Example usage for org.apache.commons.lang3 StringUtils trimToNull

List of usage examples for org.apache.commons.lang3 StringUtils trimToNull

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Introduction

In this page you can find the example usage for org.apache.commons.lang3 StringUtils trimToNull.

Prototype

public static String trimToNull(final String str)

Source Link

Document

Removes control characters (char <= 32) from both ends of this String returning null if the String is empty ("") after the trim or if it is null .

Usage

From source file:org.gbif.pubindex.service.impl.ArticleIndexerImpl.java

private String headContentType(String url) {
    // execute head request
    HttpHead req = new HttpHead(url);
    try {/*from  ww w  .ja  v a 2s .c  om*/
        HttpResponse response = client.execute(req);
        Header ct = response.getFirstHeader("Content-Type");
        return ct == null ? null : StringUtils.trimToNull(ct.getValue());
    } catch (Exception e) {
        LOG.warn("Head request for article {} failed: {}", url, e.getMessage());
    }
    return null;
}

From source file:org.gbif.pubindex.service.impl.ArticleIndexerImpl.java

private void findNamesInText(List<NameFound> names, String text, NameFound.Source source, Article article) {
    if (StringUtils.isBlank(text)) {
        LOG.debug("No text in {}", source);
    } else {//  ww  w .  ja va 2 s  .c o m
        // call taxon finder service
        Map<String, String> params = new HashMap<String, String>();
        params.put("input", text);
        params.put("type", "text");
        params.put("format", "json");
        try {
            HttpUtil.Response resp = http.post(finderWS, HttpUtil.map2Entity(params));
            LOG.debug("Names found in {} : {}", source, resp.content);

            Map<String, Object> json = mapper.readValue(resp.content, Map.class);
            List<Map<String, ?>> jsonNames = (List<Map<String, ?>>) json.get("names");
            for (Map<String, ?> n : jsonNames) {
                String sciname = StringUtils.trimToNull((String) n.get("scientificName"));
                if (sciname != null) {
                    NameFound name = new NameFound();
                    name.setArticleId(article.getId());
                    name.setSource(source);
                    name.setName(cleanTfArtifacts(sciname));
                    name.setNameVerbatim(StringUtils.trimToNull((String) n.get("verbatim")));
                    name.setNovum(false);
                    // require at least binomials - we'll use a lower confidence for monomials but still store them
                    if (sciname.contains(" ")) {
                        name.setConfidence(0);
                    } else {
                        name.setConfidence(1);
                    }
                    name.setOffsetStart((Integer) n.get("offsetStart"));
                    name.setOffsetEnd((Integer) n.get("offsetEnd"));
                    names.add(name);
                }
            }

        } catch (URISyntaxException e) {
            // wont happen :)
        } catch (Exception e) {
            LOG.error("Problem calling name finder: {}", e);
        }
    }
}

From source file:org.gbif.pubindex.service.impl.FeedParserRome.java

private Article handleFeedItem(SyndEntry item, String feedTitle) {
    Article a = new Article();

    a.setTitle(StringUtils.trimToNull(item.getTitle()));
    a.setUrl(StringUtils.trimToNull(item.getLink()));
    a.setAuthors(concat(item.getAuthors()));
    a.setKeywords(concatCategories(item.getCategories()));

    a.setPublishedDate(item.getPublishedDate());
    a.setPublishedIn(StringUtils.trimToNull(feedTitle));
    if (item.getDescription() != null) {
        a.setDescription(StringUtils.trimToNull(item.getDescription().getValue()));
    }// w  w  w .  ja va2  s.  c o m
    String guid = StringUtils.trimToNull(item.getUri());
    // dont trust BioStor UUIDs as they change all the time
    if (guid == null || guid.startsWith("urn:uuid")) {
        // if no guid was given use the link
        guid = StringUtils.trimToNull(item.getLink());
        if (guid == null) {
            // last resort use the hascode for the entire item
            guid = "" + item.hashCode();
        }
    }
    a.setGuid(guid);
    // check if url or guid containts a doi
    a.setDoi(findDOI(guid, a.getUrl()));

    // parse prism module
    PrismModule prism = (PrismModule) item.getModule(PrismModule.URI);
    if (prism != null) {
        if (prism.getDoi() != null) {
            a.setDoi(prism.getDoi());
        }
    }
    return a;
}

From source file:org.gbif.pubindex.service.impl.FeedParserRome.java

protected static String concat(List objs) {
    StringBuilder keywords = new StringBuilder();
    boolean first = true;
    for (Object cat : objs) {
        if (cat != null) {
            if (!first) {
                keywords.append("; ");
            }// ww  w .  j a  v a 2 s.c  o m
            keywords.append(cat.toString());
            first = false;
        }
    }
    return StringUtils.trimToNull(keywords.toString());
}

