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[test] update link to testdata repo
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+346
-152
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3 files changed

+346
-152
lines changed

‎test/cli/CMakeLists.txt‎

Lines changed: 25 additions & 1 deletion
Original file line numberDiff line numberDiff line change
@@ -73,4 +73,28 @@ target_use_datasources (search_test FILES db_nucl.fasta.gz
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output_tblastn_fm_sensitive.m8
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output_tblastn_fm_sensitive.sam
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output_tblastx_fm_sensitive.m8
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output_tblastx_fm_sensitive.sam)
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output_tblastx_fm_sensitive.sam
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output_blastn_bs_fm_pairs_default.m8
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output_blastn_bs_fm_pairs_default.sam
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output_blastn_fm_pairs_default.m8
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output_blastn_fm_pairs_default.sam
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output_blastp_fm_pairs_default.m8
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output_blastp_fm_pairs_default.sam
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output_blastx_fm_pairs_default.m8
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output_blastx_fm_pairs_default.sam
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output_tblastn_fm_pairs_default.m8
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output_tblastn_fm_pairs_default.sam
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output_tblastx_fm_pairs_default.m8
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output_tblastx_fm_pairs_default.sam
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output_blastn_bs_fm_pairs_sensitive.m8
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output_blastn_bs_fm_pairs_sensitive.sam
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output_blastn_fm_pairs_sensitive.m8
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output_blastn_fm_pairs_sensitive.sam
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output_blastp_fm_pairs_sensitive.m8
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output_blastp_fm_pairs_sensitive.sam
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output_blastx_fm_pairs_sensitive.m8
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output_blastx_fm_pairs_sensitive.sam
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output_tblastn_fm_pairs_sensitive.m8
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output_tblastn_fm_pairs_sensitive.sam
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output_tblastx_fm_pairs_sensitive.m8
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output_tblastx_fm_pairs_sensitive.sam)

