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Adding files to do with SAM format#218

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sophiemathias wants to merge 18 commits intoacorg:masteracorg/dark-matter:masterfrom sophiemathias:sam-200sophiemathias/dark-matter:sam-200Copy head branch name to clipboard

+756-1

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Commits on Sep 5, 2014

• Adding files related to SAM format. Take 2.

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  897c545

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• Adding test files

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  db31737

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• Fixed pep8

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  deb363d

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• Terry's comments

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  f0f5bef

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Commits on Sep 8, 2014

• Autovivification

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  4278cf8

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• SAMtoJSON seems to work

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  3a06386

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• Adding functionality changed order

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  183e627

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• Adding checks for files

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  3ce8541

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Commits on Sep 9, 2014

• After timing tests removed JSON capabilities

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  0a80d2d

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Commits on Sep 10, 2014

• Optimisation and adding comments

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  bcfd035

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Commits on Sep 11, 2014

• Small changes

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  b339b01

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• Merge branch 'master' into sam-200

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  c897d4a

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• Added check for scoring scheme

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  274ccd7

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• Refined check for scoring scheme

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  30c3215

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• Some minor clean-ups done with Sophie. Made tests run (not working though).

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  6c06c3c

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• Merge pull request acorg#2 from terrycojones/sam-200

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  fbaed20

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Commits on Sep 13, 2014

• Check SAM file problems

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  3fbde7c

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Commits on Nov 2, 2014

• fixed testSAMParamsButNoHits

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  973b8c4

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