// =============================================================== // // // // File : graph_aligner_gui.cxx // // Purpose : // // // // Coded by Elmar Pruesse in October 2008 // // Institute of Microbiology (Technical University Munich) // // http://www.arb-home.de/ // // // // =============================================================== // #include "graph_aligner_gui.hxx" #include "ed4_defs.hxx" // need to use AlignDataAccess defined here to get selected species #include #include #include #include #include #include #include #include #include #include #include #include #include #include #include #include #include #include #include using std::cerr; using std::cout; using std::endl; #define GA_AWAR_ROOT "sina/" #define GA_AWAR_CMD GA_AWAR_ROOT "command" #define GA_AWAR_TGT GA_AWAR_ROOT "target" #define GA_AWAR_SAI GA_AWAR_ROOT "sai" #define GA_AWAR_ALIGNMENT GA_AWAR_ROOT "alignment" #define GA_AWAR_PROTECTION GA_AWAR_ROOT "protection" #define GA_AWAR_TURN_CHECK GA_AWAR_ROOT "turncheck" #define GA_AWAR_REALIGN GA_AWAR_ROOT "realign" #define GA_AWAR_COPYMARKREF GA_AWAR_ROOT "copymarkref" #define GA_AWAR_MATCH_SCORE GA_AWAR_ROOT "match_score" #define GA_AWAR_MISMATCH_SCORE GA_AWAR_ROOT "mismatch_score" #define GA_AWAR_GAP_PEN GA_AWAR_ROOT "gap_pen" #define GA_AWAR_GAP_EXT GA_AWAR_ROOT "gap_ext" #define GA_AWAR_ADVANCED GA_AWAR_ROOT "advanced" #define GA_AWAR_FS_MIN GA_AWAR_ROOT "fs_min" #define GA_AWAR_FS_MAX GA_AWAR_ROOT "fs_max" #define GA_AWAR_FS_MSC GA_AWAR_ROOT "fs_msc" #define GA_AWAR_MIN_FULL GA_AWAR_ROOT "min_full" #define GA_AWAR_FULL_MINLEN GA_AWAR_ROOT "full_minlen" #define GA_AWAR_OVERHANG GA_AWAR_ROOT "overhang" #define GA_AWAR_THREADS GA_AWAR_ROOT "threads" #define GA_AWAR_QSIZE GA_AWAR_ROOT "qsize" #define GA_AWAR_KMER_LEN GA_AWAR_ROOT "kmer_len" #define GA_AWAR_KMER_MM GA_AWAR_ROOT "kmer_mm" #define GA_AWAR_MIN_LEN GA_AWAR_ROOT "min_len" #define GA_AWAR_WEIGHT GA_AWAR_ROOT "weight" #define GA_AWAR_INSERT GA_AWAR_ROOT "insert" #define GA_AWAR_LOWERCASE GA_AWAR_ROOT "lowercase" #define GA_AWAR_AUTOFILTER GA_AWAR_ROOT "autofilter" #define GA_AWAR_KMER_NOREL GA_AWAR_ROOT "kmer_norel" #define GA_AWAR_KMER_NOFAST GA_AWAR_ROOT "kmer_nofast" #define GA_AWAR_SHOW_DIST GA_AWAR_ROOT "show_dist" #define GA_AWAR_SHOW_DIFF GA_AWAR_ROOT "show_diff" #define GA_AWAR_COLOR GA_AWAR_ROOT "color" #define GA_AWAR_GENE_START GA_AWAR_ROOT "gene_start" #define GA_AWAR_GENE_END GA_AWAR_ROOT "gene_end" #define GA_AWAR_FS_COVER_GENE GA_AWAR_ROOT "fs_cover_gene" void create_sina_variables(AW_root *root, AW_default db1) { root->awar_string(GA_AWAR_CMD, "sina", db1); root->awar_int (GA_AWAR_TGT, 2, db1); root->awar_int (AWAR_PT_SERVER, 0, db1); root->awar_string(GA_AWAR_SAI, "", db1); root->awar_int (GA_AWAR_PROTECTION, 0, db1); root->awar_int (GA_AWAR_TURN_CHECK, 1, db1); root->awar_int (GA_AWAR_REALIGN, 1, db1); root->awar_int (GA_AWAR_COPYMARKREF, 0, db1); root->awar_float (GA_AWAR_GAP_PEN, 5.0, db1); root->awar_float (GA_AWAR_GAP_EXT, 2.0, db1); root->awar_float (GA_AWAR_MATCH_SCORE, 2.0, db1); root->awar_float (GA_AWAR_MISMATCH_SCORE, -1.0, db1); root->awar_int (GA_AWAR_ADVANCED, 0, db1); root->awar_int (GA_AWAR_FS_MIN, 40, db1); root->awar_int (GA_AWAR_FS_MAX, 