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Updating GitHub actions [19]
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.github/workflows/integration-test-suite.yaml

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@@ -124,7 +124,7 @@ jobs:
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TESTPATH: ${{ steps.testsuite-filepath.outputs.TESTPATH }}
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run: |
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echo "TESTPATH is '$TESTPATH'"
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cabal run $TESTPATH ${PROJECTFILE} -- ${TESTOPTIONS}
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$TESTPATH -- ${TESTOPTIONS}
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# - name: 'When Failed - Send Notification Email'
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# if: ${{ failure() }}

PhyG.cabal

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@@ -494,23 +494,18 @@ Library dynamic-character
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lib/dynamic-character/src
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Build-Depends:
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-- PHANE-alphabet,
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PHANE-dynamic-character,
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PHANE-dynamic-character-element,
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PhyG:tcm,
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PhyG:utility,
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base >= 4.11 && < 5.0,
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-- bv-little,
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containers >= 0.6.2 && < 1.0,
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matrices >= 0.5 && < 1.0,
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monad-loops >= 0.4 && < 1.0,
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primitive >= 0.7.1 && < 1.0,
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vector >= 0.12.0.3 && < 1.0,
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Exposed-Modules:
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-- Bio.DynamicCharacter
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-- Bio.DynamicCharacter.Measure
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-- Bio.DynamicCharacter.HandleGaps
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DirectOptimization.Pairwise
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DirectOptimization.Pairwise.Visualization
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DirectOptimization.Pairwise.Swapping
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lib/tcm/src
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Build-Depends:
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-- PHANE-dynamic-character,
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PHANE-dynamic-character-element,
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PhyG:utility,
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binary >= 0.8 && < 1.0,
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Test.QuickCheck.Instances.DynamicCharacter
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-- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- --
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--
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-- Additional executables which exist for the one of a few select purposes:
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--
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-- * Generating data for PCG/PhyG input
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--
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-- * Debugging the component sub-libraries of PCG/PhyG and PCG/PhyG itself
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--
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-- * Performing correctness verification
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--
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-- * Stocastically searching for non-totality counterexamples
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--
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-- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- -- --
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--Executable inspect-dynamic-character
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--
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-- Import:
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-- build-defaults,
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--
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-- Scope:
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-- private
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--
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-- Main-Is:
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-- Inspect.hs
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--
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-- HS-Source-Dirs:
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-- lib/dynamic-character/test
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--
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-- Build-Depends:
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-- PHANE-alphabet,
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-- PhyG:dynamic-character,
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-- PhyG:tcm,
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-- base >= 4.11 && < 5.0,
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-- bimap >= 0.3 && < 1.0,
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-- containers >= 0.6.2 && < 1.0,
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-- QuickCheck >= 2.14 && < 3.0,
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-- tasty >= 1.4 && < 2.0,
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-- tasty-quickcheck >= 0.10 && < 1.0,
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-- vector >= 0.12.0.3 && < 1.0,
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--
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-- Other-Modules:
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-- Test.Aligners
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-- Test.QuickCheck.Instances.DynamicCharacter
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Benchmark bench-memoized-hashtable
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Import:

config/cabal.project.integration

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@@ -197,7 +197,7 @@ Package *
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optimization: 2
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-- Applies to *only* the specified package!
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package PHAGE-integration-tests
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package PhyG-integration-tests
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benchmarks: False
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documentation: False
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tests: True
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flags: +SingleThreaded
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package PhyGraph
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package PhyG
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benchmarks: False
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documentation: False
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tests: False

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