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Commits on Dec 21, 2021

• updated usage of referenced hash to explicitly dereference the reference

  elyons

  committed
  1d9a8e8

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• updated lib paths for installing coge modules to use local directories only

  elyons

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Commits on Sep 11, 2020

• added in an admin function to clean out results and accessory files from a SynMap analysis. This is to help users when a problem occured with their SynMap analysis.

  

  Eric Lyons

  committed
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• initial import

  

  Eric Lyons

  committed
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Commits on Jun 29, 2020

• added in addition entries to skip. These are generated by maker and include protein_match, match, match_part, and expressed_sequence_match

  

  Eric Lyons

  committed
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Commits on Jun 4, 2020

• updated get_bed to take feature type for generating bed files

  

  Eric Lyons

  committed
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• updated BED file creation to generate a file with all or for each feature when selecting from feature list

  

  Eric Lyons

  committed
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• update generate_bed to call new version of program and handle a new option for specifying feature types

  

  Eric Lyons

  committed
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• initial import: new and imporved program for generating bed files from coge. Allows for the specification of a feature_type or generates entries for all features in the genome.

  

  Eric Lyons

  committed
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• updated message for when there is an error connecting to the CyVerse datastore that includes a link to better instructions than previous messagE

  

  Eric Lyons

  committed
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Commits on Apr 21, 2020

• commented out a 'no results' message as this is now handled by gobe.py

  

  Eric Lyons

  committed
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• added 'no results found' to results array if no results are found

  

  Eric Lyons

  committed
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• added funtion to show all annotations for a feature at a given point in a GEvo image when a point is clicked

  

  Eric Lyons

  committed
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• added 'no results' message when retrieve data for gobe visualizer

  

  Eric Lyons

  committed
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Commits on Apr 20, 2020

• updated information displayed about a feature to include genome id

  

  Eric Lyons

  committed
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Commits on Mar 17, 2020

• fixed bug where sliders would only work correctly for images with width of 1000 pixels.

  elyons

  committed
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• added setup_images() call when SVG is started to track sequences being added/removed from subsequent GEvo analysis. Major changes are in GEvo.tmpl

  elyons

  committed
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• extensive update to deal with sequences being skipped/added on repeated GEvo runs. Mimics behavior of Flash version more accurately

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Commits on Mar 12, 2020

• updated sort for datasets when feature name is entered

  elyons

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• removed debugging message

  elyons

  committed
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• fixed minor bug where genome_id was passed rather than the genome object

  elyons

  committed
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• updated search order returned of datasets; added check marks and stars for certified and favorite genomes

  elyons

  committed
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• removed a lot of commented out OLD code

  elyons

  committed
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• commented out some bad code that was modifying the file name and causing problems with direct sequence submissions

  

  Eric Lyons

  committed
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Commits on Mar 4, 2020

• updated file names from GEvo.tmpl to GEvo-old.tmpl to reflect renaming of GEvo files

  elyons

  committed
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• updated file names from GEvo-new.tmpl to GEvo.tmpl to reflect renaming of GEvo files

  elyons

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• renaming GEvo. Flash version is now GEvo-old, non-flash version is now GEvo

  elyons

  committed
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• renaming GEvo. Flash version is now GEvo-old, non-flash version is now GEvo

  elyons

  committed
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• updated bug with autogo parameter

  

  Eric Lyons

  committed
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• fixed bug with autogo flag not working

  

  Eric Lyons

  committed
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Commits on Feb 13, 2020

• Merge branch 'master' of github.com:LyonsLab/coge

  

  Eric Lyons

  committed
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• commented out old references to using flash

  elyons

  committed
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• updated to use fixed version of GEvo

  elyons

  committed
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• Merge branch 'master' of github.com:LyonsLab/coge

  elyons

  committed
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• updated gevo with HTML visualizer

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