From source file:org.gbif.pubindex.service.impl.FeedParserRome.java

protected static String concatCategories(List<SyndCategoryImpl> objs) {
    StringBuilder keywords = new StringBuilder();
    boolean first = true;
    for (Object cat : objs) {
        if (cat != null) {
            if (!first) {
                keywords.append("; ");
            }/*from w w w .  java2  s. co  m*/
            keywords.append(((SyndCategoryImpl) cat).getName());
            first = false;
        }
    }
    return StringUtils.trimToNull(keywords.toString());
}

From source file:org.haiku.haikudepotserver.api1.RepositoryApiImpl.java

@Override
public CreateRepositorySourceMirrorResult createRepositorySourceMirror(
        CreateRepositorySourceMirrorRequest request) throws ObjectNotFoundException {
    Preconditions.checkArgument(null != request, "the request must be supplied");
    Preconditions.checkArgument(!Strings.isNullOrEmpty(request.repositorySourceCode),
            "the code for the new repository source mirror");
    Preconditions.checkArgument(!Strings.isNullOrEmpty(request.countryCode),
            "the country code should be supplied");

    final ObjectContext context = serverRuntime.newContext();

    Country country = Country.tryGetByCode(context, request.countryCode)
            .orElseThrow(() -> new ObjectNotFoundException(Country.class.getSimpleName(), request.countryCode));
    RepositorySource repositorySource = RepositorySource.tryGetByCode(context, request.repositorySourceCode)
            .orElseThrow(() -> new ObjectNotFoundException(RepositorySource.class.getSimpleName(),
                    request.repositorySourceCode));

    if (!authorizationService.check(context, tryObtainAuthenticatedUser(context).orElse(null),
            repositorySource.getRepository(), Permission.REPOSITORY_EDIT)) {
        throw new AuthorizationFailureException();
    }//from   w w  w  .  j a  v a2  s .c  o m

    // if there is no other mirror then this should be the primary.

    RepositorySourceMirror mirror = context.newObject(RepositorySourceMirror.class);
    mirror.setIsPrimary(!repositorySource.tryGetPrimaryMirror().isPresent());
    mirror.setBaseUrl(request.baseUrl);
    mirror.setRepositorySource(repositorySource);
    mirror.setCountry(country);
    mirror.setDescription(StringUtils.trimToNull(request.description));
    mirror.setCode(UUID.randomUUID().toString());

    repositorySource.getRepository().setModifyTimestamp();
    context.commitChanges();

    LOGGER.info("did add mirror [{}] to repository source [{}]", country.getCode(), repositorySource.getCode());

    CreateRepositorySourceMirrorResult result = new CreateRepositorySourceMirrorResult();
    result.code = mirror.getCode();
    return result;
}

From source file:org.haiku.haikudepotserver.api1.RepositoryApiImpl.java

@Override
public UpdateRepositorySourceMirrorResult updateRepositorySourceMirror(
        UpdateRepositorySourceMirrorRequest request) throws ObjectNotFoundException {
    Preconditions.checkArgument(null != request, "the request must be supplied");
    Preconditions.checkArgument(!Strings.isNullOrEmpty(request.code), "the code for the mirror to update");

    final ObjectContext context = serverRuntime.newContext();

    RepositorySourceMirror repositorySourceMirror = RepositorySourceMirror.tryGetByCode(context, request.code)
            .orElseThrow(() -> new ObjectNotFoundException(RepositorySourceMirror.class.getSimpleName(),
                    request.code));//  w  w w .  ja  va2s.c  o  m

    if (!authorizationService.check(context, tryObtainAuthenticatedUser(context).orElse(null),
            repositorySourceMirror.getRepositorySource().getRepository(), Permission.REPOSITORY_EDIT)) {
        throw new AuthorizationFailureException();
    }

    for (UpdateRepositorySourceMirrorRequest.Filter filter : CollectionUtils.emptyIfNull(request.filter)) {
        switch (filter) {
        case ACTIVE:
            if (repositorySourceMirror.getIsPrimary()) {
                throw new ValidationException(
                        new ValidationFailure(RepositorySourceMirror.ACTIVE.getName(), "confict"));
            }
            repositorySourceMirror.setActive(null != request.active && request.active);
            break;
        case BASE_URL:
            repositorySourceMirror.setBaseUrl(request.baseUrl);
            break;
        case COUNTRY:
            Country country = Country.tryGetByCode(context, request.countryCode).orElseThrow(
                    () -> new ObjectNotFoundException(Country.class.getSimpleName(), request.countryCode));
            repositorySourceMirror.setCountry(country);
            break;
        case IS_PRIMARY:
            boolean isPrimary = null != request.isPrimary && request.isPrimary;

