chloe_references is not found

[bombnattanon]

Hi,

It seems like the directory chloe_references in the repository is a symbolic link and I cannot access it. Is it possible to put the actual copy in instead?

Thanks!
Bom

[ian-small]

the directory is a separate repo, so can get the contents there
https://github.com/ian-small/chloe_references

[bombnattanon]

Thank you! The references seem to be sorted now (after running mmap). However, when I ran the annotation script on the test fasta files:

julia chloe.jl annotate testfa/*.fa -r chloe_references/gsrefs -t chloe_references/templates.tsv

I got the following error messages:

[ Info: found mmap file for: NC_030504
[ Info: found mmap file for: Z00044
[ Info: found mmap file for: NC_005086
[ Info: found mmap file for: JX512022
[ Info: found mmap file for: NC_002202
[ Info: found mmap file for: AP000423
[ Info: found mmap file for: NC_024542
[ Info: found mmap file for: NC_031333
[ Info: found mmap file for: NC_001666
ERROR: LoadError: BoundsError: attempt to access 3-element Vector{SubString{String}} at index [4]
Stacktrace:
[1] getindex
@ ./array.jl:924 [inlined]
[2] (::Main.Annotator.var"#45#46"{String, Dict{String, Main.Annotator.FeatureTemplate}, Vector{String}})(f::IOStream)
...
...
...

Do you know what could have gone wrong?

Thank you!