A39F253@gmail.com> <4C568A88.4060809@cs.man.ac.uk> Message-ID: <4C56F0C5.2010802@cs.man.ac.uk> Hi Juan, I've successfully set up the BioCatalogue system in a virtual machine running Debian 5. Based on this experience I've revamped the information on our wiki. I've put down detailed instructions on a new "Installation" page [1] which is separate to the "Codebase Guidelines" page [2] and I have updated the "For Developers" homepage [3] to reflect this. Please could you remove all ruby related packages/files from your machine and try again from scratch with the new instructions? Let us know how you get on with this. Please note: we are working on making the BioCatalogue much more easy to set up, configure and brand, for the future. Thanks, Jits [1] http://www.biocatalogue.org/wiki/doku.php?id=development:installation [2] http://www.biocatalogue.org/wiki/doku.php?id=development:codebase_guidelines [3] http://www.biocatalogue.org/wiki/doku.php?id=public:for_developers Jiten Bhagat wrote: > Hi Juan, > > We haven't (yet) had any experience installing the BioCatalogue software > on Debian, but we have on Ubuntu many times. > > I'll have a go at setting up Debian in a virtual machine and will add > some instructions to the wiki page you mention. > > I'll get back to you soon, hopefully, on this :-) > > Cheers, > Jits > > > Juan Gonz?lez wrote: > >> Hello List, >> >> I'm reaching out to you today because I'm interested in installing a biocatalogue-like portal for a set of web services we've been developing inside the European VAMDC project. >> >> I've been following installation and configuration instructions from this site: http://www.biocatalogue.org/wiki/doku.php?id=development:codebase_guidelines, and almost anything has come out as expected so here I am. >> >> I have a testing debian server with a previous and functional installation of PHP 5.2, Apache 2, Tomcat 5.5. >> >> I have never used Ruby or Rails before so I just installed them for this purpose using aptitude. >> >> I did the svn checkout, no problem there, I'm assuming that biocatalogue folder will be located on the Apache web root. I modified every config file as stated on the instructions and I created the additional folder structure. >> >> Problems start right here when I try to install the "gems". After I figured out what "gems" actually was, I installed using aptitude again. Now I seem to have installed gem, gem1.8, and gem1.9 for some reason. >> >> When I try to install some of the several gems, most of times I get this message: "ERROR: could not find gem dnsruby locally or in a repository". One exception was addressable since that one went ok. >> >> I noticed the "Note: some of these gems may come from GitHub so add ?http://gems.github.com/? to your gem sources." message so I went after the link and it seems they've stopped building gems so I went after the new link and executed the "gem sources -a http://gems.github.com". I got a success message there. Does this mean I have the GitHub in my gem sources as the message suggests or do I need to perform an extra step here? I'm still getting errors when I try to install individual gems. >> >> I'd like to leave this mail up until here so I can solve one thing at a time and avoid a movie script for the list. >> >> Any help you can provide would be extremely helpful and appreciated. >> >> Thanks in advanced for your time and help. >> >> Regards, >> >> -- >> Juan Gonz?lez >> Telef.: +58416-6097260 >> "Las acciones que mi raz?n justifica en un instante, resultan ins?litas para los que desean reproducirlas en su vida pero no se atreven." >> >> >> >> ------------------------------------------------------------------------ >> >> _______________________________________________ >> Biocatalogue-hackers mailing list >> Biocatalogue-hackers at rubyforge.org >> http://rubyforge.org/mailman/listinfo/biocatalogue-hackers >> >> > > _______________________________________________ > BioCatalogue-hackers mailing list > BioCatalogue-hackers at rubyforge.org > http://rubyforge.org/mailman/listinfo/biocatalogue-hackers > From wanyx04 at mails.tsinghua.edu.cn Wed Aug 4 05:35:37 2010 From: wanyx04 at mails.tsinghua.edu.cn (=?gb2312?b?zfLT7vbO?=) Date: Wed, 4 Aug 2010 17:35:37 +0800 (CST) Subject: [BioCatalogue-hackers] Question about wsdl file analysis and index Message-ID: Hi, I'm a graduate student from Tsinghua Unviersity, China. I'm doing a project about webservice analysis and index. I use the wsdl file to get all the operation and data infomation and I use solr to index them. I just want to know how bicatalogue works in this part, could you tell me where this part of the code is? So I can make some comparison and learning, thanks:) Yuxin Wan, Graduate Student LIGO Scientific Collaboration Research Group Tsinghua University, Beijing, P. R. China http://ligo.org.cn From jits at cs.man.ac.uk Wed Aug 4 05:49:46 2010 From: jits at cs.man.ac.uk (Jiten Bhagat) Date: Wed, 04 Aug 2010 10:49:46 +0100 Subject: [BioCatalogue-hackers] Question about wsdl file analysis and index In-Reply-To: References: Message-ID: <4C5937BA.2030303@cs.man.ac.uk> Hi, Hello, For the WSDL parsing we have built our own REST based web service (as part of the EU EMBRACE project) to parse a WSDL file and return us some info. This is then used within the BioCatalogue when users register a service. This WSDL parsing service runs on PHP and is free and open source (licensed under BSD) and available from here: http://biocatalogue.rubyforge.org/svn/trunk/vendor/wsdl-parsing-service/ This document describes in more detail how to use this service: http://biocatalogue.rubyforge.org/svn/trunk/vendor/wsdl-parsing-service/WSDLToolsREST.pdf Installation instructions are available here: http://biocatalogue.rubyforge.org/svn/trunk/vendor/wsdl-parsing-service/README.txt The code in the BioCatalogue that connects this up is mainly based here (this also has a secondary WSDL parser written in Ruby that we use to fall back on): http://biocatalogue.rubyforge.org/svn/trunk/lib/bio_catalogue/wsdl_parser.rb The information from the WSDL is then used to build up the Service model in the BioCatalogue system. Most of the logic for this is here: http://biocatalogue.rubyforge.org/svn/trunk/app/models/soap_service.rb If you are interested in the BioCatalogue data model (draft and a work in progress): http://dl.dropbox.com/u/747367/DataModelForBioCatalogue.pdf Let me know if you need any more information. Good luck in your project! Kind regards, Jiten ??? wrote: > Hi, > I'm a graduate student from Tsinghua Unviersity, China. I'm doing a project about webservice analysis and index. I use the wsdl file to get all the operation and data infomation and I use solr to index them. I just want to know how bicatalogue works in this part, could you tell me where this part of the code is? So I can make some comparison and learning, thanks:) > > > > > Yuxin Wan, Graduate Student > LIGO Scientific Collaboration Research Group > Tsinghua University, Beijing, P. R. China > http://ligo.org.cn > > > _______________________________________________ > BioCatalogue-hackers mailing list > BioCatalogue-hackers at rubyforge.org > http://rubyforge.org/mailman/listinfo/biocatalogue-hackers > From jits at cs.man.ac.uk Wed Aug 4 05:56:53 2010 From: jits at cs.man.ac.uk (Jiten Bhagat) Date: Wed, 04 Aug 2010 10:56:53 +0100 Subject: [BioCatalogue-hackers] Question about wsdl file analysis and index In-Reply-To: <4C5937BA.2030303@cs.man.ac.uk> References: <4C5937BA.2030303@cs.man.ac.uk> Message-ID: <4C593965.8060603@cs.man.ac.uk> More information about WSDL parsing in the BioCatalogue is also available on this wiki page: http://www.biocatalogue.org/wiki/doku.php?id=development:wsdl_parsing Jits Jiten Bhagat wrote: > Hi, > > Hello, > > For the WSDL parsing we have built our own REST based web service (as > part of the EU EMBRACE project) to parse a WSDL file and return us some > info. This is then used within the BioCatalogue when users register a > service. > > This WSDL parsing service runs on PHP and is free and open source > (licensed under BSD) and available from here: > http://biocatalogue.rubyforge.org/svn/trunk/vendor/wsdl-parsing-service/ > > This document describes in more detail how to use this service: > http://biocatalogue.rubyforge.org/svn/trunk/vendor/wsdl-parsing-service/WSDLToolsREST.pdf > > Installation instructions are available here: > http://biocatalogue.rubyforge.org/svn/trunk/vendor/wsdl-parsing-service/README.txt > > The code in the BioCatalogue that connects this up is mainly based here > (this also has a secondary WSDL parser written in Ruby that we use to > fall back on): > http://biocatalogue.rubyforge.org/svn/trunk/lib/bio_catalogue/wsdl_parser.rb > > The information from the WSDL is then used to build up the Service model > in the BioCatalogue system. Most of the logic for this is here: > http://biocatalogue.rubyforge.org/svn/trunk/app/models/soap_service.rb > > If you are interested in the BioCatalogue data model (draft and a work > in progress): > http://dl.dropbox.com/u/747367/DataModelForBioCatalogue.pdf > > Let me know if you need any more information. > > Good luck in your project! > > Kind regards, > Jiten > > > ??? wrote: > >> Hi, >> I'm a graduate student from Tsinghua Unviersity, China. I'm doing a project about webservice analysis and index. I use the wsdl file to get all the operation and data infomation and I use solr to index them. I just want to know how bicatalogue works in this part, could you tell me where this part of the code is? So I can make some comparison and learning, thanks:) >> >> >> >> >> Yuxin Wan, Graduate Student >> LIGO Scientific Collaboration Research Group >> Tsinghua University, Beijing, P. R. China >> http://ligo.org.cn >> >> >> _______________________________________________ >> BioCatalogue-hackers mailing list >> BioCatalogue-hackers at rubyforge.org >> http://rubyforge.org/mailman/listinfo/biocatalogue-hackers >> >> > > _______________________________________________ > BioCatalogue-hackers mailing list > BioCatalogue-hackers at rubyforge.org > http://rubyforge.org/mailman/listinfo/biocatalogue-hackers > From jits at cs.man.ac.uk Thu Aug 5 03:52:38 2010 From: jits at cs.man.ac.uk (Jiten Bhagat) Date: Thu, 05 Aug 2010 08:52:38 +0100 Subject: [BioCatalogue-hackers] Question about wsdl file analysis and index In-Reply-To: References: Message-ID: <4C5A6DC6.6000704@cs.man.ac.uk> Hello, The "analysis" of the WSDL file and then subsequent indexing into Solr is carried out within the Ruby on Rails (v2.3) application that the BioCatalogue system is built on. This is a fairly complex system that does a lot of things. For background, here is a high level system architecture diagram of the whole BioCatalogue set up: http://www.biocatalogue.org/wiki/doku.php?id=development:system_architecture If you're not familiar with Ruby on Rails, I highly recommend going through the guides here: http://guides.rubyonrails.org/ And in particular, the Getting Started guide, to start with: http://guides.rubyonrails.org/getting_started.html The concepts in Ruby on Rails are very important in understanding how things work in the system, especially the way the Model View Controller (MVC) pattern is used. For the WSDL/SOAP specific stuff the process is roughly: User wants to register a WSDL/SOAP based service -> User provides WSDL URL -> WSDL parser is used to obtain a "friendlier" version of the WSDL contents (i.e.: translate from an XML file to an in memory hash/map) -> Which is then used to populate the relevant models in the application, including building a Service model wrapper around the SoapService model, together with a ServiceDeployment and any relevant Annotations attached to it -> The whole graph of the new models is then persisted into the database in a transaction It is here that they are then indexed into the search engine (Solr) using a heavily modified version of the acts_as_solr plugin for Rails (which handles all the interactions with Solr). In the models (eg: app/models/soap_service.rb), you'll see lines like: if ENABLE_SEARCH acts_as_solr(:fields => [ :name, :namespace, :description, :documentation_url, :wsdl_location, :service_type_name, :description_from_soaplab, { :associated_service_id => :r_id } ] ) end This is what "configures" the model to do the indexing into Solr when it is saved. If you want to use our version of the acts_as_solr plugin you can get it from here: http://biocatalogue.rubyforge.org/svn/trunk/vendor/plugins/acts_as_solr/ A little bit of introductory information on acts_as_solr is available here: http://biocatalogue.rubyforge.org/svn/trunk/vendor/plugins/acts_as_solr/README.rdoc But note that before you can understand how it works you need to know how Ruby mixins, Rails ActiveRecord callbacks and acts_as_* plugins work. Hope that helps! Cheers, Jits ??? wrote: > Hi, Jiten > Thank you very much for replying, and also I want to know how you store the analysis result and using solr to index them:) > > >> -----Original Message----- >> From: Jiten Bhagat >> Date: Wed, 04 Aug 2010 10:56:53 +0100 >> To: wanyx04 at mails.tsinghua.edu.cn >> Cc: BioCatalogue-hackers at rubyforge.org, wtan at mcs.anl.gov >> Subject: Re: [BioCatalogue-hackers] Question about wsdl file analysis an >> More information