Examples with NextProtException org.nextprot.api.commons.exception.NextProtException used on opensource projects

Example 66 with NextProtException

use of org.nextprot.api.commons.exception.NextProtException in project nextprot-api by calipho-sib.

the class ExportController method exportAllEntryProteinExistencess.

@RequestMapping(value = "/export/entry/all/protein-existences", method = { RequestMethod.GET }, produces = { NextprotMediaType.TSV_MEDIATYPE_VALUE })
public void exportAllEntryProteinExistencess(HttpServletResponse response) {
    try {
        EntryProteinExistenceReportWriter writer = new EntryProteinExistenceReportTSVWriter(response.getOutputStream());
        masterIdentifierService.findUniqueNames().forEach(entryAccession -> writer.write(entryAccession, overviewService.findOverviewByEntry(entryAccession).getProteinExistences()));
        writer.close();
    } catch (IOException e) {
        throw new NextProtException("cannot export all entries in TSV format", e);
    }
}

Example 67 with NextProtException

use of org.nextprot.api.commons.exception.NextProtException in project nextprot-api by calipho-sib.

the class GitHubServiceImpl method getTree.

@Override
@Cacheable(value = "github-tree")
public GHTree getTree() {
    try {
        GitHub github = getGitHubConnection();
        GHRepository repo = github.getRepository("calipho-sib/nextprot-docs");
        return repo.getTreeRecursive(githubDocBranch, 1);
    } catch (IOException e) {
        e.printStackTrace();
        throw new NextProtException("Documentation not available, sorry for the inconvenience");
    }
}

Example 68 with NextProtException

use of org.nextprot.api.commons.exception.NextProtException in project nextprot-api by calipho-sib.

the class GitHubServiceImpl method getPage.

@Override
@Cacheable(value = "github-pages")
public String getPage(String folder, String page) {
    String finalPage = page;
    if ("news".equalsIgnoreCase(folder)) {
        finalPage = getCorrespondingPageForNews(page);
    }
    try {
        GitHub github = getGitHubConnection();
        GHRepository repo = github.getRepository("calipho-sib/nextprot-docs");
        GHContent content = null;
        String extension = ".md";
        if (folder.contains("json")) {
            // if folder contains json
            extension = ".json";
        }
        content = repo.getFileContent(folder + "/" + finalPage + extension, githubDocBranch);
        return content.getContent();
    } catch (IOException e) {
        e.printStackTrace();
        throw new NextProtException("Documentation not available, sorry for the inconvenience");
    }
}