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huangkang1987 / parentage

Performing parentage analysis in the presence of inbreeding and null alleles
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Program Crash #1

Open tristanswartout opened 2 weeks ago

tristanswartout commented 2 weeks ago

Dr. Huang,

Hope all is well, I am currently trying to run the example data that is provided when you first open the parentage software. While the genetic diversity analysis works fine, if you try to run the simulation analysis the program closes out shortly after the simulation starts in the caching process. Was wondering if you could provide any input with this issue.

Best, Tristan Swartout

huangkang1987 commented 1 week ago

Hi Tristan,

Can you send me a minimum sample or the configuration file to repeat the crash?

All the best Kang

From: tristanswartout Date: 2024-08-29 09:42 To: huangkang1987/parentage CC: Subscribed Subject: [huangkang1987/parentage] Program Crash (Issue #1) Dr. Huang, Hope all is well, I am currently trying to run the example data that is provided when you first open the parentage software. While the genetic diversity analysis works fine, if you try to run the simulation analysis the program closes out shortly after the simulation starts in the caching process. Was wondering if you could provide any input with this issue. Best, Tristan Swartout — Reply to this email directly, view it on GitHub, or unsubscribe. You are receiving this because you are subscribed to this thread.Message ID: @.***>

tristanswartout commented 1 week ago

Kang,

To start, here is the configuration settings I have (these appear to be the defaults when I start the program for the first time): -Lod estimator: Kalinowski et al. (2007) -Consider negative amplification is checked -Consider selfing when sexes is unknown is checked -Selfing: 1.0 -Back-crossing: 8.0 -Between full sibs: 1.0 -Decimal places: 3 -parentage analysis output: Top 1 lod parent -threads: 7 (I changed this because my computer only has 8 CPU cores)

So the code I used is the example code that is provided when you first open the program. I copied the code from the phenotype box and have provided it here in a txt file. When I run that code, it gives me a genetic diversity output but when I go to run a simulation that is when it crashes. I have not altered any of the parameters of the simulation tab they are as followed: Alleged parents: nonrelatives of the true parents -#Offspring: 10000, -#Candidate parents: 290, -#candidate mothers: 284, -#candidate fathers: 297, -#candidate parents unknown sex: 581, -Inbreeding coef: 0.0740, -prop sampled: 0.99, -prop loci typed: 0.7649, -prop loci mistyped: 0.01

Thank you for any help you can provide!

Best, Tristan

tristanswartout commented 1 week ago

Here is the example code I mentioned previously

Example code.txt