Skip to content

Commit

Permalink
v0.17.0
Browse files Browse the repository at this point in the history
  • Loading branch information
shenwei356 committed Jul 3, 2024
1 parent edfc8fa commit f5505e8
Showing 3 changed files with 27 additions and 16 deletions.
2 changes: 1 addition & 1 deletion CHANGELOG.md
Original file line number Diff line number Diff line change
@@ -7,7 +7,7 @@
- `taxonkit name2taxid`:
- Add support of fuzzy match with `-f/--fuzzy`. [#88](https://github.com/shenwei356/taxonkit/issues/88)
- `taxonkit profile2cami`:
- New flag `-S/--no-sum-up` to disable summing up abundances. [#99](https://github.com/shenwei356/taxonkit/issues/99)
- Add a new flag `-S/--no-sum-up` to disable summing up abundances. [#99](https://github.com/shenwei356/taxonkit/issues/99)
- [TaxonKit v0.16.0](https://github.com/shenwei356/taxonkit/releases/tag/v0.16.0)
[![Github Releases (by Release)](https://img.shields.io/github/downloads/shenwei356/taxonkit/v0.16.0/total.svg)](https://github.com/shenwei356/taxonkit/releases/tag/v0.16.0)
- `taxonkit create-taxdump`:
39 changes: 25 additions & 14 deletions doc/docs/download.md
Original file line number Diff line number Diff line change
@@ -6,15 +6,16 @@

## Current Version

- [TaxonKit v0.16.0](https://github.com/shenwei356/taxonkit/releases/tag/v0.16.0)
[![Github Releases (by Release)](https://img.shields.io/github/downloads/shenwei356/taxonkit/v0.16.0/total.svg)](https://github.com/shenwei356/taxonkit/releases/tag/v0.16.0)
- `taxonkit create-taxdump`:
- TaxIds are generated from the hash value of "rank+taxon_name", this allowed duplicated names with different ranks (common in GTDB). [#92](https://github.com/shenwei356/taxonkit/issues/92).
- `taxonkit taxid-changelog/create-taxdump`:
- Add notes about the possible error records in taxid-changelog built from taxonomic data created by `create-taxdump`. [#91](https://github.com/shenwei356/taxonkit/issues/91)
- Dont't worry, a single version of taxonomic data created by `taxonkit create-taxdump` has no problem, it's just the changelog might not be perfect.
- `taxonkit lca`:
- new flag `-K/--keep-invalid`: print the query even if no single valid taxid left. [#89](https://github.com/shenwei356/taxonkit/issues/89)
- [TaxonKit v0.17.0](https://github.com/shenwei356/taxonkit/releases/tag/v0.17.0)
[![Github Releases (by Release)](https://img.shields.io/github/downloads/shenwei356/taxonkit/v0.17.0/total.svg)](https://github.com/shenwei356/taxonkit/releases/tag/v0.17.0)
- `taxonkit filter`:
- Fix keeping taxids with a rank of "no rank" or "clade". [#97](https://github.com/shenwei356/taxonkit/issues/97)
- `taxonkit list`:
- Accept input TaxIds from stdin/files, not just the flag `--ids`. [#93](https://github.com/shenwei356/taxonkit/issues/93)
- `taxonkit name2taxid`:
- Add support of fuzzy match with `-f/--fuzzy`. [#88](https://github.com/shenwei356/taxonkit/issues/88)
- `taxonkit profile2cami`:
- Add a new flag `-S/--no-sum-up` to disable summing up abundances. [#99](https://github.com/shenwei356/taxonkit/issues/99)

