Example usage for javafx.stage FileChooser FileChooser

List of usage examples for javafx.stage FileChooser FileChooser

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Introduction

In this page you can find the example usage for javafx.stage FileChooser FileChooser.

Prototype

FileChooser

Source Link

Usage

From source file:fr.amap.lidar.amapvox.gui.MainFrameController.java

@FXML
private void onActionButtonSaveCanopyAnalyzerDirections(ActionEvent event) {

    ChoiceDialog<String> choiceDialog = new ChoiceDialog<>();
    choiceDialog.getItems().addAll("OBJ", "CSV (spherical coordinates)", "CSV (cartesian coordinates)");
    choiceDialog.setSelectedItem("OBJ");

    choiceDialog.setTitle("Output format");
    choiceDialog.setContentText("Choose the output format");

    Optional<String> result = choiceDialog.showAndWait();

    if (result.isPresent()) {

        String format = result.get();

        boolean csv = (format.equals("CSV (spherical coordinates)")
                || format.equals("CSV (cartesian coordinates)"));

        boolean cartesian = format.equals("CSV (cartesian coordinates)") && csv;

        FileChooser fc = new FileChooser();
        File selectedFile = fc.showSaveDialog(stage);

        if (selectedFile != null) {

            LAI2xxx lAi2xxx = new LAI2200(
                    comboboxChooseCanopyAnalyzerSampling.getSelectionModel().getSelectedItem(),
                    LAI2xxx.ViewCap.CAP_360, new boolean[] { false, false, false, false, false });

            lAi2xxx.computeDirections();
            Vector3f[] directions = lAi2xxx.getDirections();
            try (BufferedWriter writer = new BufferedWriter(new FileWriter(selectedFile))) {

                if (csv) {
                    if (cartesian) {
                        writer.write("X_cartesian Y_cartesian Z_cartesian\n");
                    } else {
                        writer.write("azimut elevation\n");
                    }//from   w w w .j a v  a 2  s. c  om
                }

                SphericalCoordinates sc = new SphericalCoordinates();

                for (Vector3f direction : directions) {

                    if (csv) {
                        if (cartesian) {
                            writer.write(direction.x + " " + direction.y + " " + direction.z + "\n");
                        } else {
                            sc.toSpherical(new Vector3d(direction));
                            writer.write(sc.getAzimut() + " " + sc.getZenith() + "\n");
                        }
                    } else {
                        writer.write("v " + direction.x + " " + direction.y + " " + direction.z + "\n");
                    }
                }

            } catch (IOException ex) {
                showErrorDialog(ex);
            }
        }
    }

}

From source file:editeurpanovisu.EditeurPanovisu.java

/**
 *
 * @throws InterruptedException Exception interruption
 *//*from  www  .j  a va2  s.c om*/
private static void panoramiquesAjouter() throws InterruptedException {
    FileChooser fileChooser = new FileChooser();
    FileChooser.ExtensionFilter extFilterImage = new FileChooser.ExtensionFilter(
            "Fichiers Image (JPG,BMP,TIFF)", "*.jpg", "*.bmp", "*.tif");
    FileChooser.ExtensionFilter extFilterJpeg = new FileChooser.ExtensionFilter("Fichiers JPEG (*.jpg)",
            "*.jpg");
    FileChooser.ExtensionFilter extFilterBmp = new FileChooser.ExtensionFilter("Fichiers BMP (*.bmp)", "*.bmp");
    FileChooser.ExtensionFilter extFilterTiff = new FileChooser.ExtensionFilter("Fichiers TIFF (*.tif)",
            "*.tif");
    File fileRepert = new File(getStrCurrentDir() + File.separator);
    fileChooser.setInitialDirectory(fileRepert);
    fileChooser.getExtensionFilters().addAll(extFilterJpeg, extFilterTiff, extFilterBmp, extFilterImage);

    List<File> listFichiers = fileChooser.showOpenMultipleDialog(null);
    if (listFichiers != null) {
        getApAttends().setVisible(true);
        mbarPrincipal.setDisable(true);
        bbarPrincipal.setDisable(true);
        hbBarreBouton.setDisable(true);
        pbarAvanceChargement.setProgress(-1);
        tpEnvironnement.setDisable(true);
        int i = 0;
        File[] fileLstFich1 = new File[listFichiers.size()];
        String[] typeFich1 = new String[listFichiers.size()];
        for (File fileFichier : listFichiers) {
            fileLstFich1[i] = fileFichier;
            i++;
        }
        int iNb = i;
        lblDragDrop.setVisible(false);
        Task taskTraitementChargeFichiers;
        taskTraitementChargeFichiers = tskChargeListeFichiers(fileLstFich1, iNb);
        Thread thrChargeFichiers = new Thread(taskTraitementChargeFichiers);
        thrChargeFichiers.setDaemon(true);
        thrChargeFichiers.start();

