| 1 | // ==================================================================== // |
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| 2 | // // |
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| 3 | // File : merge.hxx // |
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| 4 | // Purpose : Local header for usage inside directory MERGE // |
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| 5 | // // |
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| 6 | // // |
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| 7 | // Copyright Department of Microbiology (Technical University Munich) // |
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| 8 | // // |
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| 9 | // Visit our web site at: http://www.arb-home.de/ // |
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| 10 | // // |
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| 11 | // ==================================================================== // |
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| 12 | |
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| 13 | #ifndef MERGE_HXX |
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| 14 | #define MERGE_HXX |
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| 15 | |
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| 16 | #ifndef AW_BASE_HXX |
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| 17 | #include <aw_base.hxx> |
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| 18 | #endif |
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| 19 | #ifndef ARB_ASSERT_H |
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| 20 | #include <arb_assert.h> |
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| 21 | #endif |
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| 22 | #ifndef ARBDB_BASE_H |
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| 23 | #include <arbdb_base.h> |
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| 24 | #endif |
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| 25 | |
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| 26 | #define mg_assert(bed) arb_assert(bed) |
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| 27 | |
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| 28 | #define AWAR_MERGE_SAV "merge/" |
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| 29 | #define AWAR_MERGE_TMP "tmp/" AWAR_MERGE_SAV |
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| 30 | |
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| 31 | #define AWAR_MERGE_TMP_SRC AWAR_MERGE_TMP "src/" |
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| 32 | #define AWAR_MERGE_TMP_DST AWAR_MERGE_TMP "dst/" |
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| 33 | |
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| 34 | #define AWAR_DB_SRC AWAR_MERGE_TMP_SRC "db" |
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| 35 | #define AWAR_DB_DST AWAR_MERGE_TMP_DST "db" |
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| 36 | |
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| 37 | inline const char *awar_name_tmp(int db_nr, const char *name) { |
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| 38 | mg_assert(db_nr == 1 || db_nr == 2); // @@@ replace these magics (throughout whole library) |
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| 39 | static char buffer[256]; |
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| 40 | sprintf(buffer, "%s%s", db_nr == 1 ? AWAR_MERGE_TMP_SRC : AWAR_MERGE_TMP_DST, name); |
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| 41 | return buffer; |
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| 42 | } |
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| 43 | |
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| 44 | AW_window *MG_create_merge_alignment_window(AW_root *awr); |
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| 45 | AW_window *MG_create_merge_names_window(AW_root *awr); |
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| 46 | AW_window *MG_create_merge_species_window(AW_root *awr, bool dst_is_new); |
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| 47 | AW_window *MG_create_preserves_selection_window(AW_root *awr); |
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| 48 | AW_window *MG_create_merge_SAIs_window(AW_root *awr); |
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| 49 | AW_window *MG_create_merge_trees_window(AW_root *awr); |
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| 50 | AW_window *MG_create_merge_configs_window(AW_root *awr); |
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| 51 | |
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| 52 | AW_window *create_mg_check_fields_window(AW_root *aw_root); |
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| 53 | |
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| 54 | void MG_create_config_awar(AW_root *aw_root, AW_default aw_def); |
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| 55 | void MG_create_trees_awar(AW_root *aw_root, AW_default aw_def); |
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| 56 | void MG_create_extendeds_awars(AW_root *aw_root, AW_default aw_def); |
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| 57 | void MG_create_species_awars(AW_root *aw_root, AW_default aw_def); |
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| 58 | void MG_create_rename_awars(AW_root *aw_root, AW_default aw_def); |
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| 59 | |
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| 60 | |
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| 61 | void MG_create_db_dependent_rename_awars(AW_root *aw_root, GBDATA *gb_src, GBDATA *gb_dst); |
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| 62 | |
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| 63 | void MG_set_renamed(bool renamed, AW_root *aw_root, const char *reason); |
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| 64 | GB_ERROR MG_expect_renamed(); |
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| 65 | |
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| 66 | int MG_copy_and_check_alignments(); |
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| 67 | |
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| 68 | // export of gene-species: |
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| 69 | |
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| 70 | void MG_create_gene_species_awars(AW_root *aw_root, AW_default aw_def); |
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| 71 | AW_window *MG_gene_species_create_field_transfer_def_window(AW_root *aw_root); |
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| 72 | GB_ERROR MG_export_fields(AW_root *aw_root, GBDATA *gb_src, GBDATA *gb_dst, GB_HASH *error_suppressor, GB_HASH *source_organism_hash); // export defined fields |
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| 73 | |
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| 74 | #define AWAR_REMAP_SPECIES_LIST AWAR_MERGE_SAV "remap_species_list" |
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| 75 | #define AWAR_REMAP_ENABLE AWAR_MERGE_SAV "remap_enable" |
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| 76 | |
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| 77 | #define IS_QUERIED_SPECIES(gb_species) GB_user_flag(gb_species, GB_USERFLAG_QUERY) |
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| 78 | int mg_count_queried(GBDATA *gb_main); |
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| 79 | |
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| 80 | const char *MG_left_AWAR_SPECIES_NAME(); |
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| 81 | |
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| 82 | #ifndef MG_MERGE_HXX |
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| 83 | #include "mg_merge.hxx" |
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| 84 | #endif |
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| 85 | |
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| 86 | inline GBDATA *get_gb_main(int db_nr) { |
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| 87 | mg_assert(db_nr == 1 || db_nr == 2); |
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| 88 | return db_nr == 1 ? GLOBAL_gb_src : GLOBAL_gb_dst; |
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| 89 | } |
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| 90 | |
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| 91 | |
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| 92 | #else |
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| 93 | #error merge.hxx included twice |
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| 94 | #endif // MERGE_HXX |
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