### Please cite

@@ -31,11 +32,11 @@

OS |Arch |File, 中国镜像 |Download Count
:------|:---------|:-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
Linux |**64-bit**|[**taxonkit_linux_amd64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_linux_amd64.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_linux_amd64.tar.gz) |[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_linux_amd64.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_linux_amd64.tar.gz)
Linux |**arm64** |[**taxonkit_linux_arm64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_linux_arm64.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_linux_arm64.tar.gz) |[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_linux_arm64.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_linux_arm64.tar.gz)
macOS |**64-bit**|[**taxonkit_darwin_amd64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_darwin_amd64.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_darwin_amd64.tar.gz) |[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_darwin_amd64.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_darwin_amd64.tar.gz)
macOS |**arm64** |[**taxonkit_darwin_arm64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_darwin_arm64.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_darwin_arm64.tar.gz) |[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_darwin_arm64.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_darwin_arm64.tar.gz)
Windows|**64-bit**|[**taxonkit_windows_amd64.exe.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_windows_amd64.exe.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_windows_amd64.exe.tar.gz)|[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_windows_amd64.exe.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.16.0/taxonkit_windows_amd64.exe.tar.gz)
Linux |**64-bit**|[**taxonkit_linux_amd64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_linux_amd64.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_linux_amd64.tar.gz) |[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_linux_amd64.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_linux_amd64.tar.gz)
Linux |**arm64** |[**taxonkit_linux_arm64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_linux_arm64.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_linux_arm64.tar.gz) |[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_linux_arm64.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_linux_arm64.tar.gz)
macOS |**64-bit**|[**taxonkit_darwin_amd64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_darwin_amd64.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_darwin_amd64.tar.gz) |[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_darwin_amd64.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_darwin_amd64.tar.gz)
macOS |**arm64** |[**taxonkit_darwin_arm64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_darwin_arm64.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_darwin_arm64.tar.gz) |[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_darwin_arm64.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_darwin_arm64.tar.gz)
Windows|**64-bit**|[**taxonkit_windows_amd64.exe.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_windows_amd64.exe.tar.gz),<br/> [中国镜像](http://app.shenwei.me/data/taxonkit/taxonkit_windows_amd64.exe.tar.gz)|[![Github Releases (by Asset)](https://img.shields.io/github/downloads/shenwei356/taxonkit/latest/taxonkit_windows_amd64.exe.tar.gz.svg?maxAge=3600)](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/taxonkit_windows_amd64.exe.tar.gz)

## Installation

@@ -156,6 +157,16 @@ All-in-one command:

## Release history


- [TaxonKit v0.16.0](https://github.com/shenwei356/taxonkit/releases/tag/v0.16.0)
[![Github Releases (by Release)](https://img.shields.io/github/downloads/shenwei356/taxonkit/v0.16.0/total.svg)](https://github.com/shenwei356/taxonkit/releases/tag/v0.16.0)
- `taxonkit create-taxdump`:
- TaxIds are generated from the hash value of "rank+taxon_name", this allowed duplicated names with different ranks (common in GTDB). [#92](https://github.com/shenwei356/taxonkit/issues/92).
- `taxonkit taxid-changelog/create-taxdump`:
- Add notes about the possible error records in taxid-changelog built from taxonomic data created by `create-taxdump`. [#91](https://github.com/shenwei356/taxonkit/issues/91)
- Dont't worry, a single version of taxonomic data created by `taxonkit create-taxdump` has no problem, it's just the changelog might not be perfect.
- `taxonkit lca`:
- new flag `-K/--keep-invalid`: print the query even if no single valid taxid left. [#89](https://github.com/shenwei356/taxonkit/issues/89)
- [TaxonKit v0.15.1](https://github.com/shenwei356/taxonkit/releases/tag/v0.15.1)
[![Github Releases (by Release)](https://img.shields.io/github/downloads/shenwei356/taxonkit/v0.15.1/total.svg)](https://github.com/shenwei356/taxonkit/releases/tag/v0.15.1)
- `taxonkit name2taxid`:
2 changes: 1 addition & 1 deletion doc/docs/usage.md
Original file line number Diff line number Diff line change
@@ -42,7 +42,7 @@ All-in-one command:
```text
TaxonKit - A Practical and Efficient NCBI Taxonomy Toolkit
Version: 0.16.0
Version: 0.17.0
Author: Wei Shen <shenwei356@gmail.com>

0 comments on commit f5505e8

Please sign in to comment.