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Addition of Unit Testing for all projects #30

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kMutagene opened this issue Nov 8, 2018 · 1 comment
Open

Addition of Unit Testing for all projects #30

kMutagene opened this issue Nov 8, 2018 · 1 comment
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good first issue priority-medium project-all Issues regarding all projects up-for-grabs
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@kMutagene
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kMutagene commented Nov 8, 2018 •
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Description

None of the projects currently contain any unit tests. There are placeholder tests under the BioFSharp.Tests.NetCore project, which use Expecto.

How to design tests:
Basically, you can do what you want, as long as the test is as granular and self-contained as possible. Some inspiration can be taken from the current tests or this blog post:
https://stackify.com/unit-testing-basics-best-practices/ (ignore the C# code and setup instructions and focus on the concepts)

How to add tests:

How to run tests(from project root):

  • Windows: ./build.cmd -t runTestsAll
  • Linux: ./build.sh -t runTestsDotnet

Starting point resources

Expecto docs
This well written blog post
@kMutagene kMutagene added up-for-grabs priority-medium project-all Issues regarding all projects labels Nov 8, 2018
@kMutagene kMutagene pinned this issue Jul 25, 2019
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Example commit for addition of tests: 456b000

ZimmerD added a commit that referenced this issue Aug 1, 2019
@ZimmerD
#30: add unit tests for Element.fs
34f7c49
ZimmerD added a commit that referenced this issue Aug 1, 2019
@ZimmerD
#30: refactor existing unit tests
0a51f94
ZimmerD added a commit that referenced this issue Aug 1, 2019
@ZimmerD
#30: refactor tests using nested testlists
728091b
ZimmerD added a commit that referenced this issue Aug 1, 2019
@ZimmerD
#30: finished Unit testing Elements.fs
0204260
ZimmerD added a commit that referenced this issue Aug 2, 2019
@ZimmerD
#30: unit testing formula.fs
87344ef
ZimmerD added a commit that referenced this issue Aug 2, 2019
@ZimmerD
#30: refactor unit testing
23f7a3c
ZimmerD added a commit that referenced this issue Aug 2, 2019
@ZimmerD
#30: add unit tests for IBioItem.fs
87279e1
ZimmerD added a commit that referenced this issue Aug 2, 2019
@ZimmerD
#30: add unit testing TaggedSequence.fs
adc4108
ZimmerD added a commit that referenced this issue Aug 5, 2019
@ZimmerD
add Testing.fs
0472f29 
#30: add unit testing IsotopicDistribution.fs
@kMutagene kMutagene added this to the Backlog milestone Feb 19, 2020
kMutagene added a commit that referenced this issue Jun 22, 2020
@kMutagene
#30 Add unit tests for BioCollections functions
9ae84cc
ZimmerD added a commit to ZimmerD/BioFSharp that referenced this issue Jun 26, 2020
@ZimmerD
CSBiology#30: add unit tests for Digestion.isCuttingSide
6cea597
This was referenced Jul 17, 2020
Merged
Merged
kMutagene pushed a commit that referenced this issue Jul 21, 2020
@graemevissers
#30 : Add bio list tests (#103)
92060ff 
* Add testCase "isEqual" to BioList testList

* Add testCase "toString" to testList "BioList"

* Fix "toString" and add "toMonoisotopicMass" test

* Add testCase "toAverageMass"

* Add "toMonoisotopicMassWith"

* Add testCase "toAverageMassWith"

* Add testCase "toCompositionVector"

* Fix error message for "toCompositionVector"

* Change "BioList.ofBioArray" to "List.ofArray"
kMutagene referenced this issue Jul 21, 2020
@kMutagene
Add Amino Acid name and symbol tests
d1cf06b
@kMutagene kMutagene mentioned this issue Jul 29, 2020
Merged
1 task
kMutagene pushed a commit that referenced this issue Jul 29, 2020
@graemevissers
#30 : Add BioSeq tests (#106)
af6ef09 
* Add testCase "isEqual" to BioList testList

* Add testCase "toString" to testList "BioList"

* Fix "toString" and add "toMonoisotopicMass" test

* Add testCase "toAverageMass"

* Add "toMonoisotopicMassWith"

* Add testCase "toAverageMassWith"

* Add testCase "toCompositionVector"

* Fix error message for "toCompositionVector"

