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java.lang.Objectuk.ac.sanger.cgp.standalonecsa.enums.CsaError
public class CsaError
This class converts handled exceptions into meaningful messages. It should not be used for exceptions that will be thrown.
Field Summary | |
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static CsaError |
BAD_AB1_BASE_CALL
Use when catching and handling a BioError with root cause of IllegalSymbolException. |
static CsaError |
BAD_COMMENT_BLOCK
Use when catching and handling an BadCommentException from autoCSA caused by missing DYEP. |
static CsaError |
BAD_TRACE
Bad trace is a standard exception thrown by autoCSA, usually due to insufficient peaks. |
static CsaError |
CHROMATOGRAM_FORMAT
Use when catching and handling unknown chromatogram objects (via BioJava). |
static CsaError |
CSA_CHECKED_RUNTIME
This is here to handle a specific problem seen in autoCSA on Linux under a specific version of Java. |
static CsaError |
FAILED_MOB_CORR
This can be thrown by autoCSA when the mobility correction step fails, currently only applies to 'ab1' files. |
static CsaError |
IO
Use when catching and handling file access problems. |
static CsaError |
OUTSIDE_OF_COVERAGE
The region of the amplimer or image being worked on is outside of the coverage. |
static CsaError |
UNKNOWN_CHROMATOGRAM
Use when catching and handling files that do not appear to be ab1 or scf. |
static CsaError |
UNKNOWN_REASON
Use when an unexpected exception is thrown |
static CsaError |
UNKNOWN_SCAN_START
Use when indicating that a start scan position in the trace cannot be identified. |
static CsaError |
UNKNOWN_SCAN_STOP
Use when indicating that a stop scan position in the trace cannot be identified. |
static CsaError |
UNSUPPORTED_CHROM_FORMAT
Use when catching and handling an UnsupportedChromatogramFormatException from BioJava. |
Method Summary | |
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java.lang.String |
toString()
Get a string representation of the object. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Field Detail |
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public static final CsaError IO
public static final CsaError CHROMATOGRAM_FORMAT
public static final CsaError UNKNOWN_CHROMATOGRAM
public static final CsaError CSA_CHECKED_RUNTIME
public static final CsaError BAD_TRACE
public static final CsaError FAILED_MOB_CORR
public static final CsaError OUTSIDE_OF_COVERAGE
public static final CsaError UNSUPPORTED_CHROM_FORMAT
public static final CsaError BAD_COMMENT_BLOCK
public static final CsaError BAD_AB1_BASE_CALL
public static final CsaError UNKNOWN_SCAN_START
public static final CsaError UNKNOWN_SCAN_STOP
public static final CsaError UNKNOWN_REASON
Method Detail |
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public java.lang.String toString()
toString
in class java.lang.Object
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