amwaterhouse [Wed, 16 Nov 2005 16:40:40 +0000 (16:40 +0000)]
no need for myAtom
amwaterhouse [Wed, 16 Nov 2005 16:40:02 +0000 (16:40 +0000)]
Parsing updates
amwaterhouse [Wed, 16 Nov 2005 16:39:08 +0000 (16:39 +0000)]
Not used
amwaterhouse [Tue, 15 Nov 2005 11:13:36 +0000 (11:13 +0000)]
Keep all public methods
amwaterhouse [Tue, 15 Nov 2005 11:13:10 +0000 (11:13 +0000)]
No radio buttons in applet
amwaterhouse [Tue, 15 Nov 2005 11:11:49 +0000 (11:11 +0000)]
Dont use this yet
amwaterhouse [Tue, 15 Nov 2005 11:10:56 +0000 (11:10 +0000)]
Dont use myGraphics
amwaterhouse [Tue, 15 Nov 2005 11:10:38 +0000 (11:10 +0000)]
Removed
amwaterhouse [Tue, 15 Nov 2005 11:09:58 +0000 (11:09 +0000)]
Graphical bits moved into files to save jar size
amwaterhouse [Tue, 15 Nov 2005 11:08:17 +0000 (11:08 +0000)]
Removed to reduce jar size
amwaterhouse [Mon, 14 Nov 2005 18:36:10 +0000 (18:36 +0000)]
Modifications for Applet PDB viewer
amwaterhouse [Mon, 14 Nov 2005 18:35:52 +0000 (18:35 +0000)]
Add getAlignment function
amwaterhouse [Mon, 14 Nov 2005 18:35:31 +0000 (18:35 +0000)]
Modifications for Applet PDB
amwaterhouse [Mon, 14 Nov 2005 18:35:14 +0000 (18:35 +0000)]
Fix bug where all chains are called A
amwaterhouse [Mon, 14 Nov 2005 18:21:17 +0000 (18:21 +0000)]
Applet PDB viewer
amwaterhouse [Mon, 14 Nov 2005 12:00:25 +0000 (12:00 +0000)]
Catch exceptions
amwaterhouse [Mon, 14 Nov 2005 12:00:03 +0000 (12:00 +0000)]
Use shortname
amwaterhouse [Mon, 14 Nov 2005 11:59:34 +0000 (11:59 +0000)]
getShortName
amwaterhouse [Mon, 14 Nov 2005 11:59:13 +0000 (11:59 +0000)]
findByShortName
amwaterhouse [Mon, 14 Nov 2005 11:58:49 +0000 (11:58 +0000)]
Dont add sequence group at the moment
amwaterhouse [Fri, 11 Nov 2005 18:20:06 +0000 (18:20 +0000)]
No new PDBViewer
amwaterhouse [Fri, 11 Nov 2005 18:19:30 +0000 (18:19 +0000)]
Last chance, is the sequence without id?
amwaterhouse [Fri, 11 Nov 2005 18:19:05 +0000 (18:19 +0000)]
SequenceFetcher new class
amwaterhouse [Fri, 11 Nov 2005 18:17:49 +0000 (18:17 +0000)]
AddPdbEntry added
amwaterhouse [Fri, 11 Nov 2005 18:17:29 +0000 (18:17 +0000)]
PNG and EPS in ImageMaker
amwaterhouse [Thu, 10 Nov 2005 17:53:44 +0000 (17:53 +0000)]
Allow featuresettings to be enabled on load
amwaterhouse [Thu, 10 Nov 2005 17:53:14 +0000 (17:53 +0000)]
Add mousewheel listener
amwaterhouse [Thu, 10 Nov 2005 14:20:57 +0000 (14:20 +0000)]
REmove system.out
amwaterhouse [Thu, 10 Nov 2005 14:20:37 +0000 (14:20 +0000)]
AlignSeq takes printstream as arg
amwaterhouse [Thu, 10 Nov 2005 14:19:48 +0000 (14:19 +0000)]
Add mapping details to stringbuffer
amwaterhouse [Thu, 10 Nov 2005 11:08:31 +0000 (11:08 +0000)]
OnlyAddPDBEntries
amwaterhouse [Thu, 10 Nov 2005 11:08:01 +0000 (11:08 +0000)]
Set PDBViewer
