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jrobinso

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Commits on Dec 11, 2015

• Change name of method to fetch canonical chromosome name. Its been "backwards" forever and still trips me up, time to change.

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Commits on Dec 10, 2015

• cram beginnings...

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Commits on Dec 4, 2015

• Add chromosome size and alias files to repository

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Commits on Nov 28, 2015

• Recognize gff version directives with major/minor numbers (e.g. ##gffVersion 3.2.1)

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Commits on Nov 26, 2015

• GA4GH: try to guess chromosome naming convention if read query fails. Issue igvteam#181

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• Fix broken unit test

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• Added support for exporting splice junction features

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Commits on Nov 25, 2015

• Fix NPE when exporting splice junction features

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Commits on Nov 22, 2015

• Display error messages returned from google GA4GH posts. Fixes igvteam#181

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Commits on Nov 19, 2015

• Fixes igvteam#177 - preferences set through port command not forcing refresh

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Commits on Nov 8, 2015

• fix launch bug

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Commits on Nov 7, 2015

• Remove LOS popup

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Commits on Nov 3, 2015

• Force use of S3 download as opposed to Cloudfront for download of whole fasta files from Broad buckets

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Commits on Oct 31, 2015

• Fix group autoscale logic

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Commits on Oct 30, 2015

• autoscale bugs

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Commits on Oct 29, 2015

• ditto

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• Increase startup shell script memory settings to 4GB

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• Disable group autoscale for production release

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Commits on Oct 26, 2015

• Store group autoscale counter in session

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Commits on Oct 25, 2015

• Add menu item for "group autoscale", active when multiple tracks are selected. Issue igvteam#25

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• Added utility class for byte [] subarrays

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Commits on Oct 24, 2015

• Bug fix -- base not shown in alignment popup if read sequence === ref sequence

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• Combine "Load from URL" and "Load file and index from URL" menu items. See pull request igvteam#176

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Commits on Oct 23, 2015

• Remove feature track filter from Sashimi plots (filtered features without exons). Its confusing to see features in the IGV window and not in the Sashimi plot, and anyway why would we want to hide t…

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• Minor tweaks for pull request igvteam#176. Move "auto file discovery" cb from "Tracks" to "Advanced" tab. Add widget to JFormDesigner form to prevent it being removed upon code re-generation. Rever…

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Commits on Oct 22, 2015

• Bug fix -- data scale not drawn in coverage track

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Commits on Oct 21, 2015

• Bug fix -- user defined gene lists were not editable

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• Pull request merge

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• Merge pull request igvteam#115 from jpiper/master

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Commits on Oct 20, 2015

• Partial fix for locked file handles, issue igvteam#77. This commit should fix non-indexed files.

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• updated release notes

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• Fixes igvteam#177

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• Remove unreliable test

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• LOS support

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Commits on Oct 19, 2015

• group autoscale

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