            if (isPrimary != repositorySourceMirror.getIsPrimary()) {
                if (isPrimary) {
                    // in this case, the former primary should loose it's primary
                    // status so that it can be swapped to this one.
                    repositorySourceMirror.getRepositorySource().getPrimaryMirror().setIsPrimary(false);
                    repositorySourceMirror.setIsPrimary(true);
                } else {
                    throw new ValidationException(
                            new ValidationFailure(RepositorySourceMirror.IS_PRIMARY.getName(), "confict"));
                }
            }
            break;
        case DESCRIPTION:
            repositorySourceMirror.setDescription(StringUtils.trimToNull(request.description));
            break;
        default:
            throw new IllegalStateException("unknown change filter for mirror [" + filter + "]");
        }
    }

    if (context.hasChanges()) {
        repositorySourceMirror.getRepositorySource().getRepository().setModifyTimestamp();
    }

    context.commitChanges();
    LOGGER.info("did update mirror [{}]", repositorySourceMirror.getCode());
    return new UpdateRepositorySourceMirrorResult();
}

From source file:org.haiku.haikudepotserver.repository.job.RepositoryHpkrIngressJobRunner.java

/**
 * <p>Each repository has a little &quot;repo.info&quot; file that resides next to the HPKR data.
 * This method will pull this in and process the data into the repository source.</p>
 *///from   ww  w .  j  a v a  2  s .  c  o  m

private void runImportInfoForRepositorySource(ObjectContext mainContext, RepositorySource repositorySource)
        throws RepositoryHpkrIngressException {
    URL url = repositorySource.tryGetDownloadRepoInfoURL()
            .orElseThrow(() -> new RepositoryHpkrIngressException("unable to download for ["
                    + repositorySource.getCode() + "] as no download repo info url was available"));

    // now shift the URL's data into a temporary file and then process it.
    File temporaryFile = null;

    try {
        temporaryFile = File.createTempFile(repositorySource.getCode() + "__import", ".repo-info");

        LOGGER.info("will copy data for repository info [{}] ({}) to temporary file", repositorySource,
                url.toString());

        FileHelper.streamUrlDataToFile(url, temporaryFile, TIMEOUT_REPOSITORY_SOURCE_FETCH);

        try (InputStream inputStream = new FileInputStream(temporaryFile);
                InputStreamReader inputStreamReader = new InputStreamReader(inputStream, Charsets.UTF_8);
                BufferedReader reader = new BufferedReader(inputStreamReader)) {
            String urlParameterValue = DriverSettings.parse(reader).stream()
                    .filter(p -> p.getName().equals(PARAMETER_NAME_URL))
                    .filter(p -> CollectionUtils.isNotEmpty(p.getValues())).findAny()
                    .map(v -> StringUtils.trimToNull(v.getValues().get(0)))
                    .orElseThrow(() -> new DriverSettingsException(
                            "the 'repo.info' file is expected to have " + "a [" + PARAMETER_NAME_URL
                                    + "] entry as identifier, but this appears to be " + "missing"));

            if (!Objects.equals(urlParameterValue, repositorySource.getUrl())) {
                LOGGER.info("updated the repo info url to [{}] for repository source [{}]", urlParameterValue,
                        repositorySource.getCode());
                repositorySource.setUrl(urlParameterValue);
                repositorySource.getRepository().setModifyTimestamp();
                mainContext.commitChanges();
            }

        }
    } catch (IOException | DriverSettingsException e) {
        throw new RepositoryHpkrIngressException(
                "a problem has arisen parsing or dealing with the 'repo.info' file", e);
    } finally {
        if (null != temporaryFile && temporaryFile.exists()) {
            if (!temporaryFile.delete()) {
                LOGGER.error("unable to delete the file; {}" + temporaryFile.getAbsolutePath());
            }
        }

    }

}

From source file:org.hawkular.client.test.BaseTest.java

private URI getEndpointFromEnv() throws URISyntaxException {
    String endpoint = System.getenv("HAWKULAR_ENDPOINT");
    if (StringUtils.trimToNull(endpoint) == null) {
        Reporter.log("HAWKULAR_ENDPOINT env not defined. Defaulting to 'localhost'");
        endpoint = "http://localhost:8080";
    }//from  w  w  w .j  av  a 2s.com

    return new URI(endpoint);
}

From source file:org.hawkular.client.test.BaseTest.java

private String getUsername() {
    String username = System.getenv("HAWKULAR_USER");
    if (StringUtils.trimToNull(username) == null) {
        Reporter.log("HAWKULAR_USER env not defined. Defaulting to 'jdoe'");
        username = "jdoe";
    }/*from w  w w.ja v a2s  .c  om*/

    return username;
}