X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=TODO.txt;h=1c907cff06397c38ace588f0b5f63f97e0584dc6;hb=48f0451143441afce738d887b0cde1fb5cdbc02e;hp=e08270c43d081b7cd08fb2500d9ab9a36c80a3ef;hpb=d5491e105fa2b74fed3e0b652278acc1894a15f8;p=jabaws.git

diff --git a/TODO.txt b/TODO.txt
index e08270c..1c907cf 100644
--- a/TODO.txt
+++ b/TODO.txt
@@ -1,4 +1,40 @@
+TODO write some help on the executable.properties within this file! 
+check that after binaries relocation build tasks point to correct locations!
+GET rid of binaries/help directory!
+update binaries
+ + muscle binary version 3.8.31 for win/lin32/lin64 and sources, docs in website/prog_docs
+ - test Muscle on the cluster
+ - test Muscle compilation
+ + probcons up-to-date
+ + clustal up-to-date 
+ - update tcoffee (8.99 latest)
+ - update Mafft (6.857 latest)
++ make sure conf files are optional!
+
 TODO: 
+Registry 1 week
+webservices - 1 week
+client - 1 week
+docs - 1 week
+
+Cluster stats: 
+ +cancelled should not be reported as incomplete!
+ -Remove hyperlinks from tasks which workdirs were removed 
+ -graph generation 
+ -user documentation (do not forget how to enable follow symlinks!)
+ -use the same name for output for different executables
+ +ant task to clean up clean stat db task before packing web app
+ +pack web apps with stat db (NOT TESTED!)
+ +change input size bites
+ +add help info for each column in the detailed job list table
+ +replace default -1 with ? 
+ +delete and re-import the database to fix clustal input staff    
+
+add to help text: To disable a web service remove it from WEB-INF/sun-jaxws.xml descriptor
+
+add to help: VirtualBox 4.0.4 works fine with JABAWS update links 
+
+rename jaba.war to jabaws.war and make sure jabaws context path is used throughout. 
 
 Current stat collector has to rely on file dates! 
 
@@ -26,12 +62,10 @@ Check the WS input and reject it on submission rather then of access with error
 Globprot need a proper reference to bio python and sav_gol binaries -> they should be 
 somehow taken from disembl. 
 
-Add registry service to query services status
-
-Refactor web services checker to enable a programmatic access to its methods.
-Rename it to avoid confusion with jabaws client
++Add registry service to query services status
 
-Finish the client
++Refactor web services checker to enable a programmatic access to its methods.
++Finish the client
 
 Add interface for Jalview annotation 
 Add the method to return Jalview Annotation to SequenceAnnotation IF