    }

}

From source file:snpviewer.SnpViewer.java

public void writeSavedRegionsToFile() {
    if (savedRegions.size() < 1) {
        Dialogs.showErrorDialog(null, "No Saved Regions exist to write!", "No Saved Regions", "SnpViewer");
        return;/* ww  w  .java  2 s  . com*/
    }
    final int flanks = 10;
    FileChooser fileChooser = new FileChooser();
    FileChooser.ExtensionFilter extFilter = new FileChooser.ExtensionFilter("Excel (*.xlsx)", "*.xlsx");
    fileChooser.getExtensionFilters().add(extFilter);
    fileChooser.setTitle("Write regions to Excel file (.xlsx)...");
    File rFile = fileChooser.showSaveDialog(mainWindow);
    if (rFile == null) {
        return;
    } else if (!rFile.getName().endsWith(".xlsx")) {
        rFile = new File(rFile.getAbsolutePath() + ".xlsx");
    }
    final File regionFile = rFile;
    final Task<Boolean> writeTask = new Task() {
        @Override
        protected Boolean call() throws Exception {
            try {
                updateProgress(-1, -1);
                BufferedOutputStream out = new BufferedOutputStream(new FileOutputStream(regionFile));
                Workbook wb = new XSSFWorkbook();
                //first create a summary sheet of all regions
                Sheet sheet = wb.createSheet();
                Row row = null;
                int rowNo = 0;
                int sheetNo = 0;
                wb.setSheetName(sheetNo++, "Summary");
                row = sheet.createRow(rowNo++);
                String header[] = { "Coordinates", "rsIDs", "Size (Mb)" };
                for (int col = 0; col < header.length; col++) {
                    Cell cell = row.createCell(col);
                    cell.setCellValue(header[col]);
                }
                for (int i = 0; i < savedRegions.size(); i++) {
                    row = sheet.createRow(rowNo++);
                    int col = 0;
                    Cell cell = row.createCell(col++);
                    cell.setCellValue("chr" + savedRegions.get(i).getCoordinateString());
                    cell = row.createCell(col++);
                    cell.setCellValue(savedRegions.get(i).getIdLine());
                    cell = row.createCell(col++);
                    double mB = (double) savedRegions.get(i).getLength() / 1000000;
                    cell.setCellValue(mB);
                }

                ArrayList<SnpFile> bothFiles = new ArrayList<>();
                bothFiles.addAll(affFiles);
                bothFiles.addAll(unFiles);
                String prevChrom = new String();
                double prog = 0;
                double total = savedRegions.size() * bothFiles.size() * 2;
                updateProgress(prog, total);
                int regCounter = 0;
                for (RegionSummary reg : savedRegions) {
                    updateMessage("Writing region " + ++regCounter + " of " + savedRegions.size());
                    //create a sheet for each chromosome
                    if (!reg.getChromosome().equalsIgnoreCase(prevChrom)) {
                        if (!prevChrom.isEmpty()) {

                            CellRangeAddress[] regions = {
                                    new CellRangeAddress(0, rowNo, 2, 2 + bothFiles.size()) };
                            SheetConditionalFormatting sheetCF = sheet.getSheetConditionalFormatting();

                            ConditionalFormattingRule rule1 = sheetCF
                                    .createConditionalFormattingRule(ComparisonOperator.EQUAL, "\"AA\"");
                            PatternFormatting fill1 = rule1.createPatternFormatting();
                            fill1.setFillBackgroundColor(IndexedColors.LIGHT_GREEN.index);
                            fill1.setFillPattern(PatternFormatting.SOLID_FOREGROUND);
                            ConditionalFormattingRule rule2 = sheetCF
                                    .createConditionalFormattingRule(ComparisonOperator.EQUAL, "\"BB\"");
                            PatternFormatting fill2 = rule2.createPatternFormatting();
                            fill2.setFillBackgroundColor(IndexedColors.PALE_BLUE.index);
                            fill2.setFillPattern(PatternFormatting.SOLID_FOREGROUND);
                            ConditionalFormattingRule rule3 = sheetCF
                                    .createConditionalFormattingRule(ComparisonOperator.EQUAL, "\"AB\"");
                            PatternFormatting fill3 = rule3.createPatternFormatting();
                            fill3.setFillBackgroundColor(IndexedColors.ROSE.index);
                            fill3.setFillPattern(PatternFormatting.SOLID_FOREGROUND);
                            sheetCF.addConditionalFormatting(regions, rule3, rule2);
                            sheetCF.addConditionalFormatting(regions, rule1);
                        }
                        rowNo = 0;
                        sheet = wb.createSheet();
                        wb.setSheetName(sheetNo++, reg.getChromosome());
                        prevChrom = reg.getChromosome();

                    } else {//pad regions with an empty line
                        rowNo++;
                    }
                    TreeMap<Integer, HashMap<String, String>> coordMap = new TreeMap();
                    /*coordmap - key is position, key of hashmap 
                     * is input filename and value call
                     */
                    HashMap<Integer, String> coordToId = new HashMap<>();
                    //coordinate to rs ID

                    try {
                        for (SnpFile f : bothFiles) {
                            updateProgress(prog++, total);
                            if (isCancelled()) {
                                return false;
                            }
                            List<SnpFile.SnpLine> lines = f.getSnpsInRegion(reg.getChromosome(),
                                    reg.getStartPos(), reg.getEndPos(), flanks);
                            for (SnpFile.SnpLine snpLine : lines) {
                                if (isCancelled()) {
                                    return false;
                                }
                                Integer coord = snpLine.getPosition();
                                if (!coordMap.containsKey(coord)) {
                                    coordMap.put(coord, new HashMap<String, String>());
                                }
                                String filename = f.inputFile.getName();
                                String rsId = snpLine.getId();
                                String call = snpLine.getCall();
                                coordMap.get(coord).put(filename, call);
                                coordToId.put(coord, rsId);
                            }
                        }
                        row = sheet.createRow(rowNo++);
                        Cell cell = row.createCell(0);
                        cell.setCellValue(reg.getCoordinateString());
                        row = sheet.createRow(rowNo++);
                        cell = row.createCell(0);
                        cell.setCellValue(reg.getIdLine());