amwaterhouse [Thu, 10 Nov 2005 11:05:50 +0000 (11:05 +0000)]
Use Antialiasing
amwaterhouse [Thu, 10 Nov 2005 11:05:24 +0000 (11:05 +0000)]
PDB implementation updated
amwaterhouse [Thu, 10 Nov 2005 11:05:04 +0000 (11:05 +0000)]
If selectionGroup is null, return
amwaterhouse [Thu, 10 Nov 2005 11:04:37 +0000 (11:04 +0000)]
Return accurate RGB for transparent residues
amwaterhouse [Thu, 10 Nov 2005 11:03:59 +0000 (11:03 +0000)]
Make cancelled public variable
amwaterhouse [Thu, 10 Nov 2005 11:03:27 +0000 (11:03 +0000)]
getDbRef
amwaterhouse [Thu, 10 Nov 2005 11:02:26 +0000 (11:02 +0000)]
Get and set PDBEntrys
amwaterhouse [Thu, 10 Nov 2005 11:01:51 +0000 (11:01 +0000)]
PDB is now PDBEntry
amwaterhouse [Thu, 10 Nov 2005 11:01:23 +0000 (11:01 +0000)]
Use StringBUffer instead of String
amwaterhouse [Thu, 10 Nov 2005 11:00:35 +0000 (11:00 +0000)]
Colour PDB by sequence
amwaterhouse [Thu, 10 Nov 2005 11:00:08 +0000 (11:00 +0000)]
PDM mapping
amwaterhouse [Thu, 10 Nov 2005 10:59:25 +0000 (10:59 +0000)]
Rot Canvas replaced with PDBViewer
amwaterhouse [Thu, 10 Nov 2005 10:58:28 +0000 (10:58 +0000)]
Mapping to PDB added
amwaterhouse [Tue, 8 Nov 2005 11:39:39 +0000 (11:39 +0000)]
jalview mapping
amwaterhouse [Tue, 8 Nov 2005 11:39:18 +0000 (11:39 +0000)]
Preliminary storeJalview
amwaterhouse [Tue, 8 Nov 2005 11:37:27 +0000 (11:37 +0000)]
getVersion added for Castor mapping
amwaterhouse [Fri, 4 Nov 2005 10:56:54 +0000 (10:56 +0000)]
Id parsing moved to Sequence
amwaterhouse [Fri, 4 Nov 2005 10:56:23 +0000 (10:56 +0000)]
REmove system.out
amwaterhouse [Fri, 4 Nov 2005 10:55:55 +0000 (10:55 +0000)]
Show full id
amwaterhouse [Fri, 4 Nov 2005 10:55:28 +0000 (10:55 +0000)]
Display full id in trees
amwaterhouse [Fri, 4 Nov 2005 10:54:58 +0000 (10:54 +0000)]
Use visible id for sorting
amwaterhouse [Wed, 2 Nov 2005 18:08:14 +0000 (18:08 +0000)]
Load and save Feature Colour Settings
amwaterhouse [Wed, 2 Nov 2005 16:56:37 +0000 (16:56 +0000)]
Java 1.5 bug note
amwaterhouse [Wed, 2 Nov 2005 16:07:05 +0000 (16:07 +0000)]
Allow residue prefix to dataset
amwaterhouse [Wed, 2 Nov 2005 16:06:39 +0000 (16:06 +0000)]
Only add first Id to suggestedIds
amwaterhouse [Wed, 2 Nov 2005 16:06:05 +0000 (16:06 +0000)]
Add jvsuffix and dbref to menu
amwaterhouse [Wed, 2 Nov 2005 16:05:44 +0000 (16:05 +0000)]
2CdbPrefix true by default
amwaterhouse [Wed, 2 Nov 2005 16:05:11 +0000 (16:05 +0000)]
Output jvsuffix, dbref
amwaterhouse [Tue, 1 Nov 2005 17:09:15 +0000 (17:09 +0000)]
Inform user about visual alignment, not dataset updates
amwaterhouse [Tue, 1 Nov 2005 17:08:36 +0000 (17:08 +0000)]
Wrap long description in table
jprocter [Tue, 1 Nov 2005 16:02:04 +0000 (16:02 +0000)]
dataset reference propagated to new MsaWS alignment.
