Returns the current list of all PDB IDs.
@return PdbChainKey set of all PDB IDs.
510777
public static SortedSet<String> getAll() {
		SortedSet<String> representatives = new TreeSet<String>();

		try {

			URL u = new URL(allUrl);

			InputStream stream = URLConnectionTools.getInputStream(u, 60000);

			if (stream != null) {
				BufferedReader reader = new BufferedReader(
						new InputStreamReader(stream));

				String line = null;

				while ((line = reader.readLine()) != null) {
					int index = line.lastIndexOf("structureId=");
					if (index > 0) {
						representatives.add(line.substring(index + 13, index + 17));
					}
				}
			}

		} catch (Exception e) {
			e.printStackTrace();
		}

		return representatives;
	}
275075
public List<K> getKeys() {
        synchronized ( _map ) {
            return new java.util.ArrayList<K>( _map.keySet() );
        }
    }
551793
public static function GetPdoParamList () {
		return [
			//数値
			'INTEGER'			=> \PDO::PARAM_INT,
			'NUMERIC'			=> \PDO::PARAM_STR,
			'REAL'				=> \PDO::PARAM_STR,
			//文字・文字列
			'TEXT'				=> \PDO::PARAM_STR,
			//バイナリ
			'NONE'				=> \PDO::PARAM_LOB,
		];
	}
628633
public List<String> getAllPDBIDs() throws IOException{

		File f = new File(path);
		if ( ! f.isDirectory())
			throw new IOException("Path " + path + " is not a directory!");

		String[] dirName = f.list();

		List<String>pdbIds = new ArrayList<String>();
		for (String dir : dirName) {
			File d2= new File(f,dir);
			if ( ! d2.isDirectory())
				continue;

			String[] pdbDirs = d2.list();
			for (String pdbId : pdbDirs) {
				if ( ! pdbIds.contains(pdbId))
					pdbIds.add(pdbId);

			}
		}

		return pdbIds;
	}
701340
public java.util.List<DBClusterBacktrack> getDBClusterBacktracks() {
        if (dBClusterBacktracks == null) {
            dBClusterBacktracks = new com.amazonaws.internal.SdkInternalList<DBClusterBacktrack>();
        }
        return dBClusterBacktracks;
    }
789553
public String[] getIds() {
        String[] ids = new String[recomms.length];
        for(int i = 0; i< recomms.length; i++)
            ids[i] = recomms[i].getId();
        return ids;
    }
954428
public Set<String> getChains() {
		Set<String> chains = new HashSet<String>();
		List<ResidueRange> rrs = ResidueRange.parseMultiple(getRanges());
		for (ResidueRange rr : rrs) chains.add(rr.getChainName());
		return chains;
	}

	@Override
	public String getIdentifier() {
		return getScopId();
	}

	public List<ResidueRange> getResidueRanges() {
		return ResidueRange.parseMultiple(ranges);
	}

	@Override
	public SubstructureIdentifier toCanonical() {
		return new SubstructureIdentifier(getPdbId(), ResidueRange.parseMultiple(getRanges()));
	}

	@Override
	public Structure reduce(Structure input) throws StructureException {
		return toCanonical().reduce(input);
	}

	@Override
	public Structure loadStructure(AtomCache cache) throws StructureException,
	IOException {
		return cache.getStructureForPdbId(pdbId);
	}

}
624232
@Override
  public List<String> listKeys() {
    lock.readLock().lock();
    try {
      List<String> keyList = new ArrayList<>(items.size());
      for (Map.Entry<String, Deque<MutablePair<DeltaType, Object>>> entry : items.entrySet()) {
        keyList.add(entry.getKey());
      }
      return keyList;
    } finally {
      lock.readLock().unlock();
    }
  }
160525
@Override
	public Set<String> getContainedIds() {
		Set<String> s = super.getContainedIds();
		for (Constraint c : map.values()) {
			s.addAll(c.getContainedIds());
		}
		return s;
	}
1011244
public java.util.List<DBInstance> getDBInstances() {
        if (dBInstances == null) {
            dBInstances = new com.amazonaws.internal.SdkInternalList<DBInstance>();
        }
        return dBInstances;
    }
359487
public java.util.List<DBClusterMember> getDBClusterMembers() {
        if (dBClusterMembers == null) {
            dBClusterMembers = new com.amazonaws.internal.SdkInternalList<DBClusterMember>();
        }
        return dBClusterMembers;
    }
900352
public final List<String> getKeyList() {
        final List<String> keys = new ArrayList<>();
        final Iterator<String> it = keyIterator();
        while (it.hasNext()) {
            keys.add(it.next());
        }
        return keys;
    }
579590
public HsqlArrayList getAllTables() {

        Iterator      schemas   = allSchemaNameIterator();
        HsqlArrayList alltables = new HsqlArrayList();

        while (schemas.hasNext()) {
            String         name    = (String) schemas.next();
            HashMappedList current = getTables(name);

            alltables.addAll(current.values());
        }

        return alltables;
    }
1276667
public java.util.List<String> getGroupIds() {
        if (groupIds == null) {
            groupIds = new com.amazonaws.internal.SdkInternalList<String>();
        }
        return groupIds;
    }
849274
public Collection<String> getIdentifiers() {
    List<String> keys = new LinkedList<String>();
    keys.addAll(this.stateMap.keySet());
    return keys;
  }
881689
public int[] getSentenceIds() {
        ArrayList<IntNaryTree> leaves = getLeaves();
        int[] sent = new int[leaves.size()];
        for (int i=0; i<sent.length; i++) {
            sent[i] = leaves.get(i).symbol;
        }
        return sent;
    }
524688
public function getAllDaxkoBranchIds() {
    $daxko_ids = [];

    $ids = $this->queryFactory
      ->get('mapping')
      ->condition('type', 'branch')
      ->execute();

    if (!$ids) {
      return [];
    }

    $storage = $this->entityTypeManager->getStorage('mapping');
    $entities = $storage->loadMultiple($ids);
    foreach ($entities as $entity) {
      $daxko_ids[] = $entity->field_daxko_branch_id->value;
    }

    return $daxko_ids;
  }