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Commits on Mar 4, 2014

• Fix for igv-help issue "IGV doesn't like fasta file", https://groups.google.com/forum/#!topic/igv-help/3X7EMCefH0U

  jrobinso

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Commits on Feb 27, 2014

• Fix bug in using buffer "overlap" in IGVSeekableBufferedStream, introduced in commit 178de52.

  jrobinso

  committed
  757a9b8

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Commits on Feb 26, 2014

• Remove dependence on apache commons lang

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  Jacob Silterra

  committed
  358a00e

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• Replace goby jar with property

  

  Jacob Silterra

  committed
  8bf79e7

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• Fix version checking bug

  jrobinso

  committed
  e8a1aba

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• Add version check on startup

  jrobinso

  committed
  995846b

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Commits on Feb 21, 2014

• Change sort order in fileHeader on SAM/BAM export

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  Jacob Silterra

  committed
  0decdc8

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• Add more info to alignment writing error message

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  Jacob Silterra

  committed
  cd2e434

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• Add error dialog if alignments cannot be output

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  Jacob Silterra

  committed
  edf394e

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Commits on Feb 20, 2014

• Fix typo in batik-codec file name

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  Jacob Silterra

  committed
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Commits on Feb 19, 2014

• Fix script - batik & goby jar names

  jrobinso

  committed
  b7a557e

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• Reduce memory warning threshold from 600mb to 400mb

  jrobinso

  committed
  ffb2196

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• Enable downloading sequence in production

  

  Jacob Silterra

  committed
  de382f1

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• Cursor updates. Add ability to switch signal column (score, signals, pvalue, qvalue) for encode peak tracks.

  jrobinso

  committed
  22cc486

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Commits on Feb 18, 2014

• Rename goby & batik jars to include version numbers

  jrobinso

  committed
  f9ece38

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• Cursor bug fixes

  jrobinso

  committed
  044f6a8

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• IGV-2076 - A "404" should not count as a failed HEAD request for purposes of retrying with GET. The GET will also fail with a 404.

  jrobinso

  committed
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Commits on Feb 14, 2014

• Improve searching for DownsampledInterval so it can't get caught in infinite regress

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  Jacob Silterra

  committed
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Commits on Feb 13, 2014

• Have getChromosomeLength behave as expected

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  Jacob Silterra

  committed
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Commits on Feb 12, 2014

• Properly increment redirectCount

  

  Jacob Silterra

  committed
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Commits on Feb 11, 2014

• Merge branch 'master' of github.com:broadinstitute/IGV

  

  Jacob Silterra

  committed
  2c7b794

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• Force gene track to load synchronously in SashimiPlot

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  Jacob Silterra

  committed
  ce38c0f

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Commits on Feb 10, 2014

• Cusor updates

  jrobinso

  committed
  2f7aba8

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• Cursor updates, many bug fixes

  jrobinso

  committed
  f14c6bb

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• Fix minor bug with feature overlap test. End coordinate is not part of interval, so feature (0,1) does not overlap feature (1,2).

  jrobinso

  committed
  7d645c6

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Commits on Feb 8, 2014

• Fix round-off bug in IGVFeatureRenderer.

  jrobinso

  committed
  3735cfe

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Commits on Feb 7, 2014

• Add oracle jdbc

  

  Jacob Silterra

  committed
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Commits on Feb 5, 2014

• Genbank updates: (1) if ACCESSION is blank or missing, use LOCUS for chr name. (2) allow gbk files to be loaded for feature definitions, ignoring fasta section.

  jrobinso

  committed
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Commits on Feb 3, 2014

• Use higher-res icon

  

  Jacob Silterra

  committed
  8990ed2

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• Change DBProfileEditor to be enabled in development mode

  

  Jacob Silterra

  committed
  a34ad53

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• Add IGV icon in icns format to resources, for use in Mac App, and add appropriate attribute to bundle task so it shows up now. Add commented line to include JRE in mac bundle

  

  Jacob Silterra

  committed
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Commits on Jan 31, 2014

• Merge branch 'LoadFilesWithCommas'

  

  Jacob Silterra

  committed
  b7784d2

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Commits on Jan 30, 2014

• Fix bug where max zoom didn't properly recalculate when changing chromosome

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  Jacob Silterra

  committed
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Commits on Jan 28, 2014

• Added missing "Cursor" classes

  jrobinso

  committed
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Commits on Jan 27, 2014

• Redo some logging

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  Jacob Silterra

  committed
  a2f2baa

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