X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwebServices%2FJABAWS.html;h=84b2b860799afc4d6de4b846e91ff7f9f922f949;hb=136c0793b90b72b928c4d77dc109dd5c644e00d3;hp=867299a084526f3e131a8cdf8a52cc8954ad3ca0;hpb=0696cffbccbb537be78d9fc2410589adbcd7be35;p=jalview.git
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+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see
The JAva Bioinformatics
-Analysis Web Services
-system (JABAWS)
-Jalview includes a client for interacting with programmatic (SOAP) web
-services for the JABAWS
-service model, developed at the University of Dundee by Peter Troshin
-and Geoff Barton. This is an open source system that provides a
-framework for wrapping command line bioinformatics analysis programs
-that enables them to be executed locally or on a cluster using data and
-analysis parameters provided by a program linked with the JABA engine directly or
-accessing it remotely via its web services interface.
The list of JABAWS servers known to the Jalview desktop is shown -in the Web Services Preferences -Panel, and detailed information about a particular service is available -from the help text and web pages accessible from its job parameters dialog box.
-Obtaining JABAWS
-One of the aims of JABAWS is to enable you to easily perform
-computationally intensive bioinformatics analysis tasks using your own
-computational facilities. It can be installed on a workstation to
-provide stand-alone execution of analysis programs, or as a job
-submission engine - enabling larger numbers of jobs to be handled. If
-you would like to download and install JABAWS for your own use, please
-go to http://www.compbio.dundee.ac.uk/jabaws
-for more information.
Configuring your own JABAWS services for use by
-Jalview
-Once you have downloaded and installed JABAWS, and verified it is
-working, all that is needed is to add the URL for your JABAWS server(s) to
-the list in the Web Services
-Preferences Panel. After adding your service and saving your preferences
-or hitting the 'refresh web services' button, you should be able to
-submit jobs to the server via the alignment window's web services menu.
-Your JABAWS servers list is stored in your Jalview preferences, so you
-will only have to configure Jalview once for each new server.
Support for accessing JABAWS servers was introduced in -Jalview 2.6.
+
+ The JAva Bioinformatics
+ Analysis Web Services
+ system (JABAWS)
Jalview
+ includes a client for interacting with programmatic (SOAP) web
+ services provided by the JABAWS
+ system, developed at the University of Dundee by Peter
+ Troshin, Sasha Sherstnev, Dan Barton, Fabio Madeira-Marquez, Jim Procter and Geoff Barton.
+ This is an open source system that provides a framework for wrapping command line bioinformatics
+ analysis programs that enables them to be executed locally or on a
+ cluster using data and analysis parameters provided by a program
+ linked with the JABA engine directly or accessing it remotely via
+ its web services interface.
+
+ The list of JABAWS servers known to the Jalview desktop is shown in + the Web Services Preferences + Panel, and detailed information about a particular service is + available from the help text and web pages accessible from its job parameters dialog box. +
+
+ Obtaining JABAWS
One of the aims of JABAWS
+ is to enable you to easily perform computationally intensive
+ bioinformatics analysis tasks using your own computational
+ facilities. It can be installed on a workstation to provide
+ stand-alone execution of analysis programs, or as a job submission
+ engine - enabling larger numbers of jobs to be handled. If you would
+ like to download and install JABAWS for your own use, please go to http://www.compbio.dundee.ac.uk/jabaws
+ for more information.
+
+ Configuring your own JABAWS services for use by
+ Jalview
Once you have downloaded and installed JABAWS,
+ and verified it is working, all that is needed is to add the URL for
+ your JABAWS server(s) to the list in the Web Services Preferences
+ Panel. After adding your service and saving your preferences or
+ hitting the 'refresh web services' button, you should be able to
+ submit jobs to the server via the alignment window's web services
+ menu. Your JABAWS servers list is stored in your Jalview
+ preferences, so you will only have to configure Jalview once for
+ each new server.
+
+ JABAWS Client updated to version 2.2 in Jalview 2.10.2 +
++ Option for adding JABAWS servers which fails validation was + introduced from version 2.8.2 +
++ Support for accessing JABAWS servers was introduced in + Jalview 2.6. +