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• Converting GFF2 to GFF3
  GFF data is provided to CSHL as part of the Wormbase build. The data is provided in GFF2 format and converted to GFF3 at the CSH Conversion script: $WORMBASE/util/import_export/wormbase_gff2togff3.pl
  2 KB (286 words) - 18:26, 11 August 2010
• BLAST/BLAT Page
  The Wormbase BLAST/BLAT page can be accessed by the "Blast / Blat" link on the top navig $WORMBASE/cgi-perl/searches/blast_blat (CGI script)
  4 KB (506 words) - 20:45, 10 August 2010
• Configuring a server to host virtual machines
  WormBase uses virtual machines to quickly and easily create frozen releases. scp brie6.cshl.org:/usr/local/vmx/wormbase-WS110.2003.10.01.tgz .
  2 KB (316 words) - 18:22, 11 August 2010
• Interaction Display in the Gene Page
  There are two types of interaction objects in Wormbase: Interaction and YH. Interaction class holds a number of interaction types ...aims to provide a consolidated compact view of the interaction objects in Wormbase. It replaces the previous views.
  2 KB (328 words) - 23:39, 13 August 2010
• Base node configuration - CentOS5
  Configuring a fresh install of Cent OS 5 for WormBase [[Category:Developer documentation]]
  2 KB (225 words) - 20:53, 10 August 2010
• First-pass schedule, instructions, automation
  [[Caltech documentation]]<br> |WormBase re-evalutation||6/22-7/5: IWM||(?)
  2 KB (241 words) - 23:04, 13 August 2010
• GBrowseInstallation
  Notes on installing Gbrowse in the WormBase environment. One barrier to packaging GBrowse with the rest of the wormbase code-base in CVS has been the architecture dependent paths that GBrowse use
  2 KB (339 words) - 23:10, 13 August 2010
• How to build a frozen release
  6. Edit /usr/local/wormbase/conf/localdefs.pm and httpd.conf with the appropriate hostname tar czf wormbase-WS100.2003.05.13-server.tgz wormbase-WS100.2003.05.13
  2 KB (282 words) - 23:34, 13 August 2010
• WBConfCall 2013.05.16-Agenda and Minutes
  *WormBase posters will be assigned a session and poster board ***[https://github.com/WormBase/website/issues/1205 Genes]
  2 KB (295 words) - 16:39, 16 May 2013
• Entering New Paper Objects
  ...spec/models.wrm?root=ensembl&view=log as specified in the ?Paper model] in WormBase. ...daily to select those that should be included in the curation pipeline and WormBase bibliography.
  3 KB (403 words) - 16:02, 27 March 2019
• Detailed Documentation of Form and Scripts
  **See the [[User_Guide_for_Curators]] for documentation of how the form works from a users' perspective. **See the [[ccc.cgi documentation]] for more specific details about the code.
  5 KB (817 words) - 15:11, 18 February 2014
• Website:Rearchitecture Development Duties
  '''WormBase::API Czar''' -- ''Oversee development of the external Model'' -- '''Norie'' * See the [[Website:Profiling|Profiling documentation]] for additional details and progress.
  2 KB (261 words) - 00:48, 24 December 2010
• WormBase-Caltech Weekly Calls November 2013
  * Citace upload deadline will be 6pm Monday, November 25th (added to WormBase calendar) * We will want to provide a public notice (likely via the WormBase blog) about what topic we have focused on for that release of the database/
  10 KB (1,664 words) - 17:02, 4 December 2013
• Using private development sites
  ...velopment environments help to avoid these conflicts. But with a site like WormBase that has large memory and hard disk requirements, maintaining a separate en http://bitbucket.org/tharris/wormbase-admin/src/tip/util/create_private_wormbase/create_private_wormbase.sh
  2 KB (381 words) - 18:42, 17 August 2010
• Brute force - modencode migration
  This method does not lift-over the data to the current version of WormBase. This data will be mapped to WS190. This a temporary fix while we wait fo ** -> wb-dev : /usr/local/wormbase/gbrowse_current/conf/FOLDER_SPECIFIED_IN_WORM.CONF
  2 KB (370 words) - 22:56, 10 August 2010
• WormBase-Caltech Weekly Calls May 2019
  ** Raymond: thinking of putting blurb on a separate documentation page * Can we track who is using this tool (and others)? SObA is hosted by WormBase so we'd have to ask Todd (Google analytics); SimpleMine is Caltech hosted s
  6 KB (911 words) - 17:13, 6 June 2019
• WBConfCall 2020.12.17-Agenda and Minutes
  * WormBase Social Hour? * WormBase list of data types to bring into the Alliance
  3 KB (408 words) - 17:27, 17 December 2020
• Updating WormMart
  "ftp://ftp.sanger.ac.uk/pub/wormbase/WS${WB_RELEASE} $ cd $HOME/mart-build/scripts/wormbase-mart
  2 KB (289 words) - 18:24, 17 August 2010
• Importing Protein Structure Data
  ...Wormbase proteins (Wormpep) and they are displayed in the context of the Wormbase gene page. $WORMBASE/util/import_export/compile_3d_data/
  3 KB (408 words) - 23:36, 13 August 2010
• WBConfCall 2019.04.18-Agenda and Minutes
  ...me effort; essentially only one person); already had most of the requested documentation ** Improved documentation of plans and workflows
  5 KB (611 words) - 17:09, 18 April 2019

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