                        int col = 0;
                        row = sheet.createRow(rowNo++);
                        cell = row.createCell(col++);
                        cell.setCellValue("Position");
                        cell = row.createCell(col++);
                        cell.setCellValue("rsID");
                        for (SnpFile f : bothFiles) {
                            updateProgress(prog++, total);
                            cell = row.createCell(col++);
                            if (f.getSampleName() != null && !f.getSampleName().isEmpty()) {
                                cell.setCellValue(f.getSampleName());
                            } else {
                                cell.setCellValue(f.inputFile.getName());
                            }
                        }
                        for (Entry current : coordMap.entrySet()) {
                            if (isCancelled()) {
                                return false;
                            }
                            col = 0;
                            Integer coord = (Integer) current.getKey();
                            row = sheet.createRow(rowNo++);
                            cell = row.createCell(col++);
                            cell.setCellValue(coord);
                            cell = row.createCell(col++);
                            cell.setCellValue(coordToId.get(coord));
                            HashMap<String, String> fileToCall = (HashMap<String, String>) current.getValue();
                            for (SnpFile f : bothFiles) {
                                cell = row.createCell(col++);
                                if (fileToCall.containsKey(f.inputFile.getName())) {
                                    cell.setCellValue(fileToCall.get(f.inputFile.getName()));
                                } else {
                                    cell.setCellValue("-");
                                }
                            }
                        }
                    } catch (Exception ex) {
                        return false;
                    }

                }
                CellRangeAddress[] regions = { new CellRangeAddress(0, rowNo, 2, 2 + bothFiles.size()) };
                SheetConditionalFormatting sheetCF = sheet.getSheetConditionalFormatting();

                ConditionalFormattingRule rule1 = sheetCF
                        .createConditionalFormattingRule(ComparisonOperator.EQUAL, "\"AA\"");
                PatternFormatting fill1 = rule1.createPatternFormatting();
                fill1.setFillBackgroundColor(IndexedColors.LIGHT_GREEN.index);
                fill1.setFillPattern(PatternFormatting.SOLID_FOREGROUND);
                ConditionalFormattingRule rule2 = sheetCF
                        .createConditionalFormattingRule(ComparisonOperator.EQUAL, "\"BB\"");
                PatternFormatting fill2 = rule2.createPatternFormatting();
                fill2.setFillBackgroundColor(IndexedColors.PALE_BLUE.index);
                fill2.setFillPattern(PatternFormatting.SOLID_FOREGROUND);
                ConditionalFormattingRule rule3 = sheetCF
                        .createConditionalFormattingRule(ComparisonOperator.EQUAL, "\"AB\"");
                PatternFormatting fill3 = rule3.createPatternFormatting();
                fill3.setFillBackgroundColor(IndexedColors.ROSE.index);
                fill3.setFillPattern(PatternFormatting.SOLID_FOREGROUND);
                sheetCF.addConditionalFormatting(regions, rule3, rule2);
                sheetCF.addConditionalFormatting(regions, rule1);
                wb.write(out);
                updateProgress(total, total);
                out.close();
            } catch (IOException | NumberFormatException ex) {
                ex.printStackTrace();
                return false;
            }
            return true;
        }
    };//end of task

    setProgressMode(true);
    progressBar.progressProperty().bind(writeTask.progressProperty());
    progressMessage.textProperty().bind(writeTask.messageProperty());
    writeTask.setOnSucceeded(new EventHandler<WorkerStateEvent>() {
        @Override
        public void handle(WorkerStateEvent e) {
            if (e.getSource().getValue() == true) {
                Dialogs.showInformationDialog(null,
                        "Saved regions written " + "to file " + "(" + regionFile.getName() + ")successfully",
                        "Regions Written", "SNP Viewer");
            } else {
                Dialogs.showErrorDialog(null, "Region write failed.", "Write Failed", "SNP Viewer");
            }
            setProgressMode(false);
            progressBar.progressProperty().unbind();
            progressBar.progressProperty().set(0);
            progressMessage.textProperty().unbind();
            progressMessage.setText("");
            progressTitle.setText("");

        }

    });
    writeTask.setOnFailed(new EventHandler<WorkerStateEvent>() {
        @Override
        public void handle(WorkerStateEvent e) {
            setProgressMode(false);
            progressBar.progressProperty().unbind();
            progressBar.progressProperty().set(0);
            progressMessage.textProperty().unbind();
            progressMessage.setText("");
            progressTitle.setText("Region write failed!");
            Dialogs.showErrorDialog(null, "Error writing region to file\n", "Region write error", "SNP Viewer",
                    e.getSource().getException());

