Re: [structure-group] Coding issue? running structure in R

[Julius Pyton Sserumaga]

Hey Kate

This error commonly occurs when the path to the structure.exe executable is incorrect or the file is missing.

To resolve this issue, you can try the following steps:

Verify the correct path to the structure.exe executable: Double-check that the path you provided in the exec argument is correct and points to the actual location of the structure.exe file on your system. Make sure to use the correct slashes (/ or \\) depending on your operating system.

Confirm that the structure.exe file exists: Ensure that the structure.exe file is present in the specified directory. If it's missing, you may need to reinstall the dartR package or download the Structure software separately.

Check file permissions: Ensure that you have the necessary permissions to execute the structure.exe file and access the required files and directories.

Try specifying the absolute path: Instead of a relative path, provide the complete absolute path to the structure.exe file in the exec argument. For example, "C:/structure/structure.exe".

Test with a different executable: If you're still encountering issues, try using a different executable or a different version of the Structure software to see if the problem persists. Make sure the executable you're using is compatible with the version of dartR you have installed.

By following these steps, you should be able to resolve the "cannot locate class file" error and successfully run the Structure analysis using dartR in R.

Kind Regards

Julius Pyton Sserumaga, PhD.

Senior Research Scientist

Program Lead: Beef and Meat Research

National Agricultural Research Organization (NARO)

National Livestock Resources Research Institute (NaLIRRI)

PO. Box 5704, Kampala, Uganda
Office Tel: +256 -414-674025
Mobile +256-774-873595

           +256-701-017478

https://orcid.org/0000-0001-5152-2835

Skype: serumagajulio

On Wed, Jun 14, 2023 at 4:41 PM Kate Moffatt <katemo...@gmail.com> wrote:

Hi All, 

hoping someone can help. 

I am trying to run a structure analysis through dartR in R. Unfortunately, when I try to run the code it gives me the following error "Fali to start Structure: cannot locate class file". 

Does anyone know why this might be happening and how to resolve it? 

Here is my code: 

stru <- gl.run.structure(hwe95, k.range= 1:6 , num.k.rep = 100 , burnin = 1000 , numreps = 1000, noadmix = FALSE , exec = "C:/structure/structure.exe", plot.out = TRUE, save2tmp = FALSE, verbose = NULL)

Thanks, 

Kate 

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[Imiru Chimdessa]

Hi Dear, I got difficulty in that when I start to run structure software, using SNP data, it says bad data source.NOte. i converted hapmap in to numeric .why might this happen?what is the data format to use,please? thank you