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Add bio array tests #101
Add bio array tests #101
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Original file line number | Diff line number | Diff line change |
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@@ -127,6 +127,69 @@ let bioCollectionsTests = | |
"BioArray.translate did not translate the transcript correctly." | ||
) | ||
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testCase "isEqual" (fun () -> | ||
Expect.equal | ||
(testTranscript |> BioArray.isEqual testTranscript) | ||
0 | ||
"BioArray.isEqual did not return correct integer when transcripts were equal." | ||
) | ||
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testCase "toString" (fun () -> | ||
Expect.equal | ||
(aminoAcidSetArray |> BioArray.toString) | ||
"ACDEFGHIKLMNOPQRSTUVWYXJZB-*" | ||
"BioArray.toString did not return the correct string" | ||
) | ||
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testCase "toMonoisotopicMass" (fun () -> | ||
Expect.floatClose | ||
Accuracy.high | ||
(testProt |> BioArray.toMonoisotopicMass) | ||
// Masses obtained from University of Washington Proteomics Resource https://proteomicsresource.washington.edu/protocols06/masses.php | ||
(131.04048 + 99.06841 + 113.08406) | ||
"BioArray.toMonoisotopicMass did not return correct mass" | ||
) | ||
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testCase "toAverageMass" (fun() -> | ||
Expect.floatClose | ||
Accuracy.medium // High accuracy was not passing test | ||
(testProt |> BioArray.toAverageMass) | ||
// Masses obtained from University of Washington Proteomics Resource https://proteomicsresource.washington.edu/protocols06/masses.php | ||
(131.19606 + 99.13106 + 113.15764) | ||
"BioArray.toAverageMass did not return correct mass" | ||
) | ||
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testCase "toMonoisotopicMassWith" (fun () -> | ||
Expect.floatClose | ||
Accuracy.high | ||
(testProt |> BioArray.toMonoisotopicMassWith 18.0) // 18 = mass of one water molecule | ||
// Masses obtained from University of Washington Proteomics Resource https://proteomicsresource.washington.edu/protocols06/masses.php | ||
(131.04048 + 99.06841 + 113.08406 + 18.0) | ||
"BioArray.toMonoisotopicMassWith did not return correct mass" | ||
) | ||
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testCase "toAverageMassWith" (fun () -> | ||
Expect.floatClose | ||
Accuracy.medium | ||
(testProt |> BioArray.toAverageMassWith 18.0) // 18 = mass of one water molecule | ||
// Masses obtained from University of Washington Proteomics Resource https://proteomicsresource.washington.edu/protocols06/masses.php | ||
(131.19606 + 99.13106 + 113.15764 + 18.0) | ||
"BioArray.toAverageMassWith did not return correct mass" | ||
) | ||
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testCase "toCompositionVector" (fun () -> | ||
let testCompVec = Array.zeroCreate 26 | ||
There was a problem hiding this comment. Choose a reason for hiding this commentThe reason will be displayed to describe this comment to others. Learn more. In this test you are also dependent on There was a problem hiding this comment. Choose a reason for hiding this commentThe reason will be displayed to describe this comment to others. Learn more. To add changes to this PR, the only thing you have to do is add new commits to your branch, they will be automatically added to the PR. There was a problem hiding this comment. Choose a reason for hiding this commentThe reason will be displayed to describe this comment to others. Learn more. Hi @kMutagene, Thanks for the suggestions. I updated the code to no longer be dependent on BioItem.symbol and committed. There was a problem hiding this comment. Choose a reason for hiding this commentThe reason will be displayed to describe this comment to others. Learn more. Awesome! |
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let metIndex = (int(BioItem.symbol Met)) - 65 | ||
let valIndex = (int(BioItem.symbol Val)) - 65 | ||
let leuIndex = (int(BioItem.symbol Leu)) - 65 | ||
testCompVec.[metIndex] <- testCompVec.[metIndex] + 1 | ||
testCompVec.[valIndex] <- testCompVec.[valIndex] + 1 | ||
testCompVec.[leuIndex] <- testCompVec.[leuIndex] + 1 | ||
Expect.equal | ||
(testProt |> BioArray.toCompositionVector) | ||
testCompVec | ||
"BioArray.toCompositionVector did not return correct vector" | ||
) | ||
] | ||
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testList "BioList" [ | ||
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I also like that you included sources here, so when we have to revisit these tests we have the references in the code.