        }

    });
    writeTask.setOnCancelled(new EventHandler<WorkerStateEvent>() {
        @Override
        public void handle(WorkerStateEvent e) {
            progressMessage.setText("Region write cancelled");
            progressTitle.setText("Cancelled");
            setProgressMode(false);
            progressBar.progressProperty().unbind();
            progressBar.progressProperty().set(0);
            Dialogs.showErrorDialog(null, "Error writing region to file\n", "Region write error", "SNP Viewer");
        }

    });
    cancelButton.setOnAction(new EventHandler<ActionEvent>() {
        @Override
        public void handle(ActionEvent actionEvent) {
            writeTask.cancel();

        }
    });
    progressTitle.setText("Writing regions to .xlsx file");
    new Thread(writeTask).start();
}

From source file:editeurpanovisu.EditeurPanovisu.java

/**
 *
 *///www.  j av  a 2s . com
private static void planAjouter() {
    FileChooser fileChooser = new FileChooser();

    FileChooser.ExtensionFilter extFilterJpeg = new FileChooser.ExtensionFilter("Fichiers JPEG (*.jpg)",
            "*.jpg");
    FileChooser.ExtensionFilter extFilterBmp = new FileChooser.ExtensionFilter("Fichiers BMP (*.bmp)", "*.bmp");
    FileChooser.ExtensionFilter extFilterPng = new FileChooser.ExtensionFilter("Fichiers PNG (*.png)", "*.png");
    File repert = new File(getStrCurrentDir() + File.separator);
    fileChooser.setInitialDirectory(repert);
    fileChooser.getExtensionFilters().addAll(extFilterJpeg, extFilterPng, extFilterBmp);

    File fileFichierPlan = fileChooser.showOpenDialog(null);
    if (fileFichierPlan != null) {
        getPlans()[getiNombrePlans()] = new Plan();
        getPlans()[getiNombrePlans()].setStrImagePlan(fileFichierPlan.getName());
        getPlans()[getiNombrePlans()].setStrLienPlan(fileFichierPlan.getAbsolutePath());
        File fileRepertoirePlan = new File(getStrRepertTemp() + File.separator + "images");
        if (!fileRepertoirePlan.exists()) {
            fileRepertoirePlan.mkdirs();
        }
        try {
            copieFichierRepertoire(fileFichierPlan.getAbsolutePath(), fileRepertoirePlan.getAbsolutePath());

        } catch (IOException ex) {
            Logger.getLogger(EditeurPanovisu.class.getName()).log(Level.SEVERE, null, ex);
        }
        getGestionnairePlan().ajouterPlan();
        setiNombrePlans(getiNombrePlans() + 1);
    }

}

From source file:editeurpanovisu.EditeurPanovisu.java

/**
 *
 * @throws IOException Exception d'entre sortie
 * @throws InterruptedException Exception interruption
 *///from   w w w.  ja va 2s  .  com
private static void projetCharge() throws IOException, InterruptedException {
    if (!bRepertSauveChoisi) {
        setStrRepertoireProjet(getStrCurrentDir());
    }
    ButtonType reponse = null;
    ButtonType buttonTypeOui = new ButtonType(rbLocalisation.getString("main.oui"));
    ButtonType buttonTypeNon = new ButtonType(rbLocalisation.getString("main.non"));
    ButtonType buttonTypeAnnule = new ButtonType(rbLocalisation.getString("main.annuler"));
    if (!isbDejaSauve()) {
        Alert alert = new Alert(AlertType.CONFIRMATION);
        alert.setHeaderText(null);
        alert.setTitle(rbLocalisation.getString("main.dialog.chargeProjet"));
        alert.setContentText(rbLocalisation.getString("main.dialog.chargeProjetMessage"));
        alert.getButtonTypes().clear();
        alert.getButtonTypes().setAll(buttonTypeOui, buttonTypeNon, buttonTypeAnnule);
        Optional<ButtonType> actReponse = alert.showAndWait();
        reponse = actReponse.get();
    }
    if (reponse == buttonTypeOui) {
        try {
            projetSauve();

