static void Main(string[] args)
{
if (args.Length < 1)
{
Console.WriteLine("usage: PrintExample archive-file");
return;
}
var archive = new CombineArchive();
if (!archive.initializeFromArchive(args[0]))
{
Console.WriteLine("Invalid Combine Archive");
return;
}
PrintMetaDataFor(archive, ".");
Console.WriteLine("Num Entries: {0}", archive.getNumEntries());
for (int i = 0; i < archive.getNumEntries(); ++i)
{
CaContent entry = archive.getEntry(i);
Console.WriteLine(" {0}: location: {1} format: {2}", i, entry.getLocation(), entry.getFormat());
PrintMetaDataFor(archive, entry.getLocation());
// the entry could now be extracted via
// archive.extractEntry(entry.getLocation(), <filename or folder>)
// or used as string
// string content = archive.extractEntryToString(entry.getLocation());
}
archive.cleanUp();
}
static void Main(string[] args)
{
if (args.Length < 1)
{
Console.WriteLine("usage: CreateArchiveExample sbml-file");
return;
}
var archive = new CombineArchive();
archive.addFile(
args[0], // filename
"./models/model.xml", // target file name
KnownFormats.lookupFormat("sbml"), // look up identifier for SBML models
true // mark file as master
);
var description = new OmexDescription();
description.setAbout("."); // about the archive itself
description.setDescription("Simple test archive including one SBML model");
description.setCreated(OmexDescription.getCurrentDateAndTime());
var creator = new VCard();
creator.setFamilyName("Bergmann");
creator.setGivenName("Frank");
creator.setEmail("*****@*****.**");
creator.setOrganization("Caltech");
description.addCreator(creator);
archive.addMetadata(".", description);
archive.writeToFile("out.omex");
}
private static List <PrimaryModelWData> read(string filename, string uri)
{
CombineArchive combineArchive = CombineArchive.FromFile(filename);
List <PrimaryModelWData> models = new List <>();
// Gets data entries
// ...
}
private static List <ExperimentalData> read(string filename)
{
CombineArchive combineArchive = CombineArchive.FromFile(filename);
List <ExperimentalData> dataRecords = new List <ExperimentalData>();
foreach (Entry entry in combineArchive.GetEntriesWithFormat(URI.NUML))
{
string docName = entry.GetLocalFileName();
NuMLDocument doc = NuMLReader.read(docName);
dataRecords.Add(new ExperimentalData(docName, doc));
}
return(dataRecords);
}
public static void write(string filename, List <ExperimentalData> dataRecords)
{
CombineArchive combineArchive = new CombineArchive();
combineArchive.ArchiveFileName = filename;
// Add data records
foreach (ExperimentalData ed in dataRecords)
{
// TODO: give tmpFile the ed.docName instead of random file name
string tmpFile = System.IO.Path.GetTempFileName();
NuMLWriter.write(ed.doc, tmpFile);
combineArchive.AddEntry(tmpFile, URI.NUML, null);
}
}
static void PrintMetaDataFor(CombineArchive archive, string location)
{
OmexDescription desc = archive.getMetadataForLocation(location);
if (desc.isEmpty())
{
Console.WriteLine(" no metadata for '{0}'", location);
return;
}
Console.WriteLine(" metadata for '{0}':", location);
Console.WriteLine(" Created : {0}", desc.getCreated().getDateAsString());
for (int i = 0; i < desc.getNumModified(); ++i)
{
Console.WriteLine(" Modified : {0}", desc.getModified(i).getDateAsString());
}
Console.WriteLine(" # Creators: {0}", desc.getNumCreators());
for (int i = 0; i < desc.getNumCreators(); ++i)
{
VCard creator = desc.getCreator(i);
Console.WriteLine(" {0} {1}", creator.getGivenName(), creator.getFamilyName());
}
}
