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WIP repeatmasker: bump and dfam data table #6845

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@bernt-matthias bernt-matthias commented Mar 15, 2025

Repeatmasker (in containers) is broken since version 4.1.5 build 1 since the download of the repeat libraries has been
removed
(see also).

This provides dfam data via a data table. Should also be usable in tools like maker.

Should we remove this:

In particular the instructions in the second part make sone sense in containers.

TODO:

FOR CONTRIBUTOR:

  • I have read the CONTRIBUTING.md document and this tool is appropriate for the tools-iuc repo.
  • License permits unrestricted use (educational + commercial)
  • This PR adds a new tool or tool collection
  • This PR updates an existing tool or tool collection
  • This PR does something else (explain below)

Repeatmasker (in containers) is broken since version 4.1.5 build 1 since the
[download of the repeat libraries has been
removed](bioconda/bioconda-recipes#43288) ([see
also](bioconda/bioconda-recipes#45513)).

This provides dfam data via a data table
@bernt-matthias bernt-matthias marked this pull request as draft March 15, 2025 17:21
@bernt-matthias bernt-matthias changed the title repeatmasker: bump and dfam data table WIP repeatmasker: bump and dfam data table Mar 15, 2025
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