1 #---JalviewX Properties File---
2 #Fri Apr 25 09:54:25 BST 2014
4 BACKUPFILES_ENABLED=true
6 BACKUPFILES_SAVED=_BACKUPFILESTESTTMP%n\t6\tfalse\tfalse\t2\tfalse
7 BACKUPFILES_CUSTOM=_BACKUPFILESTESTTMP%n\t6\tfalse\tfalse\t2\tfalse
10 SHOW_WSDISCOVERY_ERRORS=true
11 LATEST_VERSION=2.8.0b1
12 SHOW_CONSERVATION=true
13 JALVIEW_RSS_WINDOW_SCREEN_WIDTH=550
14 JAVA_CONSOLE_SCREEN_WIDTH=450
15 LAST_DIRECTORY=/Volumes/Data/Users/jimp/Documents/testing/Jalview/examples
17 SORT_ALIGNMENT=No sort
20 SEQUENCE_LINKS=EMBL-EBI Search|http\://www.ebi.ac.uk/ebisearch/search.ebi?db\=allebi&query\=$SEQUENCE_ID$
22 RECENT_URL=http\://www.jalview.org/examples/exampleFile_2_7.jar
27 SHOW_DBREFS_TOOLTIP=true
29 SCREENGEOMETRY_HEIGHT=1600
30 JAVA_CONSOLE_SCREEN_Y=475
31 JAVA_CONSOLE_SCREEN_X=830
34 STARTUP_FILE=http\://www.jalview.org/examples/exampleFile_2_3.jar
35 JAVA_CONSOLE_SCREEN_HEIGHT=162
40 SHOW_GROUP_CONSERVATION=false
41 SHOW_JWS2_SERVICES=true
42 SHOW_NPFEATS_TOOLTIP=true
46 RSBS_SERVICES=|Multi-Harmony|Analysis|Sequence Harmony and Multi-Relief (Brandt et al. 2010)|hseparable,gapCharacter\='-',returns\='ANNOTATION'|?tool\=jalview|http\://zeus.few.vu.nl/programs/shmrwww/index.php?tool\=jalview&groups\=$PARTITION\:min\='2',minsize\='2',sep\=' '$&ali_file\=$ALIGNMENT\:format\='FASTA',writeasfile$
47 AUTHORFNAMES=Jim Procter, Andrew Waterhouse, Jan Engelhardt, Lauren Lui, Michele Clamp, James Cuff, Steve Searle, David Martin & Geoff Barton
48 JALVIEW_RSS_WINDOW_SCREEN_HEIGHT=328
49 SHOW_GROUP_CONSENSUS=false
50 SHOW_CONSENSUS_HISTOGRAM=true
52 AUTHORS=J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
53 FIGURE_AUTOIDWIDTH=false
55 ANNOTATIONCOLOUR_MIN=ffc800
56 SHOW_STARTUP_FILE=false
57 RECENT_FILE=examples/uniref50.fa\t/Volumes/Data/Users/jimp/Documents/testing/Jalview/examples/RF00031_folded.stk\t/Volumes/Data/Users/jimp/bs_ig_mult.out
58 DEFAULT_FILE_FORMAT=FASTA
59 SHOW_JAVA_CONSOLE=false
65 JALVIEW_NEWS_RSS_LASTMODIFIED=Apr 23, 2014 2\:53\:26 PM
66 BUILD_DATE=01 November 2013
68 SHOW_CONSENSUS_LOGO=false
69 SCREENGEOMETRY_WIDTH=2560
71 JALVIEW_RSS_WINDOW_SCREEN_Y=0
73 JALVIEW_RSS_WINDOW_SCREEN_X=0
74 SHOW_UNCONSERVED=false
78 ANNOTATIONCOLOUR_MAX=ff0000
79 AUTO_CALC_CONSENSUS=true
81 DAS_ACTIVE_SOURCE=uniprot\t
82 JWS2HOSTURLS=http\://www.compbio.dundee.ac.uk/jabaws
85 SHOW_ENFIN_SERVICES=true
90 #DAS_REGISTRY_URL=http\://www.dasregistry.org/das/ # retired 01/05/2015
91 DAS_REGISTRY_URL=http\://www.ebi.ac.uk/das-srv/registry/das/
92 logs.Jalview.level=DEBUG