| 1 | // =============================================================== // |
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| 2 | // // |
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| 3 | // File : arb_unit_test.h // |
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| 4 | // Purpose : useful high level code used in multiple units // |
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| 5 | // // |
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| 6 | // Coded by Ralf Westram (coder@reallysoft.de) in October 2010 // |
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| 7 | // Institute of Microbiology (Technical University Munich) // |
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| 8 | // http://www.arb-home.de/ // |
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| 9 | // // |
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| 10 | // =============================================================== // |
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| 11 | |
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| 12 | #ifndef ARB_UNIT_TEST_H |
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| 13 | #define ARB_UNIT_TEST_H |
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| 14 | |
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| 15 | #ifdef UNIT_TESTS |
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| 16 | |
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| 17 | namespace arb_unit_test { |
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| 18 | |
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| 19 | struct test_alignment_data { |
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| 20 | int mark; |
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| 21 | const char *name; |
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| 22 | const char *data; |
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| 23 | }; |
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| 24 | |
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| 25 | inline void test_insert_SAI_data(GBDATA *gb_main, ARB_ERROR& error, const char *test_aliname, test_alignment_data *ali_data, int sai_count) { |
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| 26 | for (int sp = 0; sp<sai_count && !error; ++sp) { |
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| 27 | test_alignment_data& sai = ali_data[sp]; |
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| 28 | GBDATA *gb_species = GBT_find_or_create_SAI(gb_main, sai.name); |
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| 29 | if (!gb_species) error = GB_await_error(); |
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| 30 | else { |
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| 31 | GB_write_flag(gb_species, sai.mark); |
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| 32 | |
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| 33 | GBDATA *gb_data = GBT_add_data(gb_species, test_aliname, "data", GB_STRING); |
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| 34 | if (!gb_data) error = GB_await_error(); |
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| 35 | else error = GB_write_string(gb_data, sai.data); |
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| 36 | } |
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| 37 | } |
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| 38 | } |
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| 39 | |
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| 40 | inline GBDATA *test_create_DB(ARB_ERROR& error, const char *test_aliname, test_alignment_data *ali_data, int species_count, bool use_compression) { |
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| 41 | GBDATA *gb_main = GB_open("nodb.arb", "crw"); |
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| 42 | error = GB_push_transaction(gb_main); |
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| 43 | |
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| 44 | GB_allow_compression(gb_main, use_compression); |
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| 45 | |
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| 46 | if (!error) { |
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| 47 | GBDATA *gb_species_data = GBT_get_species_data(gb_main); |
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| 48 | if (!gb_species_data) error = GB_await_error(); |
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| 49 | else { |
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| 50 | long ali_len = strlen(ali_data[0].data); |
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| 51 | GBDATA *gb_alignment = GBT_create_alignment(gb_main, test_aliname, ali_len, 1, 0, "rna"); |
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| 52 | if (!gb_alignment) error = GB_await_error(); |
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| 53 | else { |
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| 54 | for (int sp = 0; sp<species_count && !error; ++sp) { |
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| 55 | test_alignment_data& species = ali_data[sp]; |
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| 56 | GBDATA *gb_species = GBT_find_or_create_species(gb_main, species.name, true); |
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| 57 | if (!gb_species) error = GB_await_error(); |
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| 58 | else { |
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| 59 | GB_write_flag(gb_species, species.mark); |
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| 60 | |
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| 61 | GBDATA *gb_data = GBT_add_data(gb_species, test_aliname, "data", GB_STRING); |
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| 62 | if (!gb_data) error = GB_await_error(); |
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| 63 | else error = GB_write_string(gb_data, species.data); |
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| 64 | } |
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| 65 | } |
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| 66 | } |
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| 67 | if (!error) error = GBT_set_default_alignment(gb_main, test_aliname); |
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| 68 | } |
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| 69 | } |
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| 70 | |
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| 71 | error = GB_pop_transaction(gb_main); |
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| 72 | |
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| 73 | return gb_main; |
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| 74 | } |
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| 75 | |
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| 76 | #define TEST_SPECIES_COUNT(test_ali_data) ARRAY_ELEMS(test_ali_data) |
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| 77 | |
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| 78 | #define TEST_CREATE_DB(error,test_aliname,test_ali_data,compress) \ |
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| 79 | arb_unit_test::test_create_DB(error, test_aliname, test_ali_data, \ |
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| 80 | TEST_SPECIES_COUNT(test_ali_data), compress) |
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| 81 | |
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| 82 | #define TEST_DB_INSERT_SAI(gb_main, error,test_aliname,test_ali_data) \ |
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| 83 | arb_unit_test::test_insert_SAI_data(gb_main, error, test_aliname, test_ali_data, \ |
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| 84 | TEST_SPECIES_COUNT(test_ali_data)) |
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| 85 | |
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| 86 | }; |
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| 87 | |
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| 88 | #endif // UNIT_TESTS |
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| 89 | |
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| 90 | #else |
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| 91 | #error arb_unit_test.h included twice |
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| 92 | #endif // ARB_UNIT_TEST_H |
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.