40, db1); root->awar_float (GA_AWAR_FS_MSC, .7, db1); root->awar_int (GA_AWAR_MIN_FULL, 1, db1); root->awar_int (GA_AWAR_FULL_MINLEN, 1400, db1); root->awar_string(GA_AWAR_OVERHANG, "attach", db1); root->awar_int (GA_AWAR_THREADS, 1, db1); root->awar_int (GA_AWAR_QSIZE, 1, db1); root->awar_int (GA_AWAR_KMER_LEN, 10, db1); root->awar_int (GA_AWAR_KMER_MM, 0, db1); root->awar_int (GA_AWAR_MIN_LEN, 150, db1); root->awar_float (GA_AWAR_WEIGHT, 1, db1); root->awar_string(GA_AWAR_INSERT, "shift", db1); root->awar_string(GA_AWAR_LOWERCASE, "none", db1); root->awar_string(GA_AWAR_AUTOFILTER, "none", db1); root->awar_int (GA_AWAR_KMER_NOREL, 0, db1); root->awar_int (GA_AWAR_KMER_NOFAST, 0, db1); root->awar_int (GA_AWAR_SHOW_DIST, 0, db1); root->awar_int (GA_AWAR_SHOW_DIFF, 0, db1); root->awar_int (GA_AWAR_COLOR, 1, db1); root->awar_int (GA_AWAR_GENE_START, 0, db1); root->awar_int (GA_AWAR_GENE_END, 0, db1); root->awar_int (GA_AWAR_FS_COVER_GENE, 1, db1); } AW_active sina_mask(AW_root *root) { const char *sinaName = root->awar(GA_AWAR_CMD)->read_char_pntr(); char *sina = ARB_executable(sinaName, GB_getenv("PATH")); const char *fail_reason = NULp; if (sina) { if (ARB_path_contains_unwanted_chars(sina)) { char *description = GBS_global_string_copy("the sina executable derived from\n" "- gui property '%s' and\n" "- environment variable PATH", sinaName); ARB_warn_about_unwanted_chars(sina, description); free(description); } int exitstatus = system(GBS_global_string("%s --has-cli-vers ARB5.99", sina)); exitstatus = WEXITSTATUS(exitstatus); switch (exitstatus) { case EXIT_SUCCESS: break; case EXIT_FAILURE: fail_reason = "Incompatible SINA and ARB versions"; break; case 127: // libs missing default: // unexpected fail_reason = GBS_global_string("Could execute SINA binary '%s' (exitstatus was %i)", sinaName, exitstatus); break; } free(sina); } else { fail_reason = GBS_global_string("'%s' not found", sinaName); } if (fail_reason) { fprintf(stderr, "Note: SINA (SILVA Aligner) disabled (Reason: %s)\n", fail_reason); } return fail_reason ? AWM_DISABLED : AWM_ALL; } inline const char *stream2static(const std::stringstream& str) { return GBS_static_string(str.str().c_str()); } inline const char *empty_as_none(const char *sainame) { // see http://bugs.arb-home.de/ticket/519 if (sainame && !sainame[0]) sainame = "none"; return sainame; } static void sina_start(AW_window *window, const AlignDataAccess *data_access) { cerr << "Starting SINA..." << endl; // make string from pt server selection AW_root *root = window->get_root(); int pt = root->awar(AWAR_PT_SERVER)->read_int(); std::stringstream ptnam; ptnam << "ARB_PT_SERVER" << pt; const char *pt_server = GBS_read_arb_tcp(ptnam.str().c_str()); GB_ERROR gb_error = NULp; if (!pt_server) { gb_error = GBS_global_string("Unable to find definition for chosen PT-server\n(Reason: %s)", GB_await_error()); } else { const char *pt_db = pt_server + strlen(pt_server) + 1; pt_db += strlen(pt_db)+3; // start pt server if necessary gb_error = arb_look_and_start_server(AISC_MAGIC_NUMBER, ptnam.str().c_str()); if (gb_error) { std::stringstream tmp; tmp << "Cannot contact PT server. Aborting" << endl << " ID: \"" << tmp.str().c_str() << "\" PORT: \"" << pt_server << "\" DB: \"" << pt_db << endl << "\" GBERROR: \"" << gb_error << "\"" << endl; gb_error = stream2static(tmp); } else { // create temporary file char* tmpfile; FILE* tmpfile_F; { char* tmpfile_tpl = GB_unique_filename("sina_select", "tmp"); tmpfile_F = GB_fopen_tempfile(tmpfile_tpl, "w", &tmpfile); free(tmpfile_tpl); } if (!tmpfile_F) { std::stringstream tmp; tmp << "Error: Unable to create temporary file \"" << tmpfile << "\"!"; gb_error = stream2static(tmp); } else { GB_remove_on_exit(tmpfile); GBDATA *gb_main = data_access->gb_main; std::vector spec_names; switch (root->awar(GA_AWAR_TGT)->read_int()) { case 0: { // current char *spec_name = root->awar(AWAR_SPECIES_NAME)->read_string(); if (spec_name) { fwrite(spec_name, strlen(spec_name), 1, tmpfile_F); fwrite("\n", 1, 1, tmpfile_F); } else { gb_error = "Unable to get name of currently active species"; } free(spec_name); break; } case 1: { // selected GB_begin_transaction(gb_main); int num_selected = 0; for (GBDATA *gb_spec = data_access->get_first_selected_species(&num_selected); gb_spec; gb_spec = data_access->get_next_selected_species()) { GBDATA *gbd_name = GB_find(gb_spec, "name", SEARCH_CHILD); if (gbd_name) { const char *str = GB_read_char_pntr(gbd_name); fwrite(str, strlen(str), 1, tmpfile_F); fwrite("\n", 1, 1, tmpfile_F); } } GB_commit_transaction(gb_main); break; } case 2: { // marked GB_begin_transaction(gb_main); for (GBDATA *gb_spec = GBT_first_marked_species(gb_main); gb_spec; gb_spec = GBT_next_marked_species(gb_spec)) { GBDATA *gbd_name = GB_find(gb_spec, "name", SEARCH_CHILD); if (gbd_name) { const char *str = GB_read_char_pntr(gbd_name); fwrite(str, strlen(str), 1, tmpfile_F); fwrite("\n", 1, 1, tmpfile_F); } } GB_commit_transaction(gb_main); break; } } fclose(tmpfile_F); if (!gb_error) { // build command line GBS_strstruct *cl = GBS_stropen(2000); GBS_strcat(cl, root->awar(GA_AWAR_CMD)->read_char_pntr()); GBS_strcat(cl, " -i :"); GBS_strcat(cl, " --ptdb :"); GBS_strcat(cl, " --ptport "); GBS_strcat(cl, pt_server); GBS_strcat(cl, " --turn "); GBS_strcat(cl, root->awar(GA_AWAR_TURN_CHECK)->read_int() ? "all" : "none"); GBS_strcat(cl, " --overhang "); GBS_strcat(cl, root->awar(GA_AWAR_OVERHANG)->read_char_pntr()); GBS_strcat(cl, " --filter "); GBS_strcat(cl, empty_as_none(root->awar(GA_AWAR_SAI)->read_char_pntr())); GBS_strcat(cl, " --fs-min "); GBS_intcat(cl, root->awar(GA_AWAR_FS_MIN)->read_int()); GBS_strcat(cl, " --fs-msc "); GBS_floatcat(cl, root->awar(GA_AWAR_FS_MSC)->read_float()); GBS_strcat(cl, " --fs-max "); GBS_intcat(cl, root->awar(GA_AWAR_FS_MAX)->read_int()); GBS_strcat(cl, " --fs-req 1"); GBS_strcat(cl, " --fs-req-full "); GBS_intcat(cl, root->awar(GA_AWAR_MIN_FULL)->read_int()); GBS_strcat(cl, " --fs-full-len "); GBS_intcat(cl, root->awar(GA_AWAR_FULL_MINLEN)->read_int()); GBS_strcat(cl, " --fs-kmer-len "); GBS_intcat(cl, root->awar(GA_AWAR_KMER_LEN)->read_int()); GBS_strcat(cl, " --fs-kmer-mm "); GBS_intcat(cl, root->awar(GA_AWAR_KMER_MM)->read_int()); GBS_strcat(cl, " --fs-min-len "); GBS_intcat(cl, root->awar(GA_AWAR_MIN_LEN)->read_int()); GBS_strcat(cl, " --fs-weight "); GBS_intcat(cl, root->awar(GA_AWAR_WEIGHT)->read_float()); // @@@ possible type conflict? GBS_strcat(cl, " --pen-gap "); GBS_floatcat(cl, root->awar(GA_AWAR_GAP_PEN)->read_float()); GBS_strcat(cl, " --pen-gapext "); GBS_floatcat(cl, root->awar(GA_AWAR_GAP_EXT)->read_float()); GBS_strcat(cl, " --match-score "); GBS_floatcat(cl, root->awar(GA_AWAR_MATCH_SCORE)->read_float()); GBS_strcat(cl, " --mismatch-score "); GBS_floatcat(cl, root->awar(GA_AWAR_MISMATCH_SCORE)->read_float()); GBS_strcat(cl, " --prot-level "); GBS_intcat(cl, root->awar(GA_AWAR_PROTECTION)->read_int()); GBS_strcat(cl, " --select-file "); GBS_strcat(cl, tmpfile); GBS_strcat(cl, " --insertion "); GBS_strcat(cl, root->awar(GA_AWAR_INSERT)->read_char_pntr()); GBS_strcat(cl, " --lowercase "); GBS_strcat(cl, root->awar(GA_AWAR_LOWERCASE)->read_char_pntr()); GBS_strcat(cl, " --auto-filter-field "); GBS_strcat(cl, root->awar(GA_AWAR_AUTOFILTER)->read_char_pntr()); GBS_strcat(cl, " --gene-start "); GBS_intcat(cl, root->awar(GA_AWAR_GENE_START)->read_int()); GBS_strcat(cl, " --gene-end "); GBS_intcat(cl, root->awar(GA_AWAR_GENE_END)->read_int()); GBS_strcat(cl, " --fs-cover-gene ");GBS_intcat(cl, root->awar(GA_AWAR_FS_COVER_GENE)->read_int()); if (root->awar(GA_AWAR_KMER_NOREL)->read_int()) GBS_strcat(cl, " --fs-kmer-norel "); if (root->awar(GA_AWAR_KMER_NOFAST)->read_int()) GBS_strcat(cl, " --fs-kmer-no-fast "); if (root->awar(GA_AWAR_SHOW_DIST)->read_int()) GBS_strcat(cl, " --show-dist "); if (root->awar(GA_AWAR_SHOW_DIFF)->read_int()) GBS_strcat(cl, " --show-diff "); if (root->awar(GA_AWAR_COLOR)->read_int()) GBS_strcat(cl, " --color"); if (root->awar(GA_AWAR_REALIGN)->read_int()) GBS_strcat(cl, " --realign"); gb_error = GB_xcmd(GBS_mempntr(cl), XCMD_ASYNC_WAITKEY); GBS_strforget(cl); } if (!gb_error) aw_message("SINA finished aligning."); } free(tmpfile); } } aw_message_if(gb_error); } static char* filter_posvar_SAI_for_ali(GBDATA *gb_extended, const char *ali_name) { char *result = NULp; char *typePath = GBS_global_string_copy("%s/_TYPE", ali_name); GBDATA *gbd = GB_search(gb_extended, typePath, GB_FIND); if (gbd) { const char* type = GB_read_char_pntr(gbd); if (type && strncmp("PV", type, 2) == 0) { gbd = GB_find(gb_extended, "name", SEARCH_CHILD); result = GB_read_string(gbd); } } free(typePath); return result; } static AWT_config_mapping_def sina_config_mapping[] = { // both { GA_AWAR_TGT, "target" }, { GA_AWAR_OVERHANG, "overhang" }, { GA_AWAR_INSERT, "insertions" }, { GA_AWAR_LOWERCASE, "lowercase" }, { GA_AWAR_WEIGHT, "weight" }, { GA_AWAR_FULL_MINLEN, "fullminlen" }, // advanced only { GA_AWAR_SAI, "sai" }, { GA_AWAR_AUTOFILTER, "autofilter" }, { GA_AWAR_TURN_CHECK, "turncheck" }, { GA_AWAR_REALIGN, "realign" }, { GA_AWAR_GAP_PEN, "gappen" }, { GA_AWAR_GAP_EXT, "gapext" }, { GA_AWAR_MATCH_SCORE, "matchscore" }, { GA_AWAR_MISMATCH_SCORE, "mismatchscore" }, { GA_AWAR_FS_MIN, "fs_min" }, { GA_AWAR_FS_MSC, "fs_minscore" }, { GA_AWAR_FS_MAX, "fs_min" }, { GA_AWAR_MIN_FULL, "minfull" }, { GA_AWAR_KMER_LEN, "kmerlen" }, { GA_AWAR_KMER_MM, "kmermm" }, { GA_AWAR_MIN_LEN, "refminlen" }, { GA_AWAR_GENE_START, "genestart" }, { GA_AWAR_GENE_END, "geneend" }, { GA_AWAR_FS_COVER_GENE, "fs_covergene" }, { GA_AWAR_KMER_NOFAST, "kmernofast" }, { GA_AWAR_KMER_NOREL, "kmernorel" }, // both { GA_AWAR_SHOW_DIFF, "showdiff" }, { GA_AWAR_COLOR, "color" }, { GA_AWAR_SHOW_DIST, "showdist" }, { NULp, NULp } }; static AW_window_simple* new_sina_simple(AW_root *root, const AlignDataAccess *alignData, bool adv) { int closex, closey, startx, starty, winx, winy; const int hgap = 10; AW_window_simple *aws = new AW_window_simple; aws->init(root, adv ? "XSINA" : "SINA", "SINA (SILVA Incremental Aligner)"); aws->button_length(12); aws->at(10, 10); aws->auto_space(5, 5); aws->callback(AW_POPDOWN); aws->create_button("CLOSE", "CLOSE", "O"); aws->get_at_position(&closex, &closey); aws->at_shift(10, 0); aws->label_length(0); aws->label("Show advanced options"); aws->create_toggle(GA_AWAR_ADVANCED); bool cbInstalled = false; if (!cbInstalled) { root->awar(GA_AWAR_ADVANCED)->add_callback(makeRootCallback(show_sina_window, alignData)); cbInstalled = true; } aws->at_newline(); aws->at_shift(0, hgap); aws->label_length(15); aws->create_toggle_field(GA_AWAR_TGT, "Align what?", "A"); aws->insert_toggle("Current Species:", "C", 0); aws->insert_toggle("Selected Species", "S", 1); aws->insert_default_toggle("Marked Species", "M", 2); aws->update_toggle_field(); aws->at_shift(0, 3); aws->create_input_field(AWAR_SPECIES_NAME, 20); aws->at_newline(); aws->at_shift(0, hgap); aws->button_length(24); aws->label("PT Server:"); awt_create_PTSERVER_selection_button(aws, AWAR_PT_SERVER); aws->at_newline(); aws->label_length(0); aws->label("Overhang placement"); aws->create_option_menu(GA_AWAR_OVERHANG, true); aws->insert_option("keep attached", NULp, "attach"); aws->insert_option("move to edge", NULp, "edge"); aws->insert_option("remove", NULp, "remove"); aws->update_option_menu(); aws->at_newline(); aws->label("Handling of unmappable insertions"); aws->create_option_menu(GA_AWAR_INSERT, true); aws->insert_option("Shift surrounding bases", NULp, "shift"); aws->insert_option("Forbid during DP alignment", NULp, "forbid"); aws->insert_option("Delete bases", NULp, "remove"); aws->update_option_menu(); aws->at_newline(); aws->label("Character Case"); aws->create_option_menu(GA_AWAR_LOWERCASE, true); aws->insert_option("Do not modify", NULp, "original"); aws->insert_option("Show unaligned bases as lower case", NULp, "unaligned"); aws->insert_option("Uppercase all", NULp, "none"); aws->update_option_menu(); aws->at_newline(); aws->label("Family conservation weight (0-1)"); aws->create_input_field(GA_AWAR_WEIGHT, 3); aws->at_newline(); aws->label("Size of full-length sequences"); aws->create_input_field(GA_AWAR_FULL_MINLEN, 5); if (adv) { aws->at_newline(); aws->at_shift(0, hgap); aws->at_newline(); aws->label("Pos. Var.:"); awt_create_SAI_selection_button(alignData->gb_main, aws, GA_AWAR_SAI, makeSaiSelectionlistFilterCallback(filter_posvar_SAI_for_ali, alignData->alignment_name.c_str())); aws->at_newline(); aws->label("Field used for automatic filter selection"); aws->create_input_field(GA_AWAR_AUTOFILTER, 20); aws->label("Turn check"); aws->create_toggle(GA_AWAR_TURN_CHECK); aws->at_newline(); aws->label("Realign"); aws->create_toggle(GA_AWAR_REALIGN); /* aws->at_newline(); aws->label("(Copy and) mark sequences used as