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AuslanderLab / kmermaid

MIT License
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kmer_model.pkl is empty #4

Open Naturalist1986 opened 7 months ago

Naturalist1986 commented 7 months ago

Hi, is kMermaid currently active? When I try to download the model I get a txt file.

anastasia-lucas commented 7 months ago

Hi @Naturalist1986, thanks for trying out the package. It is currently in beta version and we are actively developing it.

You are correct, there is a known issue with downloading the large files including the model file you mentioned. Have you tried the alternate instructions? 

# Alternatively, download the files directly. For example, to download the kmer model to kmermaid/db/ run:

cd kmermaid/db/
rm kmer_model.pkl
wget https://github.com/AuslanderLab/kmermaid/raw/main/kmermaid/db/kmer_model.pkl

Please let me know if it still does not work after trying the above.

Naturalist1986 commented 7 months ago

Hi, Anastasia

Yes I tried this way first but it only download a small text file with this inside:

version https://git-lfs.github.com/spec/v1 oid sha256:070eb87efb3313f4a470fd78a89702ce78c6e18d45655bdb77c1e1c439fec603 size 281503837

anastasia-lucas commented 7 months ago

Hi @Naturalist1986, thanks for clarifying. I see you are correct. It seems like the file doesn't exist on the LFS server anymore.

I will work to resolve this. In the meantime, you can download the file from here and copy it into the correct directory

https://upenn.box.com/s/za5v570au1kponog0tavlgrtob7t6zbw