Package org.biojava.nbio.structure.io.density

Class NoDensityMapException

java.lang.Object

java.lang.Throwable

java.lang.Exception

java.io.IOException

org.biojava.nbio.structure.io.density.NoDensityMapException

All Implemented Interfaces:

Serializable

public class NoDensityMapException
extends IOException

Thrown when no enabled source could supply a density map for an entry.

This is a routine outcome rather than an error: not every entry has density. Structures deposited without structure factors have none at all (4HHB, for instance), and a cryo-EM entry has no X-ray maps by construction. The per-source reasons are kept so that a caller — particularly a user interface — can explain why rather than just reporting a failure.

Since:

7.3.0

Author:

Amr ALHOSSARY

See Also:

• Serialized Form

Constructor Summary

Constructors

Constructor	Description
NoDensityMapException(PdbId pdbId, DensityMapKind kind, Map<DensityMapSource,String> attempts)

Method Summary

Modifier and Type	Method	Description
Map<DensityMapSource,String>	getAttempts()	What happened at each source, in the order they were tried.
DensityMapKind	getKind()
PdbId	getPdbId()

Methods inherited from class java.lang.Throwable

addSuppressed, fillInStackTrace, getCause, getLocalizedMessage, getMessage, getStackTrace, getSuppressed, initCause, printStackTrace, printStackTrace, printStackTrace, setStackTrace, toString

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Details

NoDensityMapException

public NoDensityMapException(PdbId pdbId,
 DensityMapKind kind,
 Map<DensityMapSource,String> attempts)

Parameters:

pdbId - the entry that was requested, may be null for a request made by EMDB identifier

kind - the kind of map that was requested

attempts - what happened at each source that was tried, in the order tried

Method Details

getPdbId

public PdbId getPdbId()

Returns:

the entry that was requested, or null

getKind

public DensityMapKind getKind()

Returns:

the kind of map that was requested

getAttempts

public Map<DensityMapSource,String> getAttempts()

What happened at each source, in the order they were tried. Suitable for building a human-readable explanation.

Returns:

an unmodifiable map from source to reason