This fixes #239

milaboratory · May 4, 2017 · 12e231c · 12e231c
1 parent dcb1275
commit 12e231c
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/src/main/java/com/milaboratory/mixcr/cli/ActionAlign.java b/src/main/java/com/milaboratory/mixcr/cli/ActionAlign.java
@@ -414,7 +414,7 @@ public SequenceReaderCloseable<? extends SequenceRead> createReader() throws IOE
                 return new PairedFastqReader(parameters.get(0), parameters.get(1), true);
             else {
                 String[] s = parameters.get(0).split("\\.");
-                if (s[s.length - 1].equals("fasta"))
+                if (s[s.length - 1].equals("fasta") || s[s.length - 1].equals("fa"))
                     return new FastaSequenceReaderWrapper(
                             new FastaReader<>(parameters.get(0), NucleotideSequence.ALPHABET),
                             true