Potentially fixes #102 and fixes #175;Renamed tests to test_*

andersen-lab · Jun 13, 2024 · cccb744 · cccb744
1 parent cfe4f2f
commit cccb744
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Showing 3 changed files with 5 additions and 5 deletions.
diff --git a/tests/Makefile.am b/tests/Makefile.am
@@ -6,7 +6,7 @@ TESTS = check_primer_trim check_trim check_quality_trim check_consensus check_al
 check_PROGRAMS = check_primer_trim check_trim check_quality_trim check_consensus check_allele_depth check_consensus_threshold check_consensus_min_depth check_consensus_seq_id check_primer_bed check_getmasked check_removereads check_variants check_common_variants check_unpaired_trim check_primer_trim_edge_cases check_isize_trim check_interval_tree check_amplicon_search check_consensus_min_insert_threshold check_quality_trim_unpaired check_strand_variants
 check_primer_trim_SOURCES = test_primer_trim.cpp ../src/trim_primer_quality.cpp ../src/primer_bed.cpp ../src/interval_tree.cpp
 check_trim_SOURCES = test_trim.cpp ../src/trim_primer_quality.cpp ../src/primer_bed.cpp ../src/interval_tree.cpp
-check_quality_trim_SOURCES = check_quality_trim.cpp ../src/trim_primer_quality.cpp ../src/primer_bed.cpp ../src/interval_tree.cpp
+check_quality_trim_SOURCES = test_quality_trim.cpp ../src/trim_primer_quality.cpp ../src/primer_bed.cpp ../src/interval_tree.cpp
 check_consensus_SOURCES = test_call_consensus_from_plup.cpp ../src/call_consensus_pileup.cpp ../src/allele_functions.cpp
 check_allele_depth_SOURCES = test_allele_depth.cpp ../src/allele_functions.cpp
 check_consensus_threshold_SOURCES = test_consensus_threshold.cpp ../src/call_consensus_pileup.cpp ../src/allele_functions.cpp
@@ -23,5 +23,5 @@ check_primer_trim_edge_cases_SOURCES = test_primer_trim_edge_cases.cpp ../src/tr
 check_isize_trim_SOURCES = test_isize_trim.cpp ../src/trim_primer_quality.cpp ../src/primer_bed.cpp ../src/interval_tree.cpp
 check_interval_tree_SOURCES = test_interval_tree.cpp ../src/primer_bed.cpp ../src/interval_tree.cpp
 check_amplicon_search_SOURCES = test_amplicon_search.cpp ../src/trim_primer_quality.cpp ../src/primer_bed.cpp ../src/interval_tree.cpp
-check_quality_trim_unpaired_SOURCES = check_quality_trim_unpaired.cpp ../src/trim_primer_quality.cpp ../src/primer_bed.cpp ../src/interval_tree.cpp
+check_quality_trim_unpaired_SOURCES = test_quality_trim_unpaired.cpp ../src/trim_primer_quality.cpp ../src/primer_bed.cpp ../src/interval_tree.cpp
 check_strand_variants_SOURCES = test_variants_reverse_strand.cpp ../src/call_variants.cpp ../src/allele_functions.cpp ../src/parse_gff.cpp ../src/ref_seq.cpp
diff --git a/tests/check_quality_trim.cpp → tests/test_quality_trim.cpp b/tests/check_quality_trim.cpp → tests/test_quality_trim.cpp
diff --git a/tests/check_quality_trim_unpaired.cpp → tests/test_quality_trim_unpaired.cpp b/tests/check_quality_trim_unpaired.cpp → tests/test_quality_trim_unpaired.cpp
@@ -16,9 +16,9 @@ int main() {
   iter = sam_itr_querys(idx, header, region_.c_str());
   bam1_t *aln = bam_init1();
   cigar_ t;
-  int lengths[4] = {323, 756, 320, 227}, ctr = 0;
-  int start_pos_rev[4] = {456, 23, 456, 549};
-  int qual_thresholds[4] = {20, 6, 20, 23};
+  int lengths[] = {323, 756, 320, 227}, ctr = 0;
+  int start_pos_rev[] = {456, 23, 456, 549};
+  int qual_thresholds[] = {20, 6, 20, 23};
   while (sam_itr_next(in, iter, aln) >= 0) {
     t = quality_trim(aln, qual_thresholds[ctr], 4);
     std::cout << bam_get_qname(aln) << std::endl;