* Change "BioList.ofBioArray" to "List.ofArray"

* Change BioSeq.ofArray to Seq.ofArray

* Add "isEqual" to testList "BioSeq"

* Add testCase "toString"

* Add testCase "toMonoisotopicMass"

* Add testCase "toAverageMass"

* Add testCase "toMonoisotopicMassWith"

* Add testCase "toAverageMassWith"

* Add testList "toCompositionVector"
kMutagene pushed a commit that referenced this issue Aug 7, 2020
@graemevissers
#30: Add AminoAcids tests (#107)
acc78f9 
* Add "teset_rangePpm" to testList "BioFSharp.Mass"

* Add testCase "formula" to testList "AminoAcids"

* Add "formulaModifiedAA" to testList "AminoAcids"

* Fix "formulaModifiedAA" testCase

* Add "isTerminator" to testList "AminoAcids"

* Add "isGap" to testList "AminoAcids"

* Add "setModification" to testList "AminoAcids"

* Clean up tests

* Change error message for test "setModification"

* Add "setModifications" to "AminoAcids" testList

* Add "getModifications" to "AminoAcids" testList
kMutagene added a commit that referenced this issue Aug 21, 2020
@graemevissers @kMutagene
#30: Add amino acid tests (#108)
1f317ba 
* Add "teset_rangePpm" to testList "BioFSharp.Mass"

* Add testCase "formula" to testList "AminoAcids"

* Add "formulaModifiedAA" to testList "AminoAcids"

* Fix "formulaModifiedAA" testCase

* Add "isTerminator" to testList "AminoAcids"

* Add "isGap" to testList "AminoAcids"

* Add "setModification" to testList "AminoAcids"

* Clean up tests

* Change error message for test "setModification"

* Add "setModifications" to "AminoAcids" testList

* Add "getModifications" to "AminoAcids" testList

* Add testCase "getAminoAcidWithoutMod"

* Add test "tryGetModifications"

* Add test "tryGetModifications_withNone"

* Add test "isotopicLabelFunc"

* Add "isotopicLabelFunc_withUnmodifiedAAs"

* Add "charToParsedAminoAcidChar"

* Add test "aminoAcidSetStandard"

* Add test "aminoAcidSetProteinogenic"

* Add test "aminoAcidSetProteinogenicEucaryotes"

* Add test "aminoAcidSetAmbiguity"

* Add test "aminoAcidSetGapTer"

* Add test "aminoAcidSetPosCharged"

* Add test "aminoAcidSetNegCharged"

* Add test "aminoAcidSetPolarUncharged"

* Add test "aminoAcidSetHydrophobic"

* Add test "aminoAcidSetSpecialCases"

* Add test "isPolarUncharged"

* Add test "isModified_withUnmodAAs"

* Add test "isModified_withModAAs"

* Add test "getModifications_withUnmodAAs"

* Delete coverage.xml.637327725072680050L.exn

Seems like these are artifacts from your testing process, i cant reproduce these when starting the tests from your branch, so i would delete these and merge the PR afterwards

* Delete coverage.xml.637330276045185520L.exn

see previous commit

* Fix merge commit for aa tests

Co-authored-by: Kevin Schneider <schneider.kev@outlook.de>
Co-authored-by: Kevin Schneider <kevin-schneider@mutagene.de>
kMutagene pushed a commit that referenced this issue Aug 26, 2020
@graemevissers
#30: Add nucleotide tests (#109)
668753c 
* Add testCase "symbol"

* Add test "formula"

* Add test "isTerminator"

* Add test "isTerminator"

* Add test "isGap"

* Add test "name"

* Add NucleotideTests.fs to Main. Fix errors

* Add test "charToParsedNucleotideChar"

* Add test "complement"

* Add test "replaceTbyU"

* Add test "replaceUbyT"
graemevissers added a commit to graemevissers/BioFSharp that referenced this issue Aug 26, 2020
@graemevissers
Merge pull request #4 from CSBiology/developer
7f36eae 
CSBiology#30: Add nucleotide tests (CSBiology#109)
kMutagene added a commit that referenced this issue Sep 9, 2020
@graemevissers @kMutagene
#30: Add phyl tree tests (#110)
604a6cc 
* Add test "countLeafs"

* Add test "map"

* Add test "iter"

* Add test "fold"

