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Commits on Jul 23, 2021

• Htsget (igvteam#1005)

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  jrobinso

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  8d627d8

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Commits on Jul 21, 2021

• change defaults

  jrobinso

  committed
  299ebc7

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• Preference for specification of minimum base modification probability threshold. Fixes igvteam#991

  jrobinso

  committed
  ccc8800

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Commits on Jul 20, 2021

• Fix broken paired end alignment popup text. Fixes igvteam#1003

  jrobinso

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  00e4323

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• update genomes

  jrobinso

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  16b25d8

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• update hosted genomes

  jrobinso

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  03b34bd

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• Change rule to trigger whole genome view -- consider only "long" chromosomes, that is chromosomes that contribute to the whole genome view.

  jrobinso

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  50e7fa2

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Commits on Jul 16, 2021

• Added entitlements file used for Mac.app notarization

  davideby

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  21d51d1

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Commits on Jul 13, 2021

• Protect more calculated end positions from integer overflow. See issue igvteam#977

  jrobinso

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  40b16d0

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• Try using relative file paths for IDs in session files, useful if the session file and its data is moved to a new file location.

  jrobinso

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Commits on Jul 12, 2021

• .

  jrobinso

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  e2822bd

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• Handel alignments without read sequences (regression). See issue igvteam#977.

  jrobinso

  committed
  7b7c3e6

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• Use full height of track to render features in "COLLAPSED" mode. Fixes igvteam#990

  jrobinso

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  31ea425

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Commits on Jul 9, 2021

• Remove some logging statements

  jrobinso

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  b6c4978

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Commits on Jul 3, 2021

• Save motif track in session. Fixes igvteam#988

  jrobinso

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  63b4eb4

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Commits on Jun 23, 2021

• Fix NPE bug in "copy read details to clipboard".

  jrobinso

  committed
  e7ac092

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Commits on Jun 11, 2021

• Gradle 7.0 compatibility

  

  brainstorm

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  davideby

  committed
  b69c3ba

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Commits on Jun 9, 2021

• add mouse mm39 genome

  jrobinso

  committed
  002743b

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• Fix "reload tracks" bug

  jrobinso

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  c11febf

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Commits on Jun 5, 2021

• Fix integer overflow when computing alignment interval centers for large chromosomes. Fixes igvteam#977

  jrobinso

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  6459c1e

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Commits on Jun 3, 2021

• remove unused code

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  jrobinso

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  4658a36

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• New genome, rheMac10

  jrobinso

  committed
  bd6e2a8

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Commits on May 28, 2021

• bug fix - mutation search

  jrobinso

  committed
  57f8fef

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• Refactor amino acid translation code. See issue igvteam#909

  jrobinso

  committed
  2d051e7

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• Refactor amino acid translation table code. See issue igvteam#909

  jrobinso

  committed
  6a7f6df

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Commits on May 27, 2021

• Check for non-null "tag" name before attempting to retrieve tag value. Fixes igvteam#973

  jrobinso

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  4721127

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• Check for non-null "tag" name before attempting to retrieve tag value. Fixes igvteam#973

  jrobinso

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  8d557fc

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Commits on May 26, 2021

• Amino acid fixes

  jrobinso

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  c8263a1

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Commits on May 25, 2021

• fix unit test

  jrobinso

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  9a4c556

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• Determine alignment track type (DNA, RNA, 3rd gen) on track initialization, rather than on first data load. Fixes igvteam#732

  jrobinso

  committed
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• Write legal TDF file when "counting" alignments that results in no counts, rather than a zero byte file.

  jrobinso

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  d7dff3f

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• Close input streams after each read. Fixes igvteam#748

  jrobinso

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  3914bc7

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• Support dataURL for ascii feature file types batch & port "load" commands. Fixes igvteam#709

  jrobinso

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  662e970

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• Replace <hr> with /n when copying read details to clipboard. Fixes igvteam#880

  jrobinso

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Commits on May 23, 2021

• Changed ToolTip text for better Windows high-contrast support (igvteam#971)

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  davideby

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  d643581

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