From 15d5113e8b012393cea3d047f50e9d1b1337dbb1 Mon Sep 17 00:00:00 2001
From: Pavel Dimens <pdimens@live.com>
Date: Mon, 8 Feb 2021 22:25:41 -0600
Subject: [PATCH] remove extension deps for openvcf()

---
 src/io/VariantCallGzLazy.jl | 8 +++-----
 src/io/VariantCallLazy.jl   | 8 +++-----
 2 files changed, 6 insertions(+), 10 deletions(-)

diff --git a/src/io/VariantCallGzLazy.jl b/src/io/VariantCallGzLazy.jl
index 161e5c3a6..4318003b0 100644
--- a/src/io/VariantCallGzLazy.jl
+++ b/src/io/VariantCallGzLazy.jl
@@ -2,11 +2,9 @@ using .GZip
 
 # if GZip is loaded in, overwrite openvcf to this method
 function openvcf(infile::String)
-    if endswith(infile, ".vcf") || endswith(infile, ".bcf")
-        return open(infile, "r")
-    elseif endswith(infile, ".vcf.gz") || endswith(infile, ".bcf.gz")
+    if endswith(infile, ".gz")
         return GZip.open(infile, "r")
     else
-        throw(ArgumentError("The filename must end with .vcf/.bcf or .vcf.gz/.bcf.gz"))
+        return open(infile, "r")
     end
-end
+end
\ No newline at end of file
diff --git a/src/io/VariantCallLazy.jl b/src/io/VariantCallLazy.jl
index 0d52871ee..6baf5bcd4 100755
--- a/src/io/VariantCallLazy.jl
+++ b/src/io/VariantCallLazy.jl
@@ -4,15 +4,13 @@ export bcf, vcf
 
 """
     openvcf(::String)
-Open VCF file (`.vcf/.gz`, or `.bcf/.gz`) and return an `IO` stream in reading mode `"r"`.
+Open VCF file (`.vcf(.gz)`, or `.bcf(.gz)`) and return an `IO` stream in reading mode `"r"`.
 """
 function openvcf(infile::String)
-    if endswith(infile, ".vcf") || endswith(infile, ".bcf")
-        return open(infile, "r")
-    elseif endswith(infile, ".gz")
+    if endswith(infile, ".gz")
         throw(ArgumentError("Please load in GZip.jl with \`using GZip\`"))
     else
-        throw(ArgumentError("The filename must end with .vcf or .bcf"))
+        return open(infile, "r")
     end
 end