diff --git a/plotsr/__init__.py b/plotsr/__init__.py
index 0b2f79d..c72e379 100755
--- a/plotsr/__init__.py
+++ b/plotsr/__init__.py
@@ -1 +1 @@
-__version__ = "1.1.3"
+__version__ = "1.1.4"
diff --git a/plotsr/scripts/plotsr.py b/plotsr/scripts/plotsr.py
index 6200571..1567e49 100755
--- a/plotsr/scripts/plotsr.py
+++ b/plotsr/scripts/plotsr.py
@@ -163,14 +163,14 @@ def plotsr(args):
             cur = n
         chrgrps[c] = cg
 
+    # Check chromsome IDs and sizes
+    chrlengths, genomes = validalign2fasta(alignments, args.genomes.name)
+    # chrlengths, genomes = validalign2fasta(alignments, 'genomes.txt') # TODO: Delete this line
+
     # Filter alignments to select long alignments between homologous chromosomes
     for i in range(len(alignments)):
         alignments[i][1] = filterinput(args, alignments[i][1], chrids[i][1], ITX)
 
-        # Check chromsome IDs and sizes
-    chrlengths, genomes = validalign2fasta(alignments, args.genomes.name)
-    # chrlengths, genomes = validalign2fasta(alignments, 'genomes.txt') # TODO: Delete this line
-
 
     # Select only chromosomes selected by --chr
     if CHRS is not None: