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Roslin qc#151

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stevekm wants to merge 46 commits intodevelopmskcc/beagle:developfrom roslin-qcmskcc/beagle:roslin-qcCopy head branch name to clipboard

+21,014-161

Commits

Commits on Jan 22, 2020

• fix merge conflict

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Commits on Jan 28, 2020

• Merge branch 'develop' into test-pairing

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Commits on Jan 29, 2020

• add tests for base RoslinQcOperator class

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Commits on Feb 4, 2020

• add test to Makefile

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• Merge branch 'develop' into roslin-qc

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Commits on Feb 5, 2020

• merge against develop

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  0d4dfb9

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• update fixture dump script for dumping Run's

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• start Roslin QC operator and input parsing with tests and fixtures

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• merge against develop

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Commits on Feb 11, 2020

• add tests for serializer using output_metadata field

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• merge against develop

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Commits on Feb 12, 2020

• update demo run methods and input.json template

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Commits on Feb 15, 2020

• add fixture duplication script

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• Merge branch 'duplication-script' into roslin-qc

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Commits on Feb 16, 2020

• add multiple run handling for roslin qc input, update fixtures and scripts

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• merge against develop

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• merge against develop

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Commits on Feb 18, 2020

• add RoslinQCOperator to get by classname for Operator Factory

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Commits on Feb 19, 2020

• make Roslin operator data easier to read

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  de58404

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• update Makefile and operator tests

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  e9670d1

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• add roslin qc pipeline fixture

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  30284a2

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• clean up Roslin operator

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• add sorting to QC inputs for reproducibility

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  5eccbf1

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• update Roslin qc operator and tests

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Commits on Feb 20, 2020

• disable bid to cwl conversion since its handled elsewhere

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• remove CWL conversion

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Commits on Feb 24, 2020

• refactor job data generation methods

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  2787baa

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• update Roslin QC operator tests

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  0d2bc2b

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• update test for input generation

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  e615bf4

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• merge against develop and fix conflicts

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Commits on Feb 25, 2020

• merge against develop

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• merge against roslin-qc

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  39f13c8

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• update serializer tests

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• merge against roslin-qc

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• update import recipe

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• move server log to logs dir

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• update API run view to support Run IDs, fixes #157

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Commits on Feb 26, 2020

• fix service checking in Makefile before trying to start server

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• add job JSON dumping

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Commits on Feb 27, 2020

• remove exception

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• change filemetadata query method

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• add completion script

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• merge against develop

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Commits on Mar 3, 2020

• merge against develop

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• add dump all pipelines to script

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Commits on Mar 4, 2020

• refactor roslin qc operator to use updated roslin pipeline output

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