* Add test "tryGetNodeBy"

* Delete coverage.xml.637344003428108790L.exn

Co-authored-by: Kevin Schneider <schneider.kev@outlook.de>
HLWeil pushed a commit to HLWeil/BioFSharp that referenced this issue Sep 21, 2020
@graemevissers @HLWeil
CSBiology#30: Add AminoAcids tests (CSBiology#107)
075d5e9 
* Add "teset_rangePpm" to testList "BioFSharp.Mass"

* Add testCase "formula" to testList "AminoAcids"

* Add "formulaModifiedAA" to testList "AminoAcids"

* Fix "formulaModifiedAA" testCase

* Add "isTerminator" to testList "AminoAcids"

* Add "isGap" to testList "AminoAcids"

* Add "setModification" to testList "AminoAcids"

* Clean up tests

* Change error message for test "setModification"

* Add "setModifications" to "AminoAcids" testList

* Add "getModifications" to "AminoAcids" testList
HLWeil pushed a commit to HLWeil/BioFSharp that referenced this issue Sep 21, 2020
@graemevissers @kMutagene @HLWeil
CSBiology#30: Add amino acid tests (CSBiology#108)
b9baf82 
* Add "teset_rangePpm" to testList "BioFSharp.Mass"

* Add testCase "formula" to testList "AminoAcids"

* Add "formulaModifiedAA" to testList "AminoAcids"

* Fix "formulaModifiedAA" testCase

* Add "isTerminator" to testList "AminoAcids"

* Add "isGap" to testList "AminoAcids"

* Add "setModification" to testList "AminoAcids"

* Clean up tests

* Change error message for test "setModification"

* Add "setModifications" to "AminoAcids" testList

* Add "getModifications" to "AminoAcids" testList

* Add testCase "getAminoAcidWithoutMod"

* Add test "tryGetModifications"

* Add test "tryGetModifications_withNone"

* Add test "isotopicLabelFunc"

* Add "isotopicLabelFunc_withUnmodifiedAAs"

* Add "charToParsedAminoAcidChar"

* Add test "aminoAcidSetStandard"

* Add test "aminoAcidSetProteinogenic"

* Add test "aminoAcidSetProteinogenicEucaryotes"

* Add test "aminoAcidSetAmbiguity"

* Add test "aminoAcidSetGapTer"

* Add test "aminoAcidSetPosCharged"

* Add test "aminoAcidSetNegCharged"

* Add test "aminoAcidSetPolarUncharged"

* Add test "aminoAcidSetHydrophobic"

* Add test "aminoAcidSetSpecialCases"

* Add test "isPolarUncharged"

* Add test "isModified_withUnmodAAs"

* Add test "isModified_withModAAs"

* Add test "getModifications_withUnmodAAs"

* Delete coverage.xml.637327725072680050L.exn

Seems like these are artifacts from your testing process, i cant reproduce these when starting the tests from your branch, so i would delete these and merge the PR afterwards

* Delete coverage.xml.637330276045185520L.exn

see previous commit

* Fix merge commit for aa tests

Co-authored-by: Kevin Schneider <schneider.kev@outlook.de>
Co-authored-by: Kevin Schneider <kevin-schneider@mutagene.de>
HLWeil pushed a commit to HLWeil/BioFSharp that referenced this issue Sep 21, 2020
@graemevissers @HLWeil
CSBiology#30: Add nucleotide tests (CSBiology#109)
9fbd9ab 
* Add testCase "symbol"

* Add test "formula"

* Add test "isTerminator"

* Add test "isTerminator"

* Add test "isGap"

* Add test "name"

* Add NucleotideTests.fs to Main. Fix errors

* Add test "charToParsedNucleotideChar"

* Add test "complement"

* Add test "replaceTbyU"

* Add test "replaceUbyT"
HLWeil pushed a commit to HLWeil/BioFSharp that referenced this issue Sep 21, 2020
@graemevissers @kMutagene @HLWeil
CSBiology#30: Add phyl tree tests (CSBiology#110)
9a4910b 
* Add test "countLeafs"

* Add test "map"

* Add test "iter"

* Add test "fold"

* Add test "tryGetNodeBy"

* Delete coverage.xml.637344003428108790L.exn

Co-authored-by: Kevin Schneider <schneider.kev@outlook.de>
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