v0.18.0

doc/docs/download.md

@@ -6,16 +6,12 @@
 
 ## Current Version
 
-- [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 v0.18.0](https://github.com/shenwei356/taxonkit/releases/tag/v0.18.0)
+[![Github Releases (by Release)](https://img.shields.io/github/downloads/shenwei356/taxonkit/v0.18.0/total.svg)](https://github.com/shenwei356/taxonkit/releases/tag/v0.18.0)
+    - `taxonkit reformat`:
+        - Add a placeholder for rank "realm", "{r}", which is common in Virus taxonomy like [ictv](https://github.com/shenwei356/ictv-taxdump). [#102](https://github.com/shenwei356/taxonkit/issues/102)
     - `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)
+        - Show warning for names with multiple taxids. [#103](https://github.com/shenwei356/taxonkit/issues/103)
 
 ### Please cite
 
@@ -32,11 +28,11 @@
 
 OS     |Arch      |File, 中国镜像                                                                                                                                                                              |Download Count
 :------|:---------|:-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|:-----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
-Linux  |**64-bit**|[**taxonkit_linux_amd64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.17.0/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)
+Linux  |**64-bit**|[**taxonkit_linux_amd64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.18.0/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/v0.18.0/taxonkit_linux_amd64.tar.gz)
+Linux  |**arm64** |[**taxonkit_linux_arm64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.18.0/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/v0.18.0/taxonkit_linux_arm64.tar.gz)
+macOS  |**64-bit**|[**taxonkit_darwin_amd64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.18.0/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/v0.18.0/taxonkit_darwin_amd64.tar.gz)
+macOS  |**arm64** |[**taxonkit_darwin_arm64.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.18.0/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/v0.18.0/taxonkit_darwin_arm64.tar.gz)
+Windows|**64-bit**|[**taxonkit_windows_amd64.exe.tar.gz**](https://github.com/shenwei356/taxonkit/releases/download/v0.18.0/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/v0.18.0/taxonkit_windows_amd64.exe.tar.gz)
 
 ## Installation
 
@@ -158,6 +154,16 @@ All-in-one command:
 ## Release history
 
 
+- [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)
 - [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`:

doc/docs/usage.md

@@ -42,7 +42,7 @@ All-in-one command:
 ```text
 TaxonKit - A Practical and Efficient NCBI Taxonomy Toolkit
 
-Version: 0.17.0
+Version: 0.18.0
 
 Author: Wei Shen <[email protected]>