BUCKy users

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Welcome! this is the place for users to post questions, report bugs, and interact. To download the software, manual, tutorial, see here:
http://www.stat.wisc.edu/~ane/bucky/

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9/26/23

Visualization Question

Hi all, I was wondering if others have been running into issues being able to appropriately load the

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Visualization Question

Hi all, I was wondering if others have been running into issues being able to appropriately load the

9/26/23

Inbar Maayan, Cécile Ané2

3/27/23

Bucky for tree comparison from nuclear vs mito

Based on your description, it looks like you need a different analysis than BUCKy, indeed. On Sunday,

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Bucky for tree comparison from nuclear vs mito

Based on your description, it looks like you need a different analysis than BUCKy, indeed. On Sunday,

3/27/23

9/6/21

Compilation error with gcc 11

Dear authors of BUCKy, I have been using this software for some time under Debian (compiled with GCC

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Compilation error with gcc 11

Dear authors of BUCKy, I have been using this software for some time under Debian (compiled with GCC

9/6/21

Rachel Keuler, Cécile Ané2

9/5/21

BUCKy version check failed, update to version >= 1.4.4.

I can't reproduce the error, so I'm not sure how to help directly. But I highly suggest that

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BUCKy version check failed, update to version >= 1.4.4.

I can't reproduce the error, so I'm not sure how to help directly. But I highly suggest that

9/5/21

8/9/21

Questions about estimation of the average standard deviation of split frequencies in MrBayes

Hi everyone, I'm sorry if I posted my questions in unsuitable place. Perhaps, I should ask this

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Questions about estimation of the average standard deviation of split frequencies in MrBayes

Hi everyone, I'm sorry if I posted my questions in unsuitable place. Perhaps, I should ask this

8/9/21

nilofar alaie, … Cécile Ané5

3/2/21

'bucky.pl' in the TICR.

Thanks a lot for your answer. I still don't know, why I get the fewer 4-taxon sets than expected,

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'bucky.pl' in the TICR.

Thanks a lot for your answer. I still don't know, why I get the fewer 4-taxon sets than expected,

3/2/21

Noppol Kobmoo, … Cécile Ané3

10/26/20

BUCKy and the delineating of a species.

just in case the question is technical (instead of fundamental/philosophical): I wonder if the cause

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BUCKy and the delineating of a species.

just in case the question is technical (instead of fundamental/philosophical): I wonder if the cause

10/26/20

Noppol Kobmoo, … Cécile Ané4

10/24/20

The meaning of sample-wide CF.

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The meaning of sample-wide CF.

10/24/20

Noppol Kobmoo, … Cécile Ané5

10/22/18

What is the standard running time for BUCKY ?

Thank you very much for your suggestion. I have removed the genes with less resolved tress and it has

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What is the standard running time for BUCKY ?

Thank you very much for your suggestion. I have removed the genes with less resolved tress and it has

10/22/18

Ayse Tenger-Trolander, Steve Hunter2

10/7/18

Visualization problem

Hello Ayse. There is a feature in our server's software that causes it not to accept large files

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Visualization problem

Hello Ayse. There is a feature in our server's software that causes it not to accept large files

10/7/18

Patricia Rivera, Cécile Ané2

9/21/18

Running Bucky parallelized scripts on a cluster (Troubles setting the number of 4-taxon sets)

Hi Patricia, It looks like the bucky.pl script found 102 taxa, not 104, based on the number of 4-

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Running Bucky parallelized scripts on a cluster (Troubles setting the number of 4-taxon sets)

Hi Patricia, It looks like the bucky.pl script found 102 taxa, not 104, based on the number of 4-

9/21/18

8/6/18

BUCKy on Windows 10 machine

Hello, has anyone gotten Bucky and mbsum to run on a Windows 10 machine? I am running into weird

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BUCKy on Windows 10 machine

Hello, has anyone gotten Bucky and mbsum to run on a Windows 10 machine? I am running into weird

8/6/18

tasha, Cécile Ané3

4/4/18

installing on mac OSx 10.12.6

Thank you! I will try these things On Wed, Apr 4, 2018, 3:03 PM Cécile Ané <a...@stat.wisc.edu>

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installing on mac OSx 10.12.6

Thank you! I will try these things On Wed, Apr 4, 2018, 3:03 PM Cécile Ané <a...@stat.wisc.edu>

4/4/18

Tom Near, Bohao Fang2

8/30/17

what(): vector::_M_fill_insert

Hi, Did you solve the 'std::length_error' issue? I'm facing the same problem. Thank you!

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what(): vector::_M_fill_insert

Hi, Did you solve the 'std::length_error' issue? I'm facing the same problem. Thank you!

