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RuleWorld
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rulebender
Rule-Based Modeling and Simulation Gui
http://bionetgen.org
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RuleBender Installer
#171
jjtapia
closed
8 years ago
1
BNGL parser needs to be updated with PLA options
#170
jjtapia
closed
8 years ago
2
Documentation for MOSBIE
#169
jjtapia
opened
9 years ago
0
New-> <x> should allow for a BNGL basic template option
#168
jjtapia
closed
9 years ago
1
An idea for eliminating unwanted rendering effects.
#167
rhclark
closed
6 years ago
2
Copy/Paste in the RuleBender Navigator is awkward and inconsistent.
#166
rhclark
opened
9 years ago
0
Block commenting in the BNGL editor. Can this feature be added ?
#165
rhclark
closed
9 years ago
1
Small multiples view doesn't offer the option to remove syn/deg/transformation petri net nodes
#164
jjtapia
closed
9 years ago
2
Change the parser code, so that it gets invoked reasonably frequently.
#163
rhclark
opened
9 years ago
0
The console should clear itself at appropriate times, so that old error messages don't collect there.
#162
rhclark
opened
9 years ago
0
The sqiggly lines of the BNGParser remain, even when the spelling is corrected.
#161
rhclark
closed
9 years ago
5
Update RB-README.txt, LICENSE.txt and CREDITS.txt
#160
rhclark
closed
8 years ago
2
Create a headless build process.
#159
rhclark
opened
9 years ago
0
Automate the process of upgrading BioNetGen on a user's system.
#158
rhclark
opened
9 years ago
0
Mosbie needs to be tested.
#157
rhclark
opened
9 years ago
1
Parser lists only one mispelled keyword.
#156
rhclark
closed
9 years ago
3
CMap incorrect for bidirectional synthesis and degradation reaction.
#155
jrfaeder
closed
8 years ago
0
Plots fail if times are negative
#154
GoogleCodeExporter
opened
9 years ago
0
Default setting of simulator path
#153
GoogleCodeExporter
closed
6 years ago
3
In models with multiple syntax errors, often only the first one is highlighted
#152
GoogleCodeExporter
closed
9 years ago
1
Console tab appears when Editor window is maximized
#151
GoogleCodeExporter
opened
9 years ago
0
Optional CMap elements return to default upon save
#150
GoogleCodeExporter
opened
9 years ago
1
.bngl as default file extension for new model file
#149
GoogleCodeExporter
opened
9 years ago
0
Link between editor window and CMap appears to have been lost
#148
GoogleCodeExporter
closed
9 years ago
4
Spurious synth/deg nodes in CMap tied to leading rule label
#147
GoogleCodeExporter
closed
9 years ago
1
Problems importing models in subdirectories (Mac only)
#146
GoogleCodeExporter
opened
9 years ago
4
Can't view species unless CDAT or GDAT file exists
#145
GoogleCodeExporter
opened
9 years ago
0
Alternate distributions and user/download tracking
#144
GoogleCodeExporter
closed
8 years ago
1
Mouseover highlighting works for edges in species graph but not for contact map
#143
GoogleCodeExporter
opened
9 years ago
0
Text Selection from contact map linking is hard to see
#142
GoogleCodeExporter
opened
9 years ago
0
If contact map view is not showing when a bngl file is opened, the contact map is not generated
#141
GoogleCodeExporter
closed
9 years ago
1
Last line of model file doesn't grey if commented out
#140
GoogleCodeExporter
closed
9 years ago
1
Default loading of "Species Graph" viewer
#139
GoogleCodeExporter
opened
9 years ago
1
Request for block comment/uncomment feature in the editor
#138
GoogleCodeExporter
opened
9 years ago
1
Option to turn off Petri nets in CMap
#137
GoogleCodeExporter
closed
9 years ago
3
MatchOnce attribute being interpreted as part of the molecule name in Species Graph viewer
#136
GoogleCodeExporter
opened
9 years ago
1
BNGL file not being copied over to results folder
#135
GoogleCodeExporter
closed
9 years ago
1
XML reader for RB
#134
GoogleCodeExporter
opened
9 years ago
0
Molecules without closing parentheses colored differently from those with parentheses
#133
GoogleCodeExporter
opened
9 years ago
1
RuleBender does not appear to be using the BNGParser for NET files
#132
GoogleCodeExporter
opened
9 years ago
2
Parameter scan does not run correctly if last line of file is a command.
#131
GoogleCodeExporter
closed
9 years ago
3
cdat files without headers do not display in results viewer
#130
GoogleCodeExporter
opened
9 years ago
0
Position files should be hidden in the file navigator
#129
GoogleCodeExporter
opened
9 years ago
1
RB is concatenating two absolute paths when trying to write to results.
#128
GoogleCodeExporter
closed
9 years ago
2
CMap not displaying all edges for model
#127
GoogleCodeExporter
closed
9 years ago
5
Make synthesis relationship molecule nodes invisible
#126
GoogleCodeExporter
opened
9 years ago
0
ND: ContactMap render size is not updated properly when view is maxed
#125
GoogleCodeExporter
opened
9 years ago
1
Windows 7 Update may have broken execution of Windows release.
#124
GoogleCodeExporter
closed
6 years ago
0
Problems with GDAT files not opening automatically
#123
GoogleCodeExporter
closed
9 years ago
2
Problems displaying Observable patterns in Species Graph window
#122
GoogleCodeExporter
opened
9 years ago
1
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