Difference between revisions of "GMOD virtual machine project"
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| − | Initial versions of GMOD virtual machines have been uploaded/documented at the [[ | + | Initial versions of GMOD virtual machines have been uploaded/documented at the [[VMWare HOWTO]]. The [[Community Annotation System]] is an example GMOD virtual machine. |
| − | This page is for discussion on creating a GMOD virtual machine. The idea was initiated by an email to the GMOD-devel, schema and gbrowse mailing lists: | + | This page is for discussion on creating a GMOD virtual machine. The idea was initiated by an email to the GMOD-devel, schema and gbrowse [[GMOD Mailing Lists|mailing lists]]: |
Hello, | Hello, | ||
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for these virtual machines for several purposes, among them the ability | for these virtual machines for several purposes, among them the ability | ||
to create a consistent platform for teaching (like giving a classroom a | to create a consistent platform for teaching (like giving a classroom a | ||
| − | disk with the VMware player and a linux VM with GBrowse preinstalled to | + | disk with the VMware player and a linux VM with [[GBrowse]] preinstalled to |
give a tutorial), and for creating virtual machines that could be used | give a tutorial), and for creating virtual machines that could be used | ||
as a 'test server' that people interested in GMOD software could get and | as a 'test server' that people interested in GMOD software could get and | ||
| Line 24: | Line 24: | ||
far: | far: | ||
| − | Chado and related core components (version 0.5 when released)* | + | [[Chado]] and related core components (version 0.5 when released)* |
| − | XORT (0.5 when released)* | + | [[XORT]] (0.5 when released)* |
| − | GBrowse (1.68 when released)** | + | [[GBrowse]] (1.68 when released)** |
| − | Apollo (1.6.5) | + | [[Apollo]] (1.6.5) |
| − | CMap (? Most recent?) | + | [[CMap]] (? Most recent?) |
| − | Turnkey/gmod-web (? most recent?) | + | [[Turnkey]]/[[GMODWeb|gmod-web]] (? most recent?) |
| − | BLAST graphic viewer (? most recent?) | + | [[BLAST Graphic Viewer|BLAST graphic viewer]] (? most recent?) |
Also, there are some things 'on the bubble' that I haven't decided | Also, there are some things 'on the bubble' that I haven't decided | ||
whether they should be installed: | whether they should be installed: | ||
| − | Sybil | + | [[Sybil]] |
| − | Flash GViewer | + | [[Flash GViewer]] |
| − | Textpresso | + | [[Textpresso]] |
| − | BioMart | + | [[BioMart]] |
| − | DAS2 server | + | [[DAS|DAS2 server]] |
Any thoughts on these? | Any thoughts on these? | ||
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Scott | Scott | ||
| − | *Ian Holmes suggested their extentions to GBrowse (AJAX and wiki). | + | *Ian Holmes suggested their extentions to GBrowse ([[:Category:AJAX|AJAX]] and wiki). |
*Eric Just suggested [[Modware]]. | *Eric Just suggested [[Modware]]. | ||
| Line 52: | Line 52: | ||
| − | *Work is on going on Chado core compoents, notably getting a conversion from GFF3 to chadoxml which will require changes to XORT. | + | *Work is on going on Chado core compoents, notably getting a conversion from GFF3 to [[Chado XML|chadoxml]] which will require changes to XORT. |
| − | *There have been a few fixes to the chado adaptor in GBrowse, so it should get a new release soon | + | *There have been a few fixes to the [[GBrowse adaptors|chado adaptor in GBrowse]], so it should get a new release soon |
| − | Also see [[Community | + | Also see [[Community Annotation System]]. |
Revision as of 19:05, 29 February 2008
Initial versions of GMOD virtual machines have been uploaded/documented at the VMWare HOWTO. The Community Annotation System is an example GMOD virtual machine.
This page is for discussion on creating a GMOD virtual machine. The idea was initiated by an email to the GMOD-devel, schema and gbrowse mailing lists:
Hello,
Recently, the people in my lab have been experimenting a lot with VMware for creating virtual machines. I am excited about the potential uses for these virtual machines for several purposes, among them the ability to create a consistent platform for teaching (like giving a classroom a disk with the VMware player and a linux VM with GBrowse preinstalled to give a tutorial), and for creating virtual machines that could be used as a 'test server' that people interested in GMOD software could get and try out without having to set up a server to do it. That is what this email is about.
My goal is two-fold: first I am looking for volunteers. If anybody would like to under take the task of creating a virtual machine and populate it with GMOD software and sample data, I would be thrilled to give guidance and moral support.
Second, I want to get feedback on what should be installed. There is both the question of sample data and software. Here are my thoughts so far:
Chado and related core components (version 0.5 when released)* XORT (0.5 when released)* GBrowse (1.68 when released)** Apollo (1.6.5) CMap (? Most recent?) Turnkey/gmod-web (? most recent?) BLAST graphic viewer (? most recent?)
Also, there are some things 'on the bubble' that I haven't decided whether they should be installed:
Sybil Flash GViewer Textpresso BioMart DAS2 server
Any thoughts on these?
Thanks for your time, Scott
About 'when released'
- Work is on going on Chado core compoents, notably getting a conversion from GFF3 to chadoxml which will require changes to XORT.
- There have been a few fixes to the chado adaptor in GBrowse, so it should get a new release soon
Also see Community Annotation System.