about WSDL parsing in the BioCatalogue is also >> available on this wiki page: >> http://www.biocatalogue.org/wiki/doku.php?id=development:wsdl_parsing >> >> Jits >> >> >> Jiten Bhagat wrote: >> >>> Hi, >>> >>> Hello, >>> >>> For the WSDL parsing we have built our own REST based web service (as >>> part of the EU EMBRACE project) to parse a WSDL file and return us some >>> info. This is then used within the BioCatalogue when users register a >>> service. >>> >>> This WSDL parsing service runs on PHP and is free and open source >>> (licensed under BSD) and available from here: >>> http://biocatalogue.rubyforge.org/svn/trunk/vendor/wsdl-parsing-service/ >>> >>> This document describes in more detail how to use this service: >>> http://biocatalogue.rubyforge.org/svn/trunk/vendor/wsdl-parsing-service/WSDLToolsREST.pdf >>> >>> Installation instructions are available here: >>> http://biocatalogue.rubyforge.org/svn/trunk/vendor/wsdl-parsing-service/README.txt >>> >>> The code in the BioCatalogue that connects this up is mainly based here >>> (this also has a secondary WSDL parser written in Ruby that we use to >>> fall back on): >>> http://biocatalogue.rubyforge.org/svn/trunk/lib/bio_catalogue/wsdl_parser.rb >>> >>> The information from the WSDL is then used to build up the Service model >>> in the BioCatalogue system. Most of the logic for this is here: >>> http://biocatalogue.rubyforge.org/svn/trunk/app/models/soap_service.rb >>> >>> If you are interested in the BioCatalogue data model (draft and a work >>> in progress): >>> http://dl.dropbox.com/u/747367/DataModelForBioCatalogue.pdf >>> >>> Let me know if you need any more information. >>> >>> Good luck in your project! >>> >>> Kind regards, >>> Jiten >>> >>> >>> ??? wrote: >>> >>> >>>> Hi, >>>> I'm a graduate student from Tsinghua Unviersity, China. I'm doing a project about webservice analysis and index. I use the wsdl file to get all the operation and data infomation and I use solr to index them. I just want to know how bicatalogue works in this part, could you tell me where this part of the code is? So I can make some comparison and learning, thanks:) >>>> >>>> >>>> >>>> >>>> Yuxin Wan, Graduate Student >>>> LIGO Scientific Collaboration Research Group >>>> Tsinghua University, Beijing, P. R. China >>>> http://ligo.org.cn >>>> >>>> >>>> _______________________________________________ >>>> BioCatalogue-hackers mailing list >>>> BioCatalogue-hackers at rubyforge.org >>>> http://rubyforge.org/mailman/listinfo/biocatalogue-hackers >>>> >>>> >>>> >>> _______________________________________________ >>> BioCatalogue-hackers mailing list >>> BioCatalogue-hackers at rubyforge.org >>> http://rubyforge.org/mailman/listinfo/biocatalogue-hackers >>> >>> >> > Yuxin Wan, Graduate Student > LIGO Scientific Collaboration Research Group > Tsinghua University, Beijing, P. R. China > http://ligo.org.cn > > From jits at cs.man.ac.uk Fri Aug 13 09:17:00 2010 From: jits at cs.man.ac.uk (Jiten Bhagat) Date: Fri, 13 Aug 2010 14:17:00 +0100 Subject: [BioCatalogue-hackers] [Biocatalogue-hackers] Biocatalogue installation In-Reply-To: <0EC591D6-7EE1-47BB-B06C-53A537EC4D79@gmail.com> References: <4B78F490-D13E-408C-A52B-0C868A39F253@gmail.com> <4C568A88.4060809@cs.man.ac.uk> <4C56F0C5.2010802@cs.man.ac.uk> <0EC591D6-7EE1-47BB-B06C-53A537EC4D79@gmail.com> Message-ID: <4C6545CC.1090902@cs.man.ac.uk> Hi Juan, Excellent! Glad it worked out for you. In terms of running it on port 3000, this is just because of the default behaviour of "ruby script/server". You can also choose to host the application via Apache, using Phusion Passenger (http://www.modrails.com/). It is very easy to set up (see the "Install" page). This is what we use to host http://www.biocatalogue.org, and it allows you to host the app on the standard port 80 and using the Apache web server. All the best, Jits Juan Gonz?lez wrote: > Hi Jiten, > > I just tried your new instructions and the installation worked out great. I had a little problem with mysql gem but it was something proper of my local settings. Not a big deal. After solving that everything went down fine. > > I'll have to ask the IT Department at the Institute to give public access to the port #3000 so we can all access it from the outside. I'm going to start testing and I'll write to the list if I have further questions. > > Thanks for your help, we'll keep in touch. > > Cheers, > > Juan. > > On Aug 2, 2010, at 