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Adjusting canvas height based GenotypeTrack height #12

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Commits on Oct 3, 2016

  1. pass all tests

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  2. pass all tests

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  3. ga4gh data source loaded in, compatible with mango, no error

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  4. starting reference

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  5. continued reference implementation

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  6. added test resources for ADAM alignments

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  7. modified alignment json for test

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  8. continue reference

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  9. tests passing for reference

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  10. reference through server now works

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  11. variants now work

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  12. added key to remote request

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  13. starting reference

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  14. continued reference implementation

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  15. added test resources for ADAM alignments

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  16. continue reference

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  17. tests passing for reference

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  18. reference through server now works

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  19. variants now works

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  20. pileup can now display genotypes

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  21. completed the genotype feature and variant class files

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  22. Create the FeatureDataSource.js file and tweak Feature.js Variant.js … 

    …and Genotype.js constructors to take in objects instead
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  23. Completed the FeatureDataSource.js file and also completed most of Fe… 

    …atureDataSource-test.js file
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  24. Finished FeatureDataSouce along with FeatureEndpoint files to work wi… 

    …th RemoteRequest file
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  25. completed the feature test file

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  26. finished feature.js featuredatasource.js and featuredatasource-test.js

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  27. removed genotype.js and variant.js since they were incomplete

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  28. added featuredatasource to pileup.js file

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  29. completed the genotype feature and variant class files

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  30. Create the FeatureDataSource.js file and tweak Feature.js Variant.js … 

    …and Genotype.js constructors to take in objects instead
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  31. Completed the FeatureDataSource.js file and also completed most of Fe… 

    …atureDataSource-test.js file
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  32. removed genotype.js and variant.js since they were incomplete

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  33. finished merge conflicts in RemoteRequestjs

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  34. Started working on creating featuredatasource-test.js

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  35. completed generic feature visualization

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  36. added check for negative values and restricted alignment fetch size

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  37. completed gene endpoint

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  38. removed prepush hooks

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  39. Passing more tests

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  40. merge in main pileup updates and modified RemoteRequest

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  41. customized ALT REF colors for variants, greyed genotype

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Commits on Oct 4, 2016

  1. fixed versions, shorted build time

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Commits on Oct 5, 2016

  1. small formatting nits and removing double 'strict' statement

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  2. fixed genotype samples and added unit tests

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  3. Removed alignment test file and renamed Alignment test suite

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  4. fixed ReferenceDataSource and added new test file for genotypes

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Commits on Oct 12, 2016

  1. Minor fixes for zooming in and out on alignments and coverage

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Commits on Oct 13, 2016

  1. added coverage endpoint

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  2. Modified CoverageDataSource to bin by region size

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  3. continued coverage vis

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Commits on Oct 15, 2016

  1. Finished coverage with Resolution cache. Thresholded view to length o… 

    …f chromosome.
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Commits on Nov 1, 2016

  1. Variant end tracking

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Commits on Nov 3, 2016

  1. completed coverage tracks and binning

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Commits on Dec 11, 2016

  1. Merge pull request akmorrow13#4 from Georgehe4/variant_end 

    Variant end tracking
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  2. fixed reference offset visualization

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  3. Merge pull request akmorrow13#5 from akmorrow13/reference 

    fixed reference offset visualization
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Commits on Dec 19, 2016

  1. added checks for null data return types

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Commits on Dec 20, 2016

  1. Merge pull request akmorrow13#6 from akmorrow13/remove-null 

    added checks for null data return types
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Commits on Jan 2, 2017

  1. added score visualization for features

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Commits on Jan 3, 2017

  1. added click and loading functionality for features

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Commits on Jan 10, 2017

  1. updated features to view correctly and show info on click

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  2. Merge pull request akmorrow13#7 from akmorrow13/standardizeFeatures 

    updated features to view correctly and show info on click
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  3. added limit for visualizing large Feature areas

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Commits on Jan 12, 2017

  1. Interval.isCoveredBy() fix for regions not overlapping first interval

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  2. bump version up top 0.6.7

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  3. rename poorly-named parameter

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  4. handle non-compressed BigBed files 

    Also document cryptic comment / "+2" offset.
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  5. relax BigBed version number constraint

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  6. spacing nit

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  7. CR: add types, clean up test

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  8. Resolve load alignment jump issues

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  9. bump version up to 0.6.8