8/30/17

5/9/17

Error "Argument list too long" with BUCKy 1.4.4

Hello again I think I have fixed my own problem - sorry, I probably should have thought about it for

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Error "Argument list too long" with BUCKy 1.4.4

Hello again I think I have fixed my own problem - sorry, I probably should have thought about it for

5/9/17

tkch...@email.uark.edu

9/8/16

BUCKy using OpenMPI

Hi all, I made a version of BUCKy which allows parallel execution using OpenMPI. You can find it here

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BUCKy using OpenMPI

Hi all, I made a version of BUCKy which allows parallel execution using OpenMPI. You can find it here

9/8/16

Susana Freitas, Cécile Ané4

9/2/16

memory error message: std::bad_alloc (after the MCMC)

Just a small note, it should be --no-population-tree (with -no-population-tree won't work). I

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memory error message: std::bad_alloc (after the MCMC)

Just a small note, it should be --no-population-tree (with -no-population-tree won't work). I

9/2/16

Simon Uribe-Convers, … Cécile Ané5

6/29/16

Concordance factor to create "super-genes"

Thank you for all the recommendations Cécile! I think I'll go with weighted statistical binning

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Concordance factor to create "super-genes"

Thank you for all the recommendations Cécile! I think I'll go with weighted statistical binning

6/29/16

Gareth Pearson, Cécile Ané3

4/10/16

Thanks Cécile, that's good to know! Best, Gareth Gareth Pearson (Research Associate) Centre of

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Thanks Cécile, that's good to know! Best, Gareth Gareth Pearson (Research Associate) Centre of

4/10/16

Stu Willis, … Cymon Cox5

3/21/16

Thanks for the reply Cecile, much appreciated, Cymon On 21 March 2016 at 14:59, Cecile Ane <cecile

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Thanks for the reply Cecile, much appreciated, Cymon On 21 March 2016 at 14:59, Cecile Ane <cecile

3/21/16

12/7/15

Reasonable way to estimate an appropriate alpha?

Dear BUCKy group, I am analyzing a number of datasets for which I have little prior knowledge about

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Reasonable way to estimate an appropriate alpha?

Dear BUCKy group, I am analyzing a number of datasets for which I have little prior knowledge about

12/7/15

yaf...@gmail.com, … Simon Uribe-Convers9

11/12/15

concordance factor values & Hybridization

Hi Cécile, thanks for the clarification, I really liked the paper! Cheers, Simon On Thursday,

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concordance factor values & Hybridization

Hi Cécile, thanks for the clarification, I really liked the paper! Cheers, Simon On Thursday,

11/12/15

Katie Everson, Cécile Ané2

10/3/15

Running BUCKy on partitions rather than genes?

Hi Katie, PartitionFinder will tell you which partitions should be analyzed with different

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Running BUCKy on partitions rather than genes?

Hi Katie, PartitionFinder will tell you which partitions should be analyzed with different

10/3/15

Genevieve, Cécile Ané2

7/9/15

missing concordance values?

Hi Geneviève, Both the concordance tree and the population tree are unrooted trees, even if you

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missing concordance values?

Hi Geneviève, Both the concordance tree and the population tree are unrooted trees, even if you

7/9/15

Helene Chiapello, Cécile Ané2

6/26/15

The 'bad_alloc' error is most likely from a lack of memory. It occurs before the MCMC starts,

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The 'bad_alloc' error is most likely from a lack of memory. It occurs before the MCMC starts,

6/26/15

6/22/15

A new version of BUCKy was just released, v1.4.4, available here: www.stat.wisc.edu/~ane/bucky It

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A new version of BUCKy was just released, v1.4.4, available here: www.stat.wisc.edu/~ane/bucky It

6/22/15

Genevieve, … Weisrock, David6

5/8/15

Thanks for the clarification on MrBayes Bret. I seem to remember that earlier versions didn't use

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Thanks for the clarification on MrBayes Bret. I seem to remember that earlier versions didn't use

5/8/15

4/30/15

Hi Bret, I am wonding if BUCKy 1.4.3 included the update that assigns probabilities to all trees that

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Hi Bret, I am wonding if BUCKy 1.4.3 included the update that assigns probabilities to all trees that

4/30/15

4/24/15

restarting an analysis

Hi, I'm running a very large BUCKy analysis, and my max time runs out on the cluster before it

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restarting an analysis

Hi, I'm running a very large BUCKy analysis, and my max time runs out on the cluster before it

4/24/15

Genevieve, Cécile Ané2

4/9/15

To reduce memory requirement, you could reduce your taxon set, or else reduce your gene set and keep

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To reduce memory requirement, you could reduce your taxon set, or else reduce your gene set and keep

4/9/15

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