fix taxids of abbreviated lineage containing names shared by differen…

…t taxids. fix #35
shenwei356 · Oct 31, 2020 · 2e42ad3 · 2e42ad3
1 parent 6f91fdf
commit 2e42ad3
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Showing 3 changed files with 9 additions and 2 deletions.
diff --git a/CHANGES.md b/CHANGES.md
@@ -1,3 +1,6 @@
+- [TaxonKit v0.6.2](https://github.com/shenwei356/taxonkit/releases/tag/v0.6.2)
+[![Github Releases (by Release)](https://img.shields.io/github/downloads/shenwei356/taxonkit/v0.6.2/total.svg)](https://github.com/shenwei356/taxonkit/releases/tag/v0.6.1)
+    - `taxonkit reformat -F`: fix taxids of abbreviated lineage containing names shared by different taxids. [#35](https://github.com/shenwei356/taxonkit/issues/35)
 - [TaxonKit v0.6.1](https://github.com/shenwei356/taxonkit/releases/tag/v0.6.1)
 [![Github Releases (by Release)](https://img.shields.io/github/downloads/shenwei356/taxonkit/v0.6.1/total.svg)](https://github.com/shenwei356/taxonkit/releases/tag/v0.6.1)
     - `taxonkit lineage`: 

diff --git a/taxonkit/cmd/helper.go b/taxonkit/cmd/helper.go
@@ -34,7 +34,7 @@ import (
 )
 
 // VERSION of taxonkit
-const VERSION = "0.6.1"
+const VERSION = "0.6.2"
 
 // Config is the struct containing all global flags
 type Config struct {

diff --git a/taxonkit/cmd/reformat.go b/taxonkit/cmd/reformat.go
@@ -176,7 +176,11 @@ column by flag "-t/--show-lineage-taxids".
 				ranks[i] = rank
 				if srank, ok = rank2symbol[rank]; ok {
 					replacements[srank] = name2Name[name]
-					ireplacements[srank] = fmt.Sprintf("%d", name2taxid[name])
+					if i == 0 {
+						ireplacements[srank] = fmt.Sprintf("%d", name2taxid[name])
+					} else {
+						ireplacements[srank] = fmt.Sprintf("%d", name2parent2taxid[name][plname])
+					}
 					srank2idx[srank] = i
 					sranks[i] = srank
 				}