‎test/cli/search_test.cpp‎

Lines changed: 148 additions & 0 deletions
Original file line numberDiff line numberDiff line change
@@ -619,6 +619,154 @@ TEST_F(search_test, tblastx_fm_sensitive_sam)
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"queries_nucl.fasta.gz", "sensitive", "output_tblastx_fm_sensitive.sam", "sam", "output_tblastx_fm_sensitive.sam");
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}
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// pairs default mode
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TEST_F(search_test, blastn_fm_pairs_default_m8)
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{
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run_search_test("mkindexn", "db_nucl.fasta.gz", "db_nucl_fm.fasta.gz.lba", "fm", "", "searchn",
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"queries_nucl.fasta.gz", "pairs-default", "output_blastn_fm_pairs_default.m8", "m8", "output_blastn_fm_pairs_default.m8");
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}
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TEST_F(search_test, blastn_fm_pairs_default_sam)
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{
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run_search_test("mkindexn", "db_nucl.fasta.gz", "db_nucl_fm.fasta.gz.lba", "fm", "", "searchn",
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"queries_nucl.fasta.gz", "pairs-default", "output_blastn_fm_pairs_default.sam", "sam", "output_blastn_fm_pairs_default.sam");
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}
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TEST_F(search_test, blastn_bs_fm_pairs_default_m8)
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{
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run_search_test("mkindexbs", "db_nucl_bs.fasta.gz", "db_nucl_bs_fm.fasta.gz.lba", "fm", "", "searchbs",
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"queries_nucl_bs.fasta.gz", "pairs-default", "output_blastn_bs_fm_pairs_default.m8", "m8", "output_blastn_bs_fm_pairs_default.m8");
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}
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TEST_F(search_test, blastn_bs_fm_pairs_default_sam)
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{
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run_search_test("mkindexbs", "db_nucl_bs.fasta.gz", "db_nucl_bs_fm.fasta.gz.lba", "fm", "", "searchbs",
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"queries_nucl_bs.fasta.gz", "pairs-default", "output_blastn_bs_fm_pairs_default.sam", "sam", "output_blastn_bs_fm_pairs_default.sam");
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}
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TEST_F(search_test, blastp_fm_pairs_default_m8)
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{
650+
run_search_test("mkindexp", "db_prot.fasta.gz", "db_prot_fm.fasta.gz.lba", "fm", "li10", "searchp",
651+
"queries_prot.fasta.gz", "pairs-default", "output_blastp_fm_pairs_default.m8", "m8", "output_blastp_fm_pairs_default.m8");
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}
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TEST_F(search_test, blastp_fm_pairs_default_sam)
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{
656+
run_search_test("mkindexp", "db_prot.fasta.gz", "db_prot_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_prot.fasta.gz", "pairs-default", "output_blastp_fm_pairs_default.sam", "sam", "output_blastp_fm_pairs_default.sam");
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}
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TEST_F(search_test, blastx_fm_pairs_default_m8)
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{
662+
run_search_test("mkindexp", "db_prot.fasta.gz", "db_prot_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_nucl.fasta.gz", "pairs-default", "output_blastx_fm_pairs_default.m8", "m8", "output_blastx_fm_pairs_default.m8");
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}
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TEST_F(search_test, blastx_fm_pairs_default_sam)
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{
668+
run_search_test("mkindexp", "db_prot.fasta.gz", "db_prot_fm.fasta.gz.lba", "fm", "li10", "searchp",
669+
"queries_nucl.fasta.gz", "pairs-default", "output_blastx_fm_pairs_default.sam", "sam", "output_blastx_fm_pairs_default.sam");
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}
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672+
TEST_F(search_test, tblastn_fm_pairs_default_m8)
673+
{
674+
run_search_test("mkindexp", "db_nucl.fasta.gz", "db_trans_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_prot.fasta.gz", "pairs-default", "output_tblastn_fm_pairs_default.m8", "m8", "output_tblastn_fm_pairs_default.m8");
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}
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TEST_F(search_test, tblastn_fm_pairs_default_sam)
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{
680+
run_search_test("mkindexp", "db_nucl.fasta.gz", "db_trans_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_prot.fasta.gz", "pairs-default", "output_tblastn_fm_pairs_default.sam", "sam", "output_tblastn_fm_pairs_default.sam");
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}
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TEST_F(search_test, tblastx_fm_pairs_default_m8)
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{
686+
run_search_test("mkindexp", "db_nucl.fasta.gz", "db_trans_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_nucl.fasta.gz", "pairs-default", "output_tblastx_fm_pairs_default.m8", "m8", "output_tblastx_fm_pairs_default.m8");