        } catch (IOException ex) {
            Logger.getLogger(EditeurPanovisu.class.getName()).log(Level.SEVERE, null, ex);
        }
    }
    if ((reponse == buttonTypeOui) || (reponse == buttonTypeNon) || (reponse == null)) {
        panePanoramique.getChildren().clear();
        panePanoramique.getChildren().add(ivImagePanoramique);
        getApAttends().setVisible(true);
        mbarPrincipal.setDisable(true);
        bbarPrincipal.setDisable(true);
        hbBarreBouton.setDisable(true);
        tpEnvironnement.setDisable(true);
        setbDejaSauve(true);
        FileChooser fcRepertChoix = new FileChooser();
        FileChooser.ExtensionFilter extFilter = new FileChooser.ExtensionFilter("fichier panoVisu (*.pvu)",
                "*.pvu");
        fcRepertChoix.getExtensionFilters().add(extFilter);
        File fileRepert = new File(getStrRepertoireProjet() + File.separator);
        fcRepertChoix.setInitialDirectory(fileRepert);
        fileProjet = null;
        fileProjet = fcRepertChoix.showOpenDialog(getStPrincipal());
        if (fileProjet != null) {
            getStPrincipal().setTitle(
                    "Panovisu v" + strNumVersion.split("-")[0] + " : " + fileProjet.getAbsolutePath());
            lblDragDrop.setVisible(false);
            setStrRepertoireProjet(fileProjet.getParent());
            ajouteFichierHisto(fileProjet.getAbsolutePath());
            bRepertSauveChoisi = true;
            deleteDirectory(getStrRepertTemp());
            String strRepertPanovisu = getStrRepertTemp() + File.separator + "panovisu";
            File fileRptPanovisu = new File(strRepertPanovisu);
            fileRptPanovisu.mkdirs();
            copieRepertoire(getStrRepertAppli() + File.separator + "panovisu", strRepertPanovisu);
            mnuPanoramique.setDisable(false);
            btnMnuPanoramique.setDisable(false);
            ivAjouterPano.setDisable(false);
            ivAjouterPano.setOpacity(1.0);
            ivSauveProjet.setDisable(false);
            ivSauveProjet.setOpacity(1.0);
            ivVisiteGenere.setDisable(false);
            ivVisiteGenere.setOpacity(1.0);

            getVbChoixPanoramique().setVisible(false);

            mniSauveProjet.setDisable(false);
            mniSauveSousProjet.setDisable(false);
            mniVisiteGenere.setDisable(false);
            setiNumPoints(0);
            setiNumImages(0);
            setiNombreDiapo(0);
            diaporamas = new Diaporama[100];
            setiNumHTML(0);
            ivImagePanoramique.setImage(null);
            cbListeChoixPanoramique.getItems().clear();
            try {
                String strTexte;
                try (BufferedReader brFichierPVU = new BufferedReader(
                        new InputStreamReader(new FileInputStream(fileProjet), "UTF-8"))) {
                    strTexte = "";
                    String strLigneTexte;
                    setiNombrePanoramiquesFichier(0);
                    while ((strLigneTexte = brFichierPVU.readLine()) != null) {
                        if (strLigneTexte.contains("Panoramique=>")) {
                            setiNombrePanoramiquesFichier(getiNombrePanoramiquesFichier() + 1);
                        }
                        strTexte += strLigneTexte + "\n";
                    }
                }
                Task taskAnalysePVU;
                taskAnalysePVU = tskAnalyseFichierPVU(strTexte);
                Thread thrAnalysePVU = new Thread(taskAnalysePVU);
                thrAnalysePVU.setDaemon(true);
                thrAnalysePVU.start();

            } catch (FileNotFoundException ex) {
                Logger.getLogger(EditeurPanovisu.class.getName()).log(Level.SEVERE, null, ex);
            }

        }
    }
}

From source file:snpviewer.SnpViewer.java

public void writeRegionToFile(final String chromosome, final double start, final double end) {
    /* get coordinates of selection and report back
     * write SNPs in region to file//from w  w w.j ava 2  s  .  c o m
     */
    FileChooser fileChooser = new FileChooser();
    FileChooser.ExtensionFilter extFilter = new FileChooser.ExtensionFilter("Excel  (*.xlsx)", "*.xlsx");
    fileChooser.getExtensionFilters().add(extFilter);
    fileChooser.setTitle("Write region to Excel file (.xlsx)...");
    File rFile = fileChooser.showSaveDialog(mainWindow);
    if (rFile == null) {
        return;
    } else if (!rFile.getName().endsWith(".xlsx")) {
        rFile = new File(rFile.getAbsolutePath() + ".xlsx");
    }
    final File regionFile = rFile;
    final Task<Boolean> writeTask = new Task() {
        @Override
        protected Boolean call() throws Exception {
            try {