11:52 AM, Jiten Bhagat wrote: > > >> Hi Juan, >> >> I've successfully set up the BioCatalogue system in a virtual machine >> running Debian 5. >> >> Based on this experience I've revamped the information on our wiki. I've >> put down detailed instructions on a new "Installation" page [1] which is >> separate to the "Codebase Guidelines" page [2] and I have updated the >> "For Developers" homepage [3] to reflect this. >> >> Please could you remove all ruby related packages/files from your >> machine and try again from scratch with the new instructions? >> >> Let us know how you get on with this. >> >> Please note: we are working on making the BioCatalogue much more easy to >> set up, configure and brand, for the future. >> >> Thanks, >> Jits >> >> [1] http://www.biocatalogue.org/wiki/doku.php?id=development:installation >> [2] >> http://www.biocatalogue.org/wiki/doku.php?id=development:codebase_guidelines >> [3] http://www.biocatalogue.org/wiki/doku.php?id=public:for_developers >> >> >> >> Jiten Bhagat wrote: >> >>> Hi Juan, >>> >>> We haven't (yet) had any experience installing the BioCatalogue software >>> on Debian, but we have on Ubuntu many times. >>> >>> I'll have a go at setting up Debian in a virtual machine and will add >>> some instructions to the wiki page you mention. >>> >>> I'll get back to you soon, hopefully, on this :-) >>> >>> Cheers, >>> Jits >>> >>> >>> Juan Gonz?lez wrote: >>> >>> >>>> Hello List, >>>> >>>> I'm reaching out to you today because I'm interested in installing a biocatalogue-like portal for a set of web services we've been developing inside the European VAMDC project. >>>> >>>> I've been following installation and configuration instructions from this site: http://www.biocatalogue.org/wiki/doku.php?id=development:codebase_guidelines, and almost anything has come out as expected so here I am. >>>> >>>> I have a testing debian server with a previous and functional installation of PHP 5.2, Apache 2, Tomcat 5.5. >>>> >>>> I have never used Ruby or Rails before so I just installed them for this purpose using aptitude. >>>> >>>> I did the svn checkout, no problem there, I'm assuming that biocatalogue folder will be located on the Apache web root. I modified every config file as stated on the instructions and I created the additional folder structure. >>>> >>>> Problems start right here when I try to install the "gems". After I figured out what "gems" actually was, I installed using aptitude again. Now I seem to have installed gem, gem1.8, and gem1.9 for some reason. >>>> >>>> When I try to install some of the several gems, most of times I get this message: "ERROR: could not find gem dnsruby locally or in a repository". One exception was addressable since that one went ok. >>>> >>>> I noticed the "Note: some of these gems may come from GitHub so add ?http://gems.github.com/? to your gem sources." message so I went after the link and it seems they've stopped building gems so I went after the new link and executed the "gem sources -a http://gems.github.com". I got a success message there. Does this mean I have the GitHub in my gem sources as the message suggests or do I need to perform an extra step here? I'm still getting errors when I try to install individual gems. >>>> >>>> I'd like to leave this mail up until here so I can solve one thing at a time and avoid a movie script for the list. >>>> >>>> Any help you can provide would be extremely helpful and appreciated. >>>> >>>> Thanks in advanced for your time and help. >>>> >>>> Regards, >>>> >>>> -- >>>> Juan Gonz?lez >>>> Telef.: +58416-6097260 >>>> "Las acciones que mi raz?n justifica en un instante, resultan ins?litas para los que desean reproducirlas en su vida pero no se atreven." >>>> >>>> >>>> >>>> ------------------------------------------------------------------------ >>>> >>>> _______________________________________________ >>>> Biocatalogue-hackers mailing list >>>> Biocatalogue-hackers at rubyforge.org >>>> http://rubyforge.org/mailman/listinfo/biocatalogue-hackers >>>> >>>> >>>> >>> _______________________________________________ >>> BioCatalogue-hackers mailing list >>> BioCatalogue-hackers at rubyforge.org >>> http://rubyforge.org/mailman/listinfo/biocatalogue-hackers >>> >>> > > -- > Juan Gonz?lez > Telef.: +58416-6097260 > "Las acciones que mi raz?n justifica en un instante, resultan ins?litas para los que desean reproducirlas en su vida pero no se atreven." > >