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  10. pass all tests

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  11. pass all tests

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  12. ga4gh data source loaded in, compatible with mango, no error

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  13. starting reference

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  14. continued reference implementation

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  15. added test resources for ADAM alignments

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  16. modified alignment json for test

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  17. continue reference

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  18. tests passing for reference

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  19. reference through server now works

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  20. variants now work

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  21. added key to remote request

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  22. starting reference

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  23. continued reference implementation

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  24. added test resources for ADAM alignments

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  25. continue reference

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  26. tests passing for reference

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  27. reference through server now works

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  28. variants now works

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  29. pileup can now display genotypes

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  30. completed the genotype feature and variant class files

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  31. Create the FeatureDataSource.js file and tweak Feature.js Variant.js … 

    …and Genotype.js constructors to take in objects instead
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  32. Completed the FeatureDataSource.js file and also completed most of Fe… 

    …atureDataSource-test.js file
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  33. Finished FeatureDataSouce along with FeatureEndpoint files to work wi… 

    …th RemoteRequest file
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  34. completed the feature test file

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  35. finished feature.js featuredatasource.js and featuredatasource-test.js

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  36. removed genotype.js and variant.js since they were incomplete

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  37. added featuredatasource to pileup.js file

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  38. completed the genotype feature and variant class files

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  39. Create the FeatureDataSource.js file and tweak Feature.js Variant.js … 

    …and Genotype.js constructors to take in objects instead
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  40. Completed the FeatureDataSource.js file and also completed most of Fe… 

    …atureDataSource-test.js file
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  41. removed genotype.js and variant.js since they were incomplete

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  42. finished merge conflicts in RemoteRequestjs

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  43. Started working on creating featuredatasource-test.js

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  44. completed generic feature visualization

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  45. added check for negative values and restricted alignment fetch size

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  46. completed gene endpoint

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  47. removed prepush hooks

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  48. Passing more tests

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  49. merge in main pileup updates and modified RemoteRequest

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  50. customized ALT REF colors for variants, greyed genotype

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  51. fixed versions, shorted build time

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  52. small formatting nits and removing double 'strict' statement

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  53. fixed genotype samples and added unit tests

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  54. Removed alignment test file and renamed Alignment test suite

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  55. fixed ReferenceDataSource and added new test file for genotypes

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  56. Minor fixes for zooming in and out on alignments and coverage

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  57. added coverage endpoint

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  58. Modified CoverageDataSource to bin by region size

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  59. continued coverage vis

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  60. Finished coverage with Resolution cache. Thresholded view to length o… 

    …f chromosome.
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  61. completed coverage tracks and binning

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  62. Variant end tracking

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  63. fixed reference offset visualization

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  64. added checks for null data return types

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  65. added score visualization for features

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  66. added click and loading functionality for features

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  67. updated features to view correctly and show info on click

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  68. added limit for visualizing large Feature areas

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Commits on Jan 14, 2017

  1. fixed no data error for alignments and max rows for PileupTrack

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  2. Merge branch 'master' of https://github.com/akmorrow13/pileup.js

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  3. Merge pull request akmorrow13#8 from akmorrow13/alignments 

    fixed no data error for alignments and max rows for PileupTrack
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Commits on Jan 20, 2017

  1. Added loading sign for variants and fixed click functionality

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Commits on Jan 23, 2017

  1. Added resolution cache to variants. Fixed resolution cache to not req… 

    …uest areas already in cache.
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Commits on Jan 27, 2017

  1. finished genotypes

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  2. Merge pull request akmorrow13#9 from akmorrow13/variant-fixes 

    Variant fixes
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    akmorrow13 authored Jan 27, 2017
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  3. binning for features

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Commits on Jan 31, 2017

  1. Fixed error in coverage

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Commits on Feb 21, 2017

  1. Merge branch 'master' of https://github.com/hammerlab/pileup.js 

    # Conflicts:
#	src/main/sources/GA4GHDataSource.js
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Commits on Feb 22, 2017

  1. Removed unused imports, tests for FeatureDataSource and VariantDataSo… 

    …urce now passing
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Commits on Mar 6, 2017

  1. Set transparency of feature based on score value

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    snaheth committed Mar 6, 2017
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  2. Merge pull request akmorrow13#11 from snaheth/master 

    Update Feature Transparency Based on Score
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Commits on Apr 27, 2017

  1. Adjusting canvas height based GenotypeTrack height

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    snaheth committed Apr 27, 2017
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