Properly name fasta header

artic-network · Sep 3, 2024 · 0a7fc7e · 0a7fc7e
1 parent 19d1e4e
commit 0a7fc7e
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Showing 3 changed files with 3 additions and 3 deletions.
diff --git a/artic/minion.py b/artic/minion.py
@@ -242,7 +242,8 @@ def run(parser, args):
     )
 
     # 11) apply the header to the consensus sequence and run alignment against the reference sequence
-    fasta_header = "%s/ARTIC/medaka" % (args.sample)
+    caller = "medaka" if not args.clair3 else "clair3"
+    fasta_header = f"{args.sample}/ARTIC/{caller}"
     cmds.append(
         'artic_fasta_header %s.consensus.fasta "%s"' % (args.sample, fasta_header)
     )

diff --git a/environment.yml b/environment.yml
@@ -19,7 +19,6 @@ dependencies:
   - pip
   - pysam
   - pytest 
-  - python
   - cyvcf2
   - pyfaidx
   - requests

diff --git a/setup.cfg b/setup.cfg
@@ -1,6 +1,6 @@
 [metadata]
 name = artic
-version = 1.4.1
+version = 1.4.2
 author = Nick Loman
 author_email = [email protected]
 maintainer = Sam Wilkinson
-Original file line number
+Diff line change
@@ Expand Up / @@ -19,7 +19,6 @@ dependencies: @@
       - pip
       - pysam
       - pytest
-      - python
       - cyvcf2
       - pyfaidx
       - requests
@@ Expand Down @@