void saveParams ( ostream& os, ParameterList& paramList ) { init_html ( os, "Saving Batch-Tag Parameters" ); paramList.removeName ( "save_params" ); ParameterList cookieParamList ( "", false, false ); // Create empty parameter set cookieParamList.appendParameters ( paramList ); //cookieParamList.removeName ( "accession_nums" ); cookieParamList.removeName ( "data_source" ); cookieParamList.removeName ( "max_hits" ); cookieParamList.removeName ( "output_filename" ); cookieParamList.removeName ( "password" ); cookieParamList.removeName ( "project_name" ); cookieParamList.removeName ( "report_title" ); cookieParamList.removeName ( "script_filename" ); cookieParamList.removeName ( "search_name" ); cookieParamList.removeName ( "upload_data_filename" ); cookieParamList.removeName ( "upload_data_filepath" ); cookieParamList.removeName ( "user" ); cookieParamList.removeName ( "version" ); if ( paramList.getStringValue ( "data_source" ) == "List of Files" ) // Batch-Tag rather than Batch-Tag Web cookieParamList.removeName ( "instrument_name" ); else genUnlink ( paramList.getStringValue ( "upload_data_filepath" ) ); // Delete any uploaded file bool ret = cookieParamList.copyToCookie ( os, "batchtag_params" ); if ( !ret ) { ErrorHandler::genError ()->error ( "Could not save the parameters as their length exceeds the maximum cookie length.\n" ); } os << "<p>Settings saved</p>" << endl; os << "<input type=\"button\" value=\"Search Form\" onclick=\"history.go(-1)\">" << endl; }
int main ( int argc, char** argv ) { initialiseProspector (); ParameterList pList ( argc, argv ); try { if ( pList.getBoolValue ( "save_params" ) ) { init_html ( cout, "Saving Search Compare Parameters" ); pList.removeName ( "save_params" ); ParameterList cookieParamList ( "", false, false ); // Create empty parameter set cookieParamList.appendParameters ( pList ); cookieParamList.removeName ( "accession_nums" ); cookieParamList.removeName ( "remove" ); cookieParamList.removeName ( "id_filter_list" ); cookieParamList.removeName ( "data" ); cookieParamList.removeName ( "version" ); bool ret = cookieParamList.copyToCookie ( cout, "search_compare_params" ); if ( !ret ) { ErrorHandler::genError ()->error ( "Could not save the parameters as their length exceeds the maximum cookie length.\n" ); } cout << "<p>Settings saved</p>" << endl; cout << "<input type=\"button\" value=\"Search Form\" onclick=\"history.go(-1)\">" << endl; exit ( 0 ); } if ( pList.empty () ) { ErrorHandler::genError ()->error ( "No parameters passed to Search Compare.\n" ); } ProgramLink::setParams ( &pList ); init_html_premature_stop ( "Search Compare", true ); SearchCompareParams params ( &pList ); sresFPR = params.getReportType () == "False Positive Rate"; sresTime = params.getReportType () == "Time" || sresFPR; sresXLinks = params.getReportType () == "Crosslinked Peptides"; sresMods = params.getReportType () == "Modifications"; sresProt = params.getReportType () == "Protein"; sresKeepReplicates = params.getPeptideFilter () == "Keep Replicates" || sresTime; sresKeepCharges = params.getPeptideFilter () == "Best Per Charge"; sresKeepTimeReplicates = params.getPeptideFilter () == "Keep Replicates"; sresViewer = params.getSaveFormat () == 'V'; ujm = new UpdatingJavascriptMessage; vector <SearchResults*> searchResults; getSearchResults ( params, searchResults ); writeReport ( params, searchResults ); delete ujm; printProgramInformationHTML ( cout, "Search Compare" ); ProteinInfo::deleteTempDirs (); } catch ( runtime_error e ) { pList.writeLogError ( e.what () ); } return 0; }