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49 lines
1.7 KiB
Go
49 lines
1.7 KiB
Go
package obiseq
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import (
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"testing"
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"github.com/stretchr/testify/assert"
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)
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func TestSubsequence(t *testing.T) {
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// Test case 1: Subsequence with valid parameters and non-circular
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seq := NewBioSequence("ID1", []byte("ATCG"), "")
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sub, err := seq.Subsequence(1, 3, false)
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assert.NoError(t, err)
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assert.Equal(t, []byte("tc"), sub.Sequence())
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seq = NewBioSequenceWithQualities("ID1", []byte("ATCG"), "", []byte{40, 30, 20, 10})
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sub, err = seq.Subsequence(1, 3, false)
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assert.NoError(t, err)
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assert.Equal(t, []byte("tc"), sub.Sequence())
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assert.Equal(t, Quality([]byte{30, 20}), sub.Qualities())
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// Test case 2: Subsequence with valid parameters and circular
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seq2 := NewBioSequence("ID1", []byte("ATCG"), "")
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sub2, err2 := seq2.Subsequence(3, 2, true)
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assert.NoError(t, err2)
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assert.Equal(t, []byte("gat"), sub2.Sequence())
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seq = NewBioSequenceWithQualities("ID1", []byte("ATCG"), "", []byte{40, 30, 20, 10})
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sub, err = seq.Subsequence(3, 2, true)
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assert.NoError(t, err)
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assert.Equal(t, []byte("gat"), sub.Sequence())
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assert.Equal(t, Quality([]byte{10, 40, 30}), sub.Qualities())
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// Test case 3: Subsequence with from greater than to and non-circular
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seq3 := NewBioSequence("ID1", []byte("ATCG"), "")
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_, err3 := seq3.Subsequence(3, 1, false)
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assert.EqualError(t, err3, "from greater than to")
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// Test case 4: Subsequence with from out of bounds
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seq4 := NewBioSequence("ID1", []byte("ATCG"), "")
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_, err4 := seq4.Subsequence(-1, 2, false)
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assert.EqualError(t, err4, "from out of bounds")
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// Test case 5: Subsequence with to out of bounds
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seq5 := NewBioSequence("ID1", []byte("ATCG"), "")
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_, err5 := seq5.Subsequence(2, 5, false)
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assert.EqualError(t, err5, "to out of bounds")
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}
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