reference"); aws->create_toggle(GA_AWAR_COPYMARKREF); */ aws->at_newline(); aws->at_shift(0, hgap); aws->label_length(0); aws->label("Gap insertion/extension penalties"); aws->create_input_field(GA_AWAR_GAP_PEN, 5); aws->create_input_field(GA_AWAR_GAP_EXT, 5); aws->at_newline(); aws->label("Match score"); aws->create_input_field(GA_AWAR_MATCH_SCORE, 3); aws->label("Mismatch score"); aws->create_input_field(GA_AWAR_MISMATCH_SCORE, 3); aws->at_newline(); aws->label("Family search min/min_score/max"); aws->create_input_field(GA_AWAR_FS_MIN, 3); aws->create_input_field(GA_AWAR_FS_MSC, 3); aws->create_input_field(GA_AWAR_FS_MAX, 3); aws->at_newline(); aws->label("Minimal number of full length sequences"); aws->create_input_field(GA_AWAR_MIN_FULL, 3); aws->at_newline(); aws->label("Family search oligo length / mismatches"); aws->create_input_field(GA_AWAR_KMER_LEN, 3); aws->create_input_field(GA_AWAR_KMER_MM, 3); aws->at_newline(); aws->label("Minimal reference sequence length"); aws->create_input_field(GA_AWAR_MIN_LEN, 5); aws->at_newline(); aws->label("Alignment bounds: start"); aws->create_input_field(GA_AWAR_GENE_START, 6); aws->label("end"); aws->create_input_field(GA_AWAR_GENE_END, 6); aws->at_newline(); aws->label("Number of references required to touch bounds"); aws->create_input_field(GA_AWAR_FS_COVER_GENE, 3); aws->at_newline(); aws->label("Disable fast search"); aws->create_toggle(GA_AWAR_KMER_NOFAST); aws->at_newline(); aws->label("Score search results by absolute oligo match count"); aws->create_toggle(GA_AWAR_KMER_NOREL); aws->at_newline(); aws->label("SINA command"); aws->create_input_field(GA_AWAR_CMD, 20); aws->at_shift(0, hgap); } aws->at_newline(); aws->at_shift(0, hgap); aws->label_length(17); aws->label("Protection Level"); aws->create_option_menu(GA_AWAR_PROTECTION, true); aws->insert_option("0", NULp, 0); aws->insert_option("1", NULp, 1); aws->insert_option("2", NULp, 2); aws->insert_option("3", NULp, 3); aws->insert_option("4", NULp, 4); aws->insert_option("5", NULp, 5); aws->insert_option("6", NULp, 6); aws->update_option_menu(); aws->at_newline(); aws->label("Show changed sections of alignment"); aws->create_toggle(GA_AWAR_SHOW_DIFF); aws->label("color bases"); aws->create_toggle(GA_AWAR_COLOR); aws->at_newline(); aws->label("Show statistics"); aws->create_toggle(GA_AWAR_SHOW_DIST); aws->get_window_size(winx, winy); aws->get_at_position(&startx, &starty); aws->button_length(12); aws->at(winx-closex+5, closey); aws->callback(makeHelpCallback("sina_main.hlp")); aws->create_button("HELP", "HELP"); aws->at(winx-closex+5, starty); aws->callback(makeWindowCallback(sina_start, alignData)); aws->highlight(); aws->create_button("Start", "Start", "S"); aws->at(winx-50, starty-50); AWT_insert_config_manager(aws, AW_ROOT_DEFAULT, "sina", sina_config_mapping); return aws; } void show_sina_window(UNFIXED, const AlignDataAccess *alignData) { AW_root *root = AW_root::SINGLETON; static AW_window_simple *ga_aws = new_sina_simple(root, alignData, false); static AW_window_simple *ga_aws_adv = new_sina_simple(root, alignData, true); if (root->awar(GA_AWAR_ADVANCED)->read_int()) { ga_aws_adv->show(); ga_aws->hide(); } else { ga_aws->show(); ga_aws_adv->hide(); } }