sate-dev sate-core issues

sate-dev / sate-core

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python2 run_sate.py error

#40 1457634627 opened 3 years ago
1
Error from the begining with read()

#39 lalalagartija opened 4 years ago
0
Problem while executing $ python2 run_sate.py incompatibility with current version of dendropy

#38 kibet-gilbert closed 5 years ago
5
Raxml zombie process

#37 brantfaircloth opened 9 years ago
1
Zombie processes on some files (not sure of cause)

#36 brantfaircloth opened 9 years ago
3
Protein and DNA settings do not get updated in GUI

#35 smirarab opened 10 years ago
0
max_mem_mb does not get propagated to opal on command line

#34 smirarab closed 11 years ago
1
Unclosed open files pile up

#33 smirarab closed 11 years ago
2
Mafft aligned looks at previous alignment length not unaligned sequence

#32 smirarab closed 11 years ago
2
should check for taxa with non-overlapping gene content.

#31 mtholder opened 12 years ago
0
should print out the names recognized when there is an error matching tree leaf names to sequence names

#30 mtholder closed 11 years ago
1
zombie processes when GUI is stopped

#29 mtholder opened 12 years ago
0
bootstrapping on final RAxML tree

#28 mtholder opened 12 years ago
0
export RAxML partitions file to the output dir

#27 mtholder opened 12 years ago
1
Preserving the order of sequences

#26 smirarab opened 12 years ago
0
Prank is not given a guide tree inside sate

#25 smirarab opened 12 years ago
0
sequences must be upper case

#24 mtholder closed 11 years ago
2
better error message needed when tree labels do not match

#23 mtholder closed 11 years ago
1
scrollable GUI

#22 mtholder opened 12 years ago
0
feature request: tab cycling through gui elements

#21 mtholder opened 12 years ago
0
virus protection software may require users to allow each bundled tool

#20 mtholder opened 12 years ago
0
spaces in output dir filenames

#19 mtholder closed 11 years ago
1
unicode support for input filepaths

#18 mtholder opened 12 years ago
2
new temp directory structure

#17 mtholder closed 12 years ago
1
start_tree_search_from_current does not impact final raxml run

#16 smirarab closed 12 years ago
1
Refusing to clean tmp files

#15 smirarab closed 11 years ago
3
intermediate trees are outputted with internal taxon names

#14 smirarab closed 11 years ago
4
decomposition problem on unresolved edges

#13 smirarab opened 12 years ago
5
Defaults are not set properly when run from command-line

#12 smirarab opened 12 years ago
0
postprocessing tree search

#11 mtholder opened 12 years ago
1
SATe sometimes outputting wrong labels on tree with checkpointing feature

#10 smirarab closed 12 years ago
3
SATe is accepting Step0 results even if it is bad

#9 smirarab closed 12 years ago
4
Interplay of max_subproblem_frac and max_subproblem_size

#8 smirarab opened 12 years ago
0
add user_opts support to prank wrapper

#7 mtholder closed 12 years ago
1
Bundle FastTree

#6 jeetsukumaran closed 12 years ago
1
Sequences appear twice in the Alignment output file

#5 smirarab closed 12 years ago
3
Assuming "mafft" is a python script

#4 smirarab opened 12 years ago
2
Multiple threads and initial alignment

#3 smirarab opened 12 years ago
1
ez_setup.py needs to be packaged

#2 smirarab closed 12 years ago
0
Reading likelihood from RAxML_info

#1 smirarab closed 12 years ago
3