updated docs for thread_dna function stating that the nucleotide file…

… should be a sequence file, not an alignment file
JLSteenwyk · Dec 17, 2023 · 43808f9 · 43808f9
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diff --git a/docs/usage/index.rst b/docs/usage/index.rst
@@ -424,7 +424,7 @@ https://github.com/JLSteenwyk/ClipKIT.
 
 Options: |br|
 *-p/\\-\\-protein*: protein alignment file |br|
-*-n/\\-\\-nucleotide*: nucleotide alignment file |br|
+*-n/\\-\\-nucleotide*: nucleotide sequence file |br|
 *-c/\\-\\-clipkit_log*: clipkit outputted log file |br|
 *-s/\\-\\-stop*: boolean for whether or not stop codons should be kept. 
 If used, stop codons will be removed.

diff --git a/phykit/phykit.py b/phykit/phykit.py
@@ -2344,7 +2344,7 @@ def thread_dna(argv):
                 =====================================================
                 -p/--protein                protein alignment file
 
-                -n/--nucleotide             nucleotide alignment file
+                -n/--nucleotide             nucleotide sequence file
 
                 -c/--clipkit_log            clipkit outputted log file
 

diff --git a/phykit/version.py b/phykit/version.py
@@ -1 +1 @@
-__version__ = "1.12.4"
+__version__ = "1.12.5"