                updateProgress(-1, -1);
                ArrayList<SnpFile> bothFiles = new ArrayList<>();
                bothFiles.addAll(affFiles);
                bothFiles.addAll(unFiles);
                TreeMap<Integer, HashMap<String, String>> coordMap = new TreeMap();
                /*coordmap - key is position, key of hashmap 
                 * is input filename and value call
                 */
                HashMap<Integer, String> coordToId = new HashMap<>();
                double progress = 0;
                double total = bothFiles.size() * 5;
                try {
                    BufferedOutputStream out = new BufferedOutputStream(new FileOutputStream(regionFile));
                    Workbook wb = new XSSFWorkbook();
                    Sheet sheet = wb.createSheet();
                    int rowNo = 0;
                    Row row = sheet.createRow(rowNo++);
                    for (SnpFile f : bothFiles) {
                        if (isCancelled()) {
                            return false;
                        }
                        updateProgress(++progress, total);
                        updateMessage("Reading region in " + f.inputFile.getName());
                        List<SnpFile.SnpLine> lines = f.getSnpsInRegion(chromosome, (int) start, (int) end);
                        for (SnpFile.SnpLine snpLine : lines) {
                            if (isCancelled()) {
                                return false;
                            }
                            Integer coord = snpLine.getPosition();
                            if (!coordMap.containsKey(coord)) {
                                coordMap.put(coord, new HashMap<String, String>());
                            }
                            String filename = f.inputFile.getName();
                            String rsId = snpLine.getId();
                            String call = snpLine.getCall();
                            coordMap.get(coord).put(filename, call);
                            coordToId.put(coord, rsId);
                        }
                    }
                    Cell cell = row.createCell(0);
                    cell.setCellValue(
                            "chr" + chromosome + ":" + coordMap.firstKey() + "-" + coordMap.lastKey());
                    row = sheet.createRow(rowNo++);
                    cell = row.createCell(0);
                    cell.setCellValue(
                            coordToId.get(coordMap.firstKey()) + ";" + coordToId.get(coordMap.lastKey()));
                    row = sheet.createRow(rowNo++);
                    int colNo = 0;
                    cell = row.createCell(colNo++);
                    cell.setCellValue("Position");
                    cell = row.createCell(colNo++);
                    cell.setCellValue("rsID");
                    for (SnpFile f : bothFiles) {
                        cell = row.createCell(colNo++);
                        if (f.getSampleName() != null && f.getSampleName().length() > 0) {
                            cell.setCellValue(f.getSampleName());
                        } else {
                            cell.setCellValue(f.getInputFileName());
                        }
                    }
                    progress = coordMap.size();
                    total = 5 * coordMap.size();
                    updateMessage("Writing region to file...");
                    for (Entry current : coordMap.entrySet()) {
                        if (isCancelled()) {
                            return false;
                        }
                        progress += 4;
                        updateProgress(progress, total);
                        row = sheet.createRow(rowNo++);
                        colNo = 0;
                        Integer coord = (Integer) current.getKey();
                        cell = row.createCell(colNo++);
                        cell.setCellValue(coord);
                        String rsId = coordToId.get(coord);
                        cell = row.createCell(colNo++);
                        cell.setCellValue(rsId);
                        HashMap<String, String> fileToCall = (HashMap<String, String>) current.getValue();
                        for (SnpFile f : bothFiles) {
                            cell = row.createCell(colNo++);
                            if (fileToCall.containsKey(f.inputFile.getName())) {
                                cell.setCellValue(fileToCall.get(f.inputFile.getName()));
                            } else {
                                cell.setCellValue("-");
                            }
                        }
                    }
                    CellRangeAddress[] regions = { new CellRangeAddress(0, rowNo, 2, 2 + bothFiles.size()) };
                    SheetConditionalFormatting sheetCF = sheet.getSheetConditionalFormatting();

                    ConditionalFormattingRule rule1 = sheetCF
                            .createConditionalFormattingRule(ComparisonOperator.EQUAL, "\"AA\"");
                    PatternFormatting fill1 = rule1.createPatternFormatting();
                    fill1.setFillBackgroundColor(IndexedColors.LIGHT_GREEN.index);
                    fill1.setFillPattern(PatternFormatting.SOLID_FOREGROUND);
                    ConditionalFormattingRule rule2 = sheetCF
                            .createConditionalFormattingRule(ComparisonOperator.EQUAL, "\"BB\"");
                    PatternFormatting fill2 = rule2.createPatternFormatting();
                    fill2.setFillBackgroundColor(IndexedColors.PALE_BLUE.index);
                    fill2.setFillPattern(PatternFormatting.SOLID_FOREGROUND);
                    ConditionalFormattingRule rule3 = sheetCF
                            .createConditionalFormattingRule(ComparisonOperator.EQUAL, "\"AB\"");
                    PatternFormatting fill3 = rule3.createPatternFormatting();
                    fill3.setFillBackgroundColor(IndexedColors.ROSE.index);
                    fill3.setFillPattern(PatternFormatting.SOLID_FOREGROUND);
                    sheetCF.addConditionalFormatting(regions, rule3, rule2);
                    sheetCF.addConditionalFormatting(regions, rule1);
                    wb.write(out);
                    out.close();
                    return true;
                } catch (IOException ex) {
                    return false;
                }
            } catch (Exception ex) {
                return false;
            }
        }
    };//end of task

    setProgressMode(true);
    progressBar.progressProperty().bind(writeTask.progressProperty());
    progressMessage.textProperty().bind(writeTask.messageProperty());
    writeTask.setOnSucceeded(new EventHandler<WorkerStateEvent>() {
        @Override
        public void handle(WorkerStateEvent e) {
            if (e.getSource().getValue() == true) {
                Dialogs.showInformationDialog(null,
                        "Region written to file " + "(" + regionFile.getName() + ") successfully",
                        "Region Written", "SNP Viewer");
            } else {
                Dialogs.showErrorDialog(null, "Region write failed.", "Write Failed", "SNP Viewer");
            }
            setProgressMode(false);
            progressBar.progressProperty().unbind();
            progressBar.progressProperty().set(0);
            progressMessage.textProperty().unbind();
            progressMessage.setText("");
            progressTitle.setText("");

        }

    });
    writeTask.setOnFailed(new EventHandler<WorkerStateEvent>() {
        @Override
        public void handle(WorkerStateEvent e) {
            setProgressMode(false);
            progressBar.progressProperty().unbind();
            progressBar.progressProperty().set(0);
            progressMessage.textProperty().unbind();
            progressMessage.setText("");
            progressTitle.setText("Region write failed!");
            Dialogs.showErrorDialog(null, "Error writing region to file\n", "Region write error", "SNP Viewer",
                    e.getSource().getException());

