CompEvol beast2 issues - Githubissues

CompEvol / beast2

Bayesian Evolutionary Analysis by Sampling Trees

www.beast2.org

GNU Lesser General Public License v2.1

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issues

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BactrianRandomWalkOperator should use "windowSize"

#1169 walterxie opened 3 days ago
0
Indexing error thrown when running beagle on a substitution model with complex eigenvalues

#1168 jordandouglas closed 1 week ago
1
BEAST 2 version on bioconda lags behind a bit

#1167 m-d-grunnill opened 1 week ago
0
Package manager GUI hangs when 'Install/Upgrade' is done on package installed by hand

#1166 rbouckaert closed 3 weeks ago
0
BEAST 2.7.7 is not launched after update

#1165 trilisser closed 3 weeks ago
3
Adds CL packagemanager option to add repositories. Closes #1163

#1164 tgvaughan closed 1 month ago
0
No clean way to add external package repositories from the command line

#1163 tgvaughan closed 1 month ago
0
java.lang.NullPointerException: Cannot invoke "beast.base.evolution.tree.Node.isRoot()" because "<parameter1>" is null

#1162 liamxg opened 1 month ago
0
Add case to Tree.adjustTreeNodeHeights method to accommodate zero-length branches

#1161 jjmccollum opened 1 month ago
0
When is a node's nodeNr ever greater than the root's nodeNr?

#1160 jacklo225 opened 1 month ago
3
Resuming from a state file does not update parameter dimensiom

#1159 jordandouglas closed 1 month ago
1
Request a feature to use "version_file" in AppLauncher

#1158 walterxie closed 1 month ago
2
Class (orc.consoperators.UcldScalerOperator) could not be found

#1157 Chonghao98 closed 3 months ago
4
Generate xml file in linux command line

#1156 Chonghao98 closed 3 months ago
2
Remove jars when updating packages

#1155 rbouckaert opened 3 months ago
1
Treeannotator not going to 100%

#1154 asad-869 closed 3 months ago
1
Feature request: partial monophyly constraints

#1153 seraklop opened 4 months ago
6
Prep for v2.7.7 release

#1152 rbouckaert opened 4 months ago
0
no main manifest attribute on newer release

#1151 xk42 closed 4 months ago
0
Make Alignment a StateNode

#1150 rbouckaert opened 4 months ago
0
Hiccups with preparing package for testing

#1149 jacklo225 opened 5 months ago
1
Likelihood incorrectly calculated error

#1148 jkimsis opened 5 months ago
5
Resume problem for monophyletic

#1147 walterxie opened 6 months ago
5
.xml.state not found

#1146 kesiaeds opened 6 months ago
5
error in parsing xml with no prior manual editing

#1145 ptitle opened 6 months ago
2
BEAUti error importing alignment

#1144 dmsoong closed 6 months ago
1
TreeAnnotator does not respond to TargetTreeType in GUI

#1143 rbouckaert closed 6 months ago
0
Clarification about Trees and StateNodeInitialiser

#1142 jacklo225 closed 6 months ago
4
Randomizer per thread for deterministic behaviour when using threads

#1141 rbouckaert closed 3 months ago
1
BEAST.base installation

#1140 NRuizVargas opened 7 months ago
0
BEAST 2.7.6 not launching on Mac

#1139 kbhoehn opened 7 months ago
0
Add CCD package to list of recommended packages

#1138 rbouckaert opened 8 months ago
4
BEAST apps don't launch on Windows 10

#1137 ms609 closed 8 months ago
4
AdaptableOperatorSampler should ignore operators with zero weight

#1136 rbouckaert closed 9 months ago
0
java.lang.Error: randomChoiceUnnormalized falls through -- negative components in input distribution?

#1135 Sikandar37 opened 10 months ago
2
How can I find out number of patterns and number of partitions from my input file without running Beast2?

#1134 mzhuangsdsc opened 11 months ago
6
Robustify package manager

#1133 rbouckaert opened 11 months ago
0
BEAST2: fatal error has been detected by the Java Runtime Environment

#1132 Rutaiwan opened 11 months ago
3
Prep for v2.7.6 release

#1131 rbouckaert opened 12 months ago
0
Parameter does not restore properly after dimension change

#1130 rbouckaert closed 1 year ago
0
AdaptableOperatorSampler should have a try catch around calling the tree metrix

#1129 jordandouglas closed 1 year ago
0
Running into errors when following "WRITING A BEAST 2.7 PACKAGE" guide

#1128 jacklo225 closed 1 year ago
8
Warning: Duplicate cpuset controllers detected

#1127 MordorianGuy opened 1 year ago
7
BactrianUpDownOperator modifies the wrong index when elementWise is true

#1126 bjoelle closed 1 year ago
1
Input setStringValue for non-numerical list inputs

#1125 rbouckaert closed 1 year ago
0
BEAUti does not set a specified Clock.rate of `ClusterTree`.

#1124 MordorianGuy closed 1 year ago
5
Should `dataInput` of `ClusterTree` be named "taxa"?

#1123 MordorianGuy opened 1 year ago
2
Tree.printTranslate not robust

#1122 rbouckaert opened 1 year ago
1
beauti doesn't format html in package descriptions.

#1121 SimonGreenhill closed 12 months ago
0
fix typo

#1120 SimonGreenhill closed 1 year ago
0