Question about test code

[mahmoodn]

Hi
Regarding this test code

TEST_F(RaconPolishingTest, FragmentCorrectionWithQualitiesFullMhapCUDA) {
    SetUp(racon_test_data_path + "sample_reads.fastq.gz", racon_test_data_path +
        "sample_ava_overlaps.mhap.gz", racon_test_data_path + "sample_reads.fastq.gz",
        racon::PolisherType::kF, 500, 10, 0.3, 1, -1, -1, 1);

    initialize();

    std::vector<std::unique_ptr<racon::Sequence>> polished_sequences;
    polish(polished_sequences, false);
    EXPECT_EQ(polished_sequences.size(), 236);

    uint32_t total_length = 0;
    for (const auto& it: polished_sequences) {
        total_length += it->data().size();
    }
    EXPECT_EQ(total_length, 1655505); // CPU 1658216 
}

I want to know if 1655505 is the length of sequence (AA... codes and not %%*+...) is the fastaq read file or not?

[tijyojwad]

Apologies for the late response. 1655505 is the length of the output sequence (string of A, T, C, G characters)