xflouris libpll issues - Githubissues

xflouris / libpll

Phylogenetic Likelihood Library

GNU Affero General Public License v3.0

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issues

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solution for POSIX systems

#150 MGNute opened 5 years ago
0
pll_utree_unroot returns a virtual root that is inconsistent with the expected traversal order

#149 pierrebarbera closed 5 years ago
1
Documentation regarding CPU architecture flags is wrong/out of date

#148 computations opened 5 years ago
0
Missing digits in WAG rate matrix

#147 bredelings opened 5 years ago
1
stepwise addition algorithm based on parsimony

#146 djole opened 6 years ago
0
Current status of libpll

#145 andrewyatz closed 6 years ago
5
Relation to libpll.org

#144 usamec closed 6 years ago
2
Excessive allocation of memory space when compressing site patterns

#143 xflouris closed 6 years ago
1
Support AVX512 for likelihood function

#142 GabeAl opened 7 years ago
0
use GCC's __builtin_cpu_supports which is nicer than cpuid

#141 tillea closed 7 years ago
1
compile error for cpu features detection on i386 with __PIC__

#140 xflouris closed 7 years ago
1
derivatives-oddstates segmentation fault

#139 xflouris closed 7 years ago
4
Add run-time hardware detection of SSE,AVX,AVX2

#138 xflouris closed 7 years ago
5
non-x86: x86intrin.h: No such file or directory

#137 tillea closed 7 years ago
0
AVX runtime detection?

#136 tillea closed 7 years ago
10
PHYLIP parser performance and functionality

#135 amkozlov closed 7 years ago
12
Amend testing framework to compile on MAC

#134 xflouris closed 7 years ago
1
Re-entrant cross-platform random number generator

#133 xflouris closed 7 years ago
4
Please add release tag

#132 tillea opened 7 years ago
5
Add format string and callback to pll_newick_export

#131 xflouris closed 7 years ago
1
Check const correctness and use restrict keyword

#130 xflouris opened 7 years ago
2
Add tests that could generate negative values in the pmatrix.

#129 xflouris closed 7 years ago
8
Add tests for per-rate scalers

#128 xflouris closed 7 years ago
2
Document testing framework

#127 xflouris opened 7 years ago
1
Encapsulate rtree/utree into tree structures

#126 xflouris closed 7 years ago
2
negative numbers in pmatrix

#125 xflouris closed 6 years ago
6
Ascertainment bias correction for rooted trees

#124 xflouris closed 7 years ago
3
deallocate memory in case of erroneous tree parsing

#123 xflouris closed 7 years ago
1
Adapt fast randomized stepwise addition for unrooted trees to work with three sets of vectors per node

#122 xflouris opened 7 years ago
1
Implement fast unweighted parsimony score function for arbitrary number of states

#121 xflouris closed 7 years ago
1
Add test case for datasets that require scaling

#120 xflouris closed 7 years ago
2
AVX and AVX2 version of partials or likelihood not working properly.

#119 xflouris closed 7 years ago
1
Coverage tests

#118 xflouris opened 7 years ago
1
Implement fast unweighted parsimony

#117 xflouris closed 7 years ago
5
newton.c example misinterprets pll_compute_likelihood_derivatives return value

#116 bcclaywell closed 4 years ago
3
Parser Performance

#115 stamatak closed 6 years ago
0
Implement tip-inner optimization based on lookup table (AA and general)

#114 amkozlov closed 6 years ago
1
Rename pll_msa_t fields "count" and "length" to "taxa" and "sites" respectively

#113 pierrebarbera closed 6 years ago
3
Possibly wrong log-likelihood computation with invariant sites for rooted trees

#112 xflouris closed 7 years ago
1
Implement AVX vectorized exponentiation

#111 xflouris opened 7 years ago
1
Create core functions for evaluating log-likelihood on rooted trees

#110 xflouris closed 7 years ago
1
think about single per-site rate category implementation

#109 stamatak opened 7 years ago
0
add blocked vectorization scheme

#108 stamatak opened 7 years ago
0
Integrate AVX2 (FMA only) with Macros

#107 stamatak closed 7 years ago
6
Vectorized log-likelihood evaluation for rooted trees

#106 xflouris closed 7 years ago
1
Vectorize p-matrix computation and connect it with the core function

#105 xflouris closed 6 years ago
2
Clarifying documentation for params_indices

#104 matsen closed 7 years ago
0
Important documentation regarding libpll

#103 xflouris opened 7 years ago
1
Duplicate const qualifier

#102 thayerf closed 7 years ago
2
Possible model extensions

#101 stamatak opened 7 years ago
8