X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwebServices%2Findex.html;h=d0b497c611ecf9f5655a0a52aec40481f07ce404;hb=8fb1345b723e9104cab28c80b352a882e502b1ed;hp=5d4025a6eb28e16b0ad3e0adba8b60c73b215941;hpb=3396e9f33cf3a16a7f38f5163cd057df4b859e7e;p=jalview.git
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-
-Web Services
-
-Web services
-Originally Jalview used SRS server to retrieve sequence features for a given
- alignment. In addition certain remote alignment programs could be called from
- the Jalview interface and the results displayed in a new alignment panel.
-The main emphasis of the current development of the Jalview Project is to implement
- various sequence alignment programs, tree analysis, PCA algorithms on a large
- cluster based witihin the Barton Group. Jalview will be able to call these remote
- procedures without the user having to install any new software.
- The main advantage of using these remote web services is that the computing
- power available is much greater than that of the users work station.
-
-
+
+
+
+Web Services
+
+
+
+ Web services
+
+
+ Jalview includes clients for a variety of web services for both
+ bioinformatic data retrieval and analysis.
+
+ - The Sequence
+ Fetcher utilises web services for sequence, alignment and
+ structure retrieval provided by the European Bioinformatics
+ Institute (EBI) and Distributed Annotation System servers that are
+ capable of serving sequences.
+
+ - The DAS Feature
+ Fetcher enables the retrieval and visualization of features from
+ DAS annotation sources
+
+ - The Database Reference
+ Fetcher transfers database references from records available
+ from DAS or the public sequence databases.
+
+ - The Web Services menu in each alignment
+ window also provides access to the following:
+
+
+ Web Service Dialog Box
+
+ This dialog box is displayed when a web service job is
+ submitted. It gives the name of the service and any method
+ citation information, and monitors the progress of the
+ calculation. The cancel button will permanently cancel the job,
+ but this is only possible for some services.
The Web Services Preference
+ panel controls the display and appearance of the submission and
+ analysis services in the Web Services menu.
+
+ - If Jalview encounters problems accessing any services, it
+ may display a warning
+ dialog box (this can be turned off using the web services
+ preferences tab).
+
+
+
+
+ More about Jalview's Web Services
+ Jalview's distributed computations utilise SOAP and REST
+ web services exposing sequence alignment, analysis, and secondary
+ structure prediction programs. Originally, Jalview 2's services were
+ maintained by the Barton group at the University of Dundee, and ran
+ programs on the Life Sciences High-performance Computing Cluster.
+ With the advent of JABAWS,
+ however, it is possible for anyone to host Jalview web services.
+
+
+