X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=website%2Ffull_javadoc%2Fcompbio%2Fmetadata%2Fpackage-use.html;h=41fa6d9927d55f42c2ffe350e36a3d188d95cdf9;hb=f1bdd8da517901fe1d7957d388ea579ad1fbaa3b;hp=25708de9617a8ed8b95f365debfd8566feb23387;hpb=535359a3d592ee41bda72e7356f0181f6cee9d07;p=jabaws.git diff --git a/website/full_javadoc/compbio/metadata/package-use.html b/website/full_javadoc/compbio/metadata/package-use.html index 25708de..41fa6d9 100644 --- a/website/full_javadoc/compbio/metadata/package-use.html +++ b/website/full_javadoc/compbio/metadata/package-use.html @@ -2,12 +2,12 @@ - + Uses of Package compbio.metadata - + @@ -91,7 +91,7 @@ Packages that use compbio. compbio.data.msa -   +Web Service interfaces for JAva Bioinformatics Analysis Web Services.  compbio.data.msa.jaxws @@ -103,16 +103,15 @@ Packages that use compbio. compbio.engine.client -Classes and interfaces representing an input for engines.  +   compbio.engine.cluster.drmaa -An cluster engine classes responsible for execution of Executables on the clusters.  +   compbio.engine.local -An local engine classes responsible for execution of Executables on the local computer - (the same machine as JVM running these classes).  +   compbio.metadata @@ -128,14 +127,18 @@ Packages that use compbio.    -compbio.runner.msa -Wrappers for native executables for multiple sequence alignment (msa)  +compbio.runner.conservation +   -compbio.runner.psiblast +compbio.runner.disorder    +compbio.runner.msa +Wrappers for native executables for multiple sequence alignment (msa)  + + compbio.ws.server    @@ -152,8 +155,8 @@ Classes in compbio.metadat ChunkHolder
-          Represents a chunk of string data together with the position in a file from - where corresponding to of the data. +          Represents a chunk of a string data together with the position in a file for + the next read operation. JobStatus @@ -179,8 +182,8 @@ Classes in compbio.metadat LimitExceededException
-          Thrown if the task larger in size that the limit that applies to the - calculation. +          This exception is thrown if the task larger in size that the limit that + applies to the calculation. LimitsManager @@ -246,8 +249,8 @@ Classes in compbio.metadat ChunkHolder
-          Represents a chunk of string data together with the position in a file from - where corresponding to of the data. +          Represents a chunk of a string data together with the position in a file for + the next read operation. JobStatus @@ -305,8 +308,8 @@ Classes in compbio.metadat ChunkHolder
-          Represents a chunk of string data together with the position in a file from - where corresponding to of the data. +          Represents a chunk of a string data together with the position in a file for + the next read operation. JobExecutionException @@ -513,8 +516,8 @@ Classes in compbio.metadat LimitExceededException
-          Thrown if the task larger in size that the limit that applies to the - calculation. +          This exception is thrown if the task larger in size that the limit that + applies to the calculation. Option @@ -526,7 +529,7 @@ Classes in compbio.metadat Parameter
-          A single value containing option supported by the web service e.g. +          A single value containing an option supported by the web service e.g. Preset @@ -576,6 +579,13 @@ Classes in compbio.metadat Classes in compbio.metadata used by compbio.runner +JobSubmissionException + +
+          Exception for generic problems with JobSubmission it is often thrown as a + wrapper for the lower level exceptions like IOException or DrmaaException. + + Limit
@@ -598,7 +608,7 @@ Classes in compbio.metadat Parameter
-          A single value containing option supported by the web service e.g. +          A single value containing an option supported by the web service e.g. PresetManager @@ -637,27 +647,14 @@ Classes in compbio.metadat  

- + +Classes in compbio.metadata used by compbio.runner.conservation - - - - - - -
-Classes in compbio.metadata used by compbio.runner.msa
Limit - -
-          A value object containing a maximum number of sequences and a maximum average - sequence length for a preset.
LimitsManager - -
-          A collection of Limits
ResultNotAvailableException +ResultNotAvailableException
          ResultNotAvailableException is thrown wherever the results of the calculation @@ -666,27 +663,30 @@ Classes in compbio.metadat
 

- + +Classes in compbio.metadata used by compbio.runner.disorder - +          ResultNotAvailableException is thrown wherever the results of the calculation + cannot be obtained. - - +
-Classes in compbio.metadata used by compbio.runner.psiblast
Limit +ResultNotAvailableException
-          A value object containing a maximum number of sequences and a maximum average - sequence length for a preset.
LimitsManager - -
-          A collection of Limits
+  +

+ + + + - +          Represents a chunk of a string data together with the position in a file for + the next read operation. +          This exception is thrown if the task larger in size that the limit that + applies to the calculation. + + +
+Classes in compbio.metadata used by compbio.runner.msa
ResultNotAvailableException +ResultNotAvailableException
          ResultNotAvailableException is thrown wherever the results of the calculation @@ -705,8 +705,8 @@ Classes in compbio.metadat 		ChunkHolder
-          Represents a chunk of string data together with the position in a file from - where corresponding to of the data.
JobStatus @@ -732,8 +732,8 @@ Classes in compbio.metadat LimitExceededException
-          Thrown if the task larger in size that the limit that applies to the - calculation.
LimitsManager @@ -773,6 +773,12 @@ Classes in compbio.metadat           The list of Parameters and Options supported by executable.
UnsupportedRuntimeException + +
+          Indicates that the server could not execute native executables.
WrongParameterException