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}
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690+
TEST_F(search_test, tblastx_fm_pairs_default_sam)
691+
{
692+
run_search_test("mkindexp", "db_nucl.fasta.gz", "db_trans_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_nucl.fasta.gz", "pairs-default", "output_tblastx_fm_pairs_default.sam", "sam", "output_tblastx_fm_pairs_default.sam");
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}
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// pairs sensitive mode
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TEST_F(search_test, blastn_fm_pairs_sensitive_m8)
699+
{
700+
run_search_test("mkindexn", "db_nucl.fasta.gz", "db_nucl_fm.fasta.gz.lba", "fm", "", "searchn",
701+
"queries_nucl.fasta.gz", "pairs-sensitive", "output_blastn_fm_pairs_sensitive.m8", "m8", "output_blastn_fm_pairs_sensitive.m8");
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}
703+
704+
TEST_F(search_test, blastn_fm_pairs_sensitive_sam)
705+
{
706+
run_search_test("mkindexn", "db_nucl.fasta.gz", "db_nucl_fm.fasta.gz.lba", "fm", "", "searchn",
707+
"queries_nucl.fasta.gz", "pairs-sensitive", "output_blastn_fm_pairs_sensitive.sam", "sam", "output_blastn_fm_pairs_sensitive.sam");
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}
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710+
TEST_F(search_test, blastn_bs_fm_pairs_sensitive_m8)
711+
{
712+
run_search_test("mkindexbs", "db_nucl_bs.fasta.gz", "db_nucl_bs_fm.fasta.gz.lba", "fm", "", "searchbs",
713+
"queries_nucl_bs.fasta.gz", "pairs-sensitive", "output_blastn_bs_fm_pairs_sensitive.m8", "m8", "output_blastn_bs_fm_pairs_sensitive.m8");
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}
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TEST_F(search_test, blastn_bs_fm_pairs_sensitive_sam)
717+
{
718+
run_search_test("mkindexbs", "db_nucl_bs.fasta.gz", "db_nucl_bs_fm.fasta.gz.lba", "fm", "", "searchbs",
719+
"queries_nucl_bs.fasta.gz", "pairs-sensitive", "output_blastn_bs_fm_pairs_sensitive.sam", "sam", "output_blastn_bs_fm_pairs_sensitive.sam");
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}
721+
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TEST_F(search_test, blastp_fm_pairs_sensitive_m8)
723+
{
724+
run_search_test("mkindexp", "db_prot.fasta.gz", "db_prot_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_prot.fasta.gz", "pairs-sensitive", "output_blastp_fm_pairs_sensitive.m8", "m8", "output_blastp_fm_pairs_sensitive.m8");
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}
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TEST_F(search_test, blastp_fm_pairs_sensitive_sam)
729+
{
730+
run_search_test("mkindexp", "db_prot.fasta.gz", "db_prot_fm.fasta.gz.lba", "fm", "li10", "searchp",
731+
"queries_prot.fasta.gz", "pairs-sensitive", "output_blastp_fm_pairs_sensitive.sam", "sam", "output_blastp_fm_pairs_sensitive.sam");
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}
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734+
TEST_F(search_test, blastx_fm_pairs_sensitive_m8)
735+
{
736+
run_search_test("mkindexp", "db_prot.fasta.gz", "db_prot_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_nucl.fasta.gz", "pairs-sensitive", "output_blastx_fm_pairs_sensitive.m8", "m8", "output_blastx_fm_pairs_sensitive.m8");
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}
739+
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TEST_F(search_test, blastx_fm_pairs_sensitive_sam)
741+
{
742+
run_search_test("mkindexp", "db_prot.fasta.gz", "db_prot_fm.fasta.gz.lba", "fm", "li10", "searchp",
743+
"queries_nucl.fasta.gz", "pairs-sensitive", "output_blastx_fm_pairs_sensitive.sam", "sam", "output_blastx_fm_pairs_sensitive.sam");
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}
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746+
TEST_F(search_test, tblastn_fm_pairs_sensitive_m8)
747+
{
748+
run_search_test("mkindexp", "db_nucl.fasta.gz", "db_trans_fm.fasta.gz.lba", "fm", "li10", "searchp",
749+
"queries_prot.fasta.gz", "pairs-sensitive", "output_tblastn_fm_pairs_sensitive.m8", "m8", "output_tblastn_fm_pairs_sensitive.m8");
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}
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TEST_F(search_test, tblastn_fm_pairs_sensitive_sam)
753+
{
754+
run_search_test("mkindexp", "db_nucl.fasta.gz", "db_trans_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_prot.fasta.gz", "pairs-sensitive", "output_tblastn_fm_pairs_sensitive.sam", "sam", "output_tblastn_fm_pairs_sensitive.sam");
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}
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TEST_F(search_test, tblastx_fm_pairs_sensitive_m8)
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{
760+
run_search_test("mkindexp", "db_nucl.fasta.gz", "db_trans_fm.fasta.gz.lba", "fm", "li10", "searchp",
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"queries_nucl.fasta.gz", "pairs-sensitive", "output_tblastx_fm_pairs_sensitive.m8", "m8", "output_tblastx_fm_pairs_sensitive.m8");
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}
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764+
TEST_F(search_test, tblastx_fm_pairs_sensitive_sam)
765+
{
766+
run_search_test("mkindexp", "db_nucl.fasta.gz", "db_trans_fm.fasta.gz.lba", "fm", "li10", "searchp",
767+
"queries_nucl.fasta.gz", "pairs-sensitive", "output_tblastx_fm_pairs_sensitive.sam", "sam", "output_tblastx_fm_pairs_sensitive.sam");
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}
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// special options
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624772
TEST_F(search_test, lazy_loading)

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