diff --git a/pkgs/by-name/nc/ncbi-vdb/package.nix b/pkgs/by-name/nc/ncbi-vdb/package.nix
index ea80fcd216ff..61eed772f061 100644
--- a/pkgs/by-name/nc/ncbi-vdb/package.nix
+++ b/pkgs/by-name/nc/ncbi-vdb/package.nix
@@ -12,13 +12,13 @@
 
 stdenv.mkDerivation (finalAttrs: {
   pname = "ncbi-vdb";
-  version = "3.3.0";
+  version = "3.4.1";
 
   src = fetchFromGitHub {
     owner = "ncbi";
     repo = "ncbi-vdb";
     tag = finalAttrs.version;
-    hash = "sha256-bYVwgNYnFg2OPaPWSbXIW+VXprxg/PxwHIRCnDfQRls=";
+    hash = "sha256-A6Pjy1dEkCHy1B6LrWwVs8Et41POvdK4Upsyp4JUnaU=";
   };
 
   nativeBuildInputs = [
diff --git a/pkgs/by-name/sr/sratoolkit/attribute_unused.patch b/pkgs/by-name/sr/sratoolkit/attribute_unused.patch
deleted file mode 100644
index 203a9921fac6..000000000000
--- a/pkgs/by-name/sr/sratoolkit/attribute_unused.patch
+++ /dev/null
@@ -1,14 +0,0 @@
-diff --git a/libs/kxml/xml.c b/libs/kxml/xml.c
-index ce445424..41e21612 100644
---- a/libs/kxml/xml.c
-+++ b/libs/kxml/xml.c
-@@ -46,6 +46,9 @@ struct s_KNodeNamelist;
- #include <assert.h>
- #include <string.h>
- 
-+#ifndef ATTRIBUTE_UNUSED
-+#define ATTRIBUTE_UNUSED
-+#endif
- 
- #define XML_DEBUG(msg) DBGMSG (DBG_XML, DBG_FLAG(DBG_XML_XML), msg)
- 
diff --git a/pkgs/by-name/sr/sratoolkit/package.nix b/pkgs/by-name/sr/sratoolkit/package.nix
index 52c8e69dd727..8f4f4e9853d0 100644
--- a/pkgs/by-name/sr/sratoolkit/package.nix
+++ b/pkgs/by-name/sr/sratoolkit/package.nix
@@ -16,17 +16,15 @@ stdenv.mkDerivation (finalAttrs: {
   pname = "sratoolkit";
 
   # NOTE: When updating make sure to update ncbi-vdb as well for versions to match
-  version = "3.3.0";
+  version = "3.4.1";
 
   src = fetchFromGitHub {
     owner = "ncbi";
     repo = "sra-tools";
     tag = finalAttrs.version;
-    hash = "sha256-Lv4EWAKJ6F5uvsXgo2Bx3JyY9lYaL1El9Jbi2LidmHo=";
+    hash = "sha256-JMdJ8F4n9WgdP2oj8MN1+QlxCSmqFzsjAovx/+RyVjk=";
   };
 
-  patches = [ ./attribute_unused.patch ];
-
   cmakeFlags = [
     "-DVDB_INCDIR=${ncbi-vdb}/include"
     "-DVDB_LIBDIR=${ncbi-vdb}/lib"