        }

    });
    writeTask.setOnCancelled(new EventHandler<WorkerStateEvent>() {
        @Override
        public void handle(WorkerStateEvent e) {
            progressMessage.setText("Region write cancelled");
            progressTitle.setText("Cancelled");
            setProgressMode(false);
            progressBar.progressProperty().unbind();
            progressBar.progressProperty().set(0);
            Dialogs.showErrorDialog(null, "Error writing region to file\n", "Region write error", "SNP Viewer");
        }

    });
    cancelButton.setOnAction(new EventHandler<ActionEvent>() {
        @Override
        public void handle(ActionEvent actionEvent) {
            writeTask.cancel();

        }
    });
    progressTitle.setText("Writing region to .xlsx file");
    new Thread(writeTask).start();
}

From source file:editeurpanovisu.EditeurPanovisu.java

private void panoAjouteImage(double X, double Y) {
    if (X > 0 && X < imagePanoramique.getFitWidth()) {

        valideHS();//from   ww w  .j  a v a2  s .co  m
        dejaSauve = false;
        stPrincipal.setTitle(stPrincipal.getTitle().replace(" *", "") + " *");
        double mouseX = X;
        double mouseY = Y - pano.getLayoutY() - 115;
        double longitude, latitude;
        double largeur = imagePanoramique.getFitWidth();
        String chLong, chLat;
        longitude = 360.0f * mouseX / largeur - 180;
        latitude = 90.0d - 2.0f * mouseY / largeur * 180.0f;
        Circle point = new Circle(mouseX, mouseY, 5);
        point.setFill(Color.BLUE);
        point.setStroke(Color.YELLOW);
        point.setId("img" + numImages);
        point.setCursor(Cursor.DEFAULT);
        pano.getChildren().add(point);
        Tooltip t = new Tooltip("image n " + (numImages + 1));
        t.setStyle(tooltipStyle);
        Tooltip.install(point, t);

        //
        File repert;
        if (repertHSImages.equals("")) {
            repert = new File(currentDir + File.separator);
        } else {
            repert = new File(repertHSImages);
        }
        FileChooser fileChooser = new FileChooser();
        FileChooser.ExtensionFilter extFilterImages = new FileChooser.ExtensionFilter(
                "Fichiers Images (jpg, bmp, png)", "*.jpg", "*.bmp", "*.png");

        fileChooser.setInitialDirectory(repert);
        fileChooser.getExtensionFilters().addAll(extFilterImages);

        File fichierImage = fileChooser.showOpenDialog(null);
        if (fichierImage != null) {
            repertHSImages = fichierImage.getParent();
            numImages++;
            HotspotImage HS = new HotspotImage();
            HS.setLongitude(longitude);
            HS.setLatitude(latitude);
            HS.setUrlImage(fichierImage.getAbsolutePath());
            HS.setLienImg(fichierImage.getName());
            HS.setInfo(fichierImage.getName().split("\\.")[0]);
            File repertImage = new File(repertTemp + File.separator + "images");
            if (!repertImage.exists()) {
                repertImage.mkdirs();
            }
            try {
                copieFichierRepertoire(fichierImage.getAbsolutePath(), repertImage.getAbsolutePath());
            } catch (IOException ex) {
                Logger.getLogger(EditeurPanovisu.class.getName()).log(Level.SEVERE, null, ex);
            }
            panoramiquesProjet[panoActuel].addHotspotImage(HS);
            retireAffichageHotSpots();
            Pane affHS1 = affichageHS(listePano(panoActuel), panoActuel);
            affHS1.setId("labels");
            outils.getChildren().add(affHS1);

        } else {
            String chPoint = point.getId();
            chPoint = chPoint.substring(3, chPoint.length());
            Node pt = (Node) pano.lookup("#img" + chPoint);
            pano.getChildren().remove(pt);
        }
        valideHS();
        point.setOnDragDetected((MouseEvent me1) -> {
            point.setFill(Color.YELLOW);
            point.setStroke(Color.BLUE);
            dragDrop = true;
            me1.consume();

        });
        point.setOnMouseDragged((MouseEvent me1) -> {
            double XX = me1.getX() - imagePanoramique.getLayoutX();
            if (XX < 0) {
                XX = 0;
            }
            if (XX > imagePanoramique.getFitWidth()) {
                XX = imagePanoramique.getFitWidth();
            }
            point.setCenterX(XX + imagePanoramique.getLayoutX());
            double YY = me1.getY();
            if (YY < 0) {
                YY = 0;
            }
            if (YY > imagePanoramique.getFitHeight()) {
                YY = imagePanoramique.getFitHeight();
            }
            point.setCenterY(YY);

            me1.consume();

