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Databases' names changed to CD-batch search options
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@iquasere iquasere released this 12 Sep 15:26
· 7 commits to master since this release
1.11.0
80d25f5

Databases' names inputted to the --databases has changed to accomodate the options present at CDD Batch Search. The new options are:

  • NCBI_Curated
  • Pfam
  • SMART
  • KOG
  • COG
  • PRK
  • TIGR

Domains now follow the lists at the PN files provided by NCBI

Domains related to the NCBI_Curated and PRK databases were not all being considered when building databases. This has been fixed, in accordance to the PN files provided with cdd.tar.gz.

Database construction reimplemented to use the PN files provided by CDD

If those are not available, reCOGnizer will still build the PN files, but with more added domains.

This should fix #19. But lets see.

Also removed deprecated parameters

--download-resources and --skip-downloaded parameters now will result in error when specified.

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