Examples with FileMeta org.molgenis.data.file.model.FileMeta used on opensource projects

Example 11 with FileMeta

use of org.molgenis.data.file.model.FileMeta in project molgenis by molgenis.

the class StyleServiceTest method getBootstrap4FallBackThemeData.

@Test
public void getBootstrap4FallBackThemeData() throws MolgenisStyleException {
    String styleName = "my-style";
    StyleSheet styleSheet = mock(StyleSheet.class);
    StyleSheet fallBackTheme = mock(StyleSheet.class);
    FileMeta fileMeta = mock(FileMeta.class);
    String fileId = "fileId";
    when(fileMeta.getId()).thenReturn(fileId);
    when(styleSheet.getBootstrap4Theme()).thenReturn(null);
    when(fallBackTheme.getBootstrap4Theme()).thenReturn(fileMeta);
    Query<StyleSheet> expectedQuery = new QueryImpl<StyleSheet>().eq(StyleSheetMetadata.NAME, styleName);
    Query<StyleSheet> fallBackQuery = new QueryImpl<StyleSheet>().eq(StyleSheetMetadata.NAME, BOOTSTRAP_FALL_BACK_THEME);
    when(dataService.findOne(STYLE_SHEET, expectedQuery, StyleSheet.class)).thenReturn(styleSheet);
    when(dataService.findOne(STYLE_SHEET, fallBackQuery, StyleSheet.class)).thenReturn(fallBackTheme);
    File styleFile = mock(File.class);
    String mockFilePath = "mock/file/path";
    when(styleFile.getPath()).thenReturn(mockFilePath);
    when(fileStore.getFile(fileId)).thenReturn(styleFile);
    BootstrapVersion version = BootstrapVersion.BOOTSTRAP_VERSION_4;
    FileSystemResource themeData = styleService.getThemeData(styleName, version);
    assertEquals(themeData.getPath(), mockFilePath);
}

Example 12 with FileMeta

use of org.molgenis.data.file.model.FileMeta in project molgenis by molgenis.

the class SavedScriptRunner method runScript.

/**
 * Run a script with parameters.
 *
 * @param scriptName name of the script to run
 * @param parameters parameters for the script
 * @return ScriptResult
 * @throws UnknownScriptException  if scriptName is unknown
 * @throws GenerateScriptException , if parameter is missing
 */
public ScriptResult runScript(String scriptName, Map<String, Object> parameters) {
    Script script = dataService.findOne(SCRIPT, new QueryImpl<Script>().eq(ScriptMetaData.NAME, scriptName), Script.class);
    if (script == null) {
        throw new UnknownScriptException("Unknown script [" + scriptName + "]");
    }
    if (script.getParameters() != null) {
        for (ScriptParameter param : script.getParameters()) {
            if (!parameters.containsKey(param.getName())) {
                throw new GenerateScriptException("Missing parameter [" + param + "]");
            }
        }
    }
    if (script.isGenerateToken()) {
        String token = tokenService.generateAndStoreToken(SecurityUtils.getCurrentUsername(), "For script " + script.getName());
        parameters.put("molgenisToken", token);
    }
    FileMeta fileMeta = null;
    if (StringUtils.isNotEmpty(script.getResultFileExtension())) {
        String name = generateRandomString();
        File file = fileStore.getFile(name + "." + script.getResultFileExtension());
        parameters.put("outputFile", file.getAbsolutePath());
        fileMeta = createFileMeta(name, file);
        dataService.add(FILE_META, fileMeta);
    }
    ScriptRunner scriptRunner = scriptRunnerFactory.getScriptRunner(script.getScriptType().getName());
    String output = scriptRunner.runScript(script, parameters);
    return new ScriptResult(fileMeta, output);
}

Example 13 with FileMeta

use of org.molgenis.data.file.model.FileMeta in project molgenis by molgenis.

the class AppRepositoryDecorator method validateResourceZip.

private void validateResourceZip(App app) {
    FileMeta appZipMeta = app.getSourceFiles();
    if (appZipMeta != null) {
        File fileStoreFile = fileStore.getFile(appZipMeta.getId());
        if (fileStoreFile == null) {
            LOG.error("Resource zip '{}' for app '{}' missing in file store", appZipMeta.getId(), app.getName());
            throw new RuntimeException("An error occurred trying to create or update app");
        }
        ZipFile zipFile;
        try {
            zipFile = new ZipFile(fileStoreFile);
        } catch (ZipException e) {
            LOG.error("Error creating zip file object", e);
            throw new RuntimeException("An error occurred trying to create or update app");
        }
        if (!zipFile.isValidZipFile()) {
            throw new MolgenisValidationException(new ConstraintViolation(String.format("'%s' is not a valid zip file.", appZipMeta.getFilename())));
        }
    }
}

Example 14 with FileMeta

use of org.molgenis.data.file.model.FileMeta in project molgenis by molgenis.

the class AppRepositoryDecorator method activateApp.

private void activateApp(App app) {
    FileMeta appSourceArchive = app.getSourceFiles();
    if (appSourceArchive != null) {
        File fileStoreFile = fileStore.getFile(appSourceArchive.getId());
        if (fileStoreFile == null) {
            LOG.error("Source archive '{}' for app '{}' missing in file store", appSourceArchive.getId(), app.getName());
            throw new RuntimeException("An error occurred trying to activate app");
        }
        try {
            ZipFile zipFile = new ZipFile(fileStoreFile);
            if (!app.getUseFreemarkerTemplate()) {
                FileHeader fileHeader = zipFile.getFileHeader("index.html");
                if (fileHeader == null) {
                    LOG.error("Missing index.html in {} while option Use freemarker template as index.html was set 'No'", app.getName());
                    throw new RuntimeException(format("Missing index.html in %s while option 'Use freemarker template as index.html' was set 'No'", app.getName()));
                }
            }
            // noinspection StringConcatenationMissingWhitespace
            zipFile.extractAll(fileStore.getStorageDir() + separatorChar + FILE_STORE_PLUGIN_APPS_PATH + separatorChar + app.getId() + separatorChar);
        } catch (ZipException e) {
            LOG.error("", e);
            throw new RuntimeException(format("An error occurred activating app '%s'", app.getName()));
        }
    }
}

Example 15 with FileMeta

use of org.molgenis.data.file.model.FileMeta in project molgenis by molgenis.

the class AppRepositoryDecorator method updateApp.

private void updateApp(App app, App existingApp) {
    FileMeta appSourceFiles = app.getSourceFiles();
    FileMeta existingAppSourceFiles = existingApp.getSourceFiles();
    if (appSourceFiles != null) {
        if (existingAppSourceFiles != null) {
            if (!appSourceFiles.getId().equals(existingAppSourceFiles.getId())) {
                validateResourceZip(app);
                if (existingApp.isActive()) {
                    deactivateApp(existingApp);
                }
                if (app.isActive()) {
                    activateApp(app);
                }
            } else {
                if (app.isActive() && !existingApp.isActive()) {
                    activateApp(app);
                } else if (!app.isActive() && existingApp.isActive()) {
                    deactivateApp(app);
                }
            }
        } else {
            validateResourceZip(app);
            if (app.isActive()) {
                activateApp(app);
            }
        }
    } else {
        // noinspection VariableNotUsedInsideIf
        if (existingAppSourceFiles != null) {
            if (existingApp.isActive()) {
                deactivateApp(existingApp);
            }
        }
    }
}