        });
        point.setOnMouseReleased((MouseEvent me1) -> {
            String chPoint = point.getId();
            chPoint = chPoint.substring(3, chPoint.length());
            int numeroPoint = Integer.parseInt(chPoint);
            double X1 = me1.getSceneX();
            double Y1 = me1.getSceneY();
            double mouseX1 = X1 - imagePanoramique.getLayoutX();
            if (mouseX1 < 0) {
                mouseX1 = 0;
            }
            if (mouseX1 > imagePanoramique.getFitWidth()) {
                mouseX1 = imagePanoramique.getFitWidth();
            }

            double mouseY1 = Y1 - pano.getLayoutY() - 109;
            if (mouseY1 < 0) {
                mouseY1 = 0;
            }
            if (mouseY1 > imagePanoramique.getFitHeight()) {
                mouseY1 = imagePanoramique.getFitHeight();
            }

            double longit, lat;
            double larg = imagePanoramique.getFitWidth();
            longit = 360.0f * mouseX1 / larg - 180;
            lat = 90.0d - 2.0f * mouseY1 / larg * 180.0f;
            panoramiquesProjet[panoActuel].getHotspotImage(numeroPoint).setLatitude(lat);
            panoramiquesProjet[panoActuel].getHotspotImage(numeroPoint).setLongitude(longit);
            point.setFill(Color.BLUE);
            point.setStroke(Color.YELLOW);
            me1.consume();

        });

        point.setOnMouseClicked((MouseEvent me1) -> {
            if (me1.isControlDown()) {
                dejaSauve = false;
                stPrincipal.setTitle(stPrincipal.getTitle().replace(" *", "") + " *");
                String chPoint = point.getId();
                chPoint = chPoint.substring(3, chPoint.length());
                int numeroPoint = Integer.parseInt(chPoint);
                Node pt;
                pt = (Node) pano.lookup("#img" + chPoint);
                pano.getChildren().remove(pt);

                for (int o = numeroPoint + 1; o < numImages; o++) {
                    pt = (Node) pano.lookup("#img" + Integer.toString(o));
                    pt.setId("img" + Integer.toString(o - 1));
                }
                /**
                 * on retire les anciennes indication de HS
                 */
                retireAffichageHotSpots();
                numImages--;
                panoramiquesProjet[panoActuel].removeHotspotImage(numeroPoint);
                /**
                 * On les cre les nouvelles
                 */
                ajouteAffichageHotspots();
            }
            valideHS();
            me1.consume();
        });

    }
}

From source file:editeurpanovisu.EditeurPanovisu.java

/**
 *
 * @throws IOException Exception d'entre sortie
 *//* ww w  .j  a v a2  s. c om*/
private static void projetSauve() throws IOException {
    if (!bRepertSauveChoisi) {
        setStrRepertoireProjet(getStrCurrentDir());
    }
    if (fileProjet == null) {
        FileChooser fcRepertChoix = new FileChooser();
        FileChooser.ExtensionFilter extFilter = new FileChooser.ExtensionFilter("fichier panoVisu (*.pvu)",
                "*.pvu");
        fcRepertChoix.getExtensionFilters().add(extFilter);
        File repert = new File(getStrRepertoireProjet() + File.separator);
        fcRepertChoix.setInitialDirectory(repert);
        fileProjet = fcRepertChoix.showSaveDialog(null);

    }
    if (fileProjet != null) {
        sauveFichierProjet();
        ajouteFichierHisto(fileProjet.getAbsolutePath());
    }
}

From source file:editeurpanovisu.EditeurPanovisu.java

/**
 *
 * @throws IOException Exception d'entre sortie
 *//*w  w  w  .ja  va2s  .c  o m*/
private static void projetSauveSous() throws IOException {
    if (!bRepertSauveChoisi) {
        setStrRepertoireProjet(getStrCurrentDir());
    }
    FileChooser fcRepertChoix = new FileChooser();
    FileChooser.ExtensionFilter extFilter = new FileChooser.ExtensionFilter("fichier panoVisu (*.pvu)",
            "*.pvu");
    fcRepertChoix.getExtensionFilters().add(extFilter);
    File fileRepert = new File(getStrRepertoireProjet() + File.separator);
    fcRepertChoix.setInitialDirectory(fileRepert);
    fileProjet = fcRepertChoix.showSaveDialog(null);
    if (fileProjet != null) {
        sauveFichierProjet();
        ajouteFichierHisto(fileProjet.getAbsolutePath());

    }

}

From source file:editeurpanovisu.EditeurPanovisu.java

/**
 *
 */// w  ww  .j a v a  2s  . c om
private void modeleSauver() throws IOException {
    File fichTemplate;
    FileChooser repertChoix = new FileChooser();
    FileChooser.ExtensionFilter extFilter = new FileChooser.ExtensionFilter("fichier Modle panoVisu (*.tpl)",
            "*.tpl");
    repertChoix.getExtensionFilters().add(extFilter);
    File repert = new File(repertAppli + File.separator + "templates");
    if (!repert.exists()) {
        repert.mkdirs();
    }
    repertChoix.setInitialDirectory(repert);
    fichTemplate = repertChoix.showSaveDialog(null);

    if (fichTemplate != null) {
        String contenuFichier = gestionnaireInterface.getTemplate();
        fichTemplate.setWritable(true);
        FileWriter fw = new FileWriter(fichTemplate);
        try (BufferedWriter bw = new BufferedWriter(fw)) {
            bw.write(contenuFichier);
        }
        Dialogs.create().title("Sauvegarde du fichier de Modle")
                .message("Votre modle  bien t sauvegard").showInformation();
    }

}