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Rename obifind obitaxonomy and introduce the new CSV format for taxonomy.

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Eric Coissac
2025-01-29 10:45:26 +01:00
parent c50a0f409d
commit 00f2dc2697
11 changed files with 4571 additions and 55 deletions
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7
Release-notes.md
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@ -7,6 +7,8 @@
- In `obimultiplex`, the short version of the **--tag-list** option used to specify the list
of tags and primers to be used for the demultiplexing has been changed from `-t` to `-s`.
- The command `obifind` is now renamed `obitaxonomy`.
- The **--taxdump** option used to specify the path to the taxdump containing the NCBI taxonomy
has been renamed to **--taxonomy**.
@ -21,6 +23,11 @@
### New features
- `obitoaxonomy` a new **--dump|D** option allows for dumping a sub-taxonomy.
- Taxonomy dump can now be provided as a four-columns CSV file to the **--taxonomy**
option.
- NCBI Taxonomy dump does not need to be uncompressed and unarchived anymore. The
path of the tar and gziped dump file can be directly specified using the
**--taxonomy** option.