jprocter [Tue, 1 Nov 2005 16:01:03 +0000 (16:01 +0000)]
stores reference to dataset sequence if present
amwaterhouse [Tue, 1 Nov 2005 15:35:39 +0000 (15:35 +0000)]
Label changes
amwaterhouse [Tue, 1 Nov 2005 15:35:22 +0000 (15:35 +0000)]
Show JVSuffix
amwaterhouse [Tue, 1 Nov 2005 15:34:35 +0000 (15:34 +0000)]
disulfide bond exceptions
jprocter [Tue, 1 Nov 2005 15:21:20 +0000 (15:21 +0000)]
trivial change ("" to new String() in static method)
amwaterhouse [Tue, 1 Nov 2005 11:35:19 +0000 (11:35 +0000)]
New schema, new objects
amwaterhouse [Tue, 1 Nov 2005 11:32:35 +0000 (11:32 +0000)]
Adjust seq limits for visual and dataset sequences
amwaterhouse [Mon, 31 Oct 2005 15:57:24 +0000 (15:57 +0000)]
dbPrefix and jvsuffix added
amwaterhouse [Mon, 31 Oct 2005 15:56:43 +0000 (15:56 +0000)]
getDisplayId changed
amwaterhouse [Mon, 31 Oct 2005 15:56:21 +0000 (15:56 +0000)]
jalviewClipboard added
amwaterhouse [Mon, 31 Oct 2005 15:56:03 +0000 (15:56 +0000)]
Display only selected features
amwaterhouse [Mon, 31 Oct 2005 15:55:28 +0000 (15:55 +0000)]
DBPrefix and JVSuffix added
amwaterhouse [Mon, 31 Oct 2005 15:55:03 +0000 (15:55 +0000)]
FeatureRenderer doenst use groups
amwaterhouse [Mon, 31 Oct 2005 15:54:29 +0000 (15:54 +0000)]
Sequence.getDatasetSequence().getFeatures
amwaterhouse [Mon, 31 Oct 2005 15:54:00 +0000 (15:54 +0000)]
Use fontmetrics to tidy up display
amwaterhouse [Mon, 31 Oct 2005 15:53:31 +0000 (15:53 +0000)]
Prompt before blasting
amwaterhouse [Mon, 31 Oct 2005 15:53:08 +0000 (15:53 +0000)]
equalsIgnoreCase CLUSTAL
amwaterhouse [Mon, 31 Oct 2005 15:52:49 +0000 (15:52 +0000)]
Catch numberformatexceptions
amwaterhouse [Mon, 31 Oct 2005 15:52:23 +0000 (15:52 +0000)]
Accession and name unbounded
amwaterhouse [Mon, 31 Oct 2005 15:52:04 +0000 (15:52 +0000)]
DisplayId can be dbref and or jvsuffix
amwaterhouse [Mon, 31 Oct 2005 15:51:11 +0000 (15:51 +0000)]
Find by displayid not used
amwaterhouse [Mon, 31 Oct 2005 15:48:42 +0000 (15:48 +0000)]
name and accession are unbounded
jprocter [Thu, 27 Oct 2005 17:04:27 +0000 (17:04 +0000)]
fixed exception thrown when msa web service is applied to alignment with sequence features.
amwaterhouse [Thu, 27 Oct 2005 14:43:40 +0000 (14:43 +0000)]
Castor generated
amwaterhouse [Thu, 27 Oct 2005 11:19:46 +0000 (11:19 +0000)]
Disable featuresettings
amwaterhouse [Thu, 27 Oct 2005 11:19:27 +0000 (11:19 +0000)]
Moved vector features
amwaterhouse [Thu, 27 Oct 2005 11:19:10 +0000 (11:19 +0000)]
Allow old style groups file
amwaterhouse [Thu, 27 Oct 2005 11:13:58 +0000 (11:13 +0000)]
Remove system.out
amwaterhouse [Thu, 27 Oct 2005 11:13:42 +0000 (11:13 +0000)]
Remove static refs to applet
amwaterhouse [Thu, 27 Oct 2005 11:12:06 +0000 (11:12 +0000)]
MyGraphics added to enhance applet GUI
amwaterhouse [Wed, 26 Oct 2005 16:23:18 +0000 (16:23 +0000)]
Groups file is now feature file
amwaterhouse [Wed, 26 Oct 2005 16:22:50 +0000 (16:22 +0000)]
Parsing updates
amwaterhouse [Wed, 26 Oct 2005 14:31:45 +0000 (14:31 +0000)]
vamsasDemo new branch
amwaterhouse [Wed, 26 Oct 2005 14:22:55 +0000 (14:22 +0000)]
Used for sequence feature mapping
amwaterhouse [Fri, 7 Oct 2005 10:24:56 +0000 (10:24 +0000)]
comma separated rgb values
amwaterhouse [Fri, 7 Oct 2005 10:24:23 +0000 (10:24 +0000)]
getalignment method added
amwaterhouse [Fri, 7 Oct 2005 10:23:28 +0000 (10:23 +0000)]
Quick fix for reading sequence
git://source.jalview.org / jalview.git / log