Mercurial > repos > galaxy-australia > dorado_pod5_convert

comparison README.md @ 1:28928576e1ea draft

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planemo upload for repository https://github.com/usegalaxy-au/tools-au/tree/main/tools/dorado commit c42b6e3fd2cf6d26e231645a9e8a2986503279e2
author galaxy-australia
date Mon, 22 Jul 2024 04:51:13 +0000
parents 18a8d140ec6f
children 7c47b3c9e493
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0:18a8d140ec6f 1:28928576e1ea
23 To update the list, modify `tool-data/dorado_models.loc.sample`. 23 To update the list, modify `tool-data/dorado_models.loc.sample`.
24 24
25 Because models can be added and removed, models are listed **per container** in 25 Because models can be added and removed, models are listed **per container** in
26 the loc file. 26 the loc file.
27 27
28 Here's some code to **append** the models from the container with hash 28 Here's some code to update the loc file with models from the container with hash
29 `1c65eb070a9fc1d88710c4dc09b06541f96fdd28` to the loc file. 29 `1c65eb070a9fc1d88710c4dc09b06541f96fdd28`.
30 30
31 ```bash 31 ```bash
32 export DORADO_HASH="1c65eb070a9fc1d88710c4dc09b06541f96fdd28" 32 export DORADO_HASH="1c65eb070a9fc1d88710c4dc09b06541f96fdd28"
33 33
34 apptainer exec "docker://nanoporetech/dorado:sha${DORADO_HASH}" \ 34 apptainer exec "docker://nanoporetech/dorado:sha${DORADO_HASH}" \
35 ls /models | \ 35 ls /models | \
36 awk -v hash="${DORADO_HASH}" '{print hash "_" $0 "\t" hash "\t" $0 "\t/models/" $0}' \ 36 awk -v hash="${DORADO_HASH}" '{print hash "_" $0 "\t" hash "\t" $0 "\t/models/" $0}' \
37 >> tool-data/dorado_models.loc.sample 37 > tool-data/dorado_models.loc.sample
38 ``` 38 ```
39 39
40 The loc file doesn't have a header, so you can keep it sorted. 40 The loc file doesn't have a header, so you can keep it sorted.
41 41
42 ```bash 42 ```bash