From 44e37f8a1eda96a872538f050a71094e9c205fb6 Mon Sep 17 00:00:00 2001 From: =?utf8?q?F=C3=A1bio=20Madeira?= Date: Mon, 6 Mar 2017 13:55:34 +0000 Subject: [PATCH] JWS-109 Updated the home page. Made some changes to the text to improve readability. --- website/index.jsp | 150 ++++++++++++++++++++++++++++++----------------------- 1 file changed, 85 insertions(+), 65 deletions(-) diff --git a/website/index.jsp b/website/index.jsp index 0aee088..0db7a64 100644 --- a/website/index.jsp +++ b/website/index.jsp @@ -20,9 +20,9 @@

- JABAWS - is free software which provides web services conveniently - packaged to run on your local computer, server or cluster. + + JAva Bioinformatics Analysis Web Services (JABAWS) + is free software which provides web services conveniently packaged to run on your local computer, server or cluster.

Services for multiple sequence alignment include @@ -34,7 +34,7 @@ ProbCons, MSAProbs, and GLProbs. - Analysis services allow prediction of the protein disorder with + Analysis services allow prediction of protein disorder with DisEMBL, IUPred, Jronn (a Java implementation of Ronn by P. Troshin and G. Barton, unpublished), and @@ -44,12 +44,14 @@ Vienna RNA package.

- - JABAWS 2.2 installation can be accessed from the Jalview desktop - application (version 2.8 onwards) and the JABAWS command-line client. - JABAWS is able to provide multiple alignment and sequence analysis calculations limited only by your own - computing resources.
- + JABAWS web-services can be accessed through the Jalview desktop + graphical user interface (GUI) (version 2.8 onwards) or the command line interface (CLI) client. + In this way you can perform computations on your sequences using the publicly available servers + running at the University of Dundee. Alternatively, JABAWS installation allows you to perform analysis + limited only by your own computing resources, by running it in your local computer, server or cluster. +

+

+

@@ -59,60 +61,76 @@
-

For Users

+

  For Users

- The Server: JABAWS Virtual Appliance: (440M) - or JABAWS on Amazon Webservices Cloud
- The Main Client: Jalview (18M) + Server: Public JABAWS server or + the JABAWS Virtual Appliance (VA)

-

- To use JABAWS web services on most operating systems, just download and install - the JABAWS Virtual Appliance (VA). Or even easier - just start JABAWS machine on the cloud and point Jalview at it! +

+ Client: Jalview

+
+ <%--

--%> + <%--To use JABAWS web services on most operating systems, just download and install--%> + <%--the JABAWS Virtual Appliance (VA). Or even easier - just start JABAWS machine on the cloud and point Jalview at it!--%> + <%--

--%> +

Getting Started »

-

For System Administrators

+

  For Bioinformaticians/Developers

-

- The Server: JABAWS Web - Application aRchive (55M) +

+ Server: Public JABAWS server, + the JABAWS Virtual Appliance (VA) or the + JABAWS Web Application aRchive (WAR)

-

- JABAWS requires a Servlet 2.4 compatible servlet container like Apache Tomcat - to run. Please check the quick start guide for installation instructions. +

+ Client: Jalview or the + Command Line Interface (CLI) Client

+
+ <%--

--%> + <%--You can either use the JABAWS Virtual Appliance or the JABAWS Web Application aRchive (WAR) from your own computer or a lab server.--%> + <%--The WAR version gives greater flexibility but requires a bit more configuration. Alternatively you can script against our public--%> + <%--server (see below) with the command line client or you own script.--%> + <%--Check out the quick start guide for further details.--%> + <%--

--%> +

Getting Started »

-

For Bioinformaticians/Developers

+

  For System Administrators

- The Server: JABAWS Web Application aRchive (55M) -
- The Client: - Command Line Client binary | - source -

- You can either use the JABAWS Virtual Appliance or the JABAWS Web Application aRchive (WAR) from your own computer or a lab server. - The WAR version gives greater flexibility but requires a bit more configuration. Alternatively you can script against our public - server (see below) with the command line client or you own script. - Check out the quick start guide for further details. +

+ Server: + JABAWS Web Application aRchive (WAR) +

+

+ Client: + Command Line Interface (CLI) Client

+
+ <%--

--%> + <%--JABAWS requires a Servlet 2.4 compatible servlet container like Apache Tomcat--%> + <%--to run. Please check the quick start guide for installation instructions.--%> + <%--

--%> +

Getting Started »

-
+
@@ -121,48 +139,50 @@

- You can access our public JABAWS web services with our - command line client, - Jalview, - or with your own program. Jalview version 2.8 or later is fully compatible with JABAWS 2.1. - The latest versions of Jalview are configured to use public JABAWS server by default.

+ You can access our public JABAWS web services with the + command line client, + Jalview, + or with your own program. The latest versions of Jalview (version 2.9 or later) are fully compatible + with JABAWS 2.2 and are configured to use the public JABAWS server by default. +

These web services accept submissions of less than one thousand sequences. Should you find this to be insufficient for your needs, or if you are concerned about privacy or on an unreliable network connection, then you can - download and + download and run the JABAWS Server on your own hardware.

-
-
-
-
-

Previous versions of JABAWS

-
-
-

- We advise you to update to JABAWS 2.1 as this version is fully backward compatible with JABAWS v1.0 and v2.0 and contains - some important bug fixes. Please consult the manual - for more information on compatibility between versions.

Should you require them, however, old versions of JABAWS are available here:

- -
-
-
-
+<%--
--%> + <%--
--%> + <%--
--%> + <%--
--%> + <%--

JABAWS version 2.2

--%> + <%--
--%> + <%--
--%> + <%--

--%> + <%--The current JABAWS version is 2.2.0 released on XX March 2017. We advise you to update to JABAWS 2.2 as this version is fully backward compatible with JABAWS v1.0, v2.0 and v2.1.--%> + <%--Please consult the documentation pages--%> + <%--for the changelog and more information on compatibility between versions.

--%> + <%--<%–

Should you require them, however, old versions of JABAWS are available here:

–%>--%> + <%--<%––%>--%> + <%--
--%> + <%--
--%> + <%--
--%> +<%--
--%>
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