diff --git a/biology/ngs-sdk/files/patch-ngs-sdk_setup_konfigure.perl b/biology/ngs-sdk/files/patch-ngs-sdk_setup_konfigure.perl
index 5fc8fb532a2c..3d4ce73cdafd 100644
--- a/biology/ngs-sdk/files/patch-ngs-sdk_setup_konfigure.perl
+++ b/biology/ngs-sdk/files/patch-ngs-sdk_setup_konfigure.perl
@@ -1,37 +1,57 @@
---- ngs-sdk/setup/konfigure.perl.orig	2021-08-18 16:26:23 UTC
+- patch includes removal of '-arch i386' trying to fix build on i386:
+- see https://github.com/ncbi/ngs/issues/39
+
+--- ngs-sdk/setup/konfigure.perl.orig	2022-11-15 17:37:36 UTC
 +++ ngs-sdk/setup/konfigure.perl
-@@ -225,7 +225,7 @@ if ($OS eq 'linux') {
+@@ -225,7 +225,7 @@ println $MARCH unless ($AUTORUN);
  
  print "checking machine architecture... " unless ($AUTORUN);
  println $MARCH unless ($AUTORUN);
 -unless ($MARCH =~ /x86_64/i || $MARCH =~ /i?86/i || $MARCH =~ /aarch64/) {
 +unless ($MARCH =~ /x86_64/i || $MARCH =~ /amd64/i || $MARCH =~ /i?86/i || $MARCH =~ /aarch64/) {
      println "configure: error: unsupported architecture '$OSTYPE':'$MARCH'";
      exit 1;
  }
-@@ -312,6 +312,8 @@ my $BITS;
+@@ -312,6 +312,8 @@ if ($MARCH =~ /x86_64/i) {
  
  if ($MARCH =~ /x86_64/i) {
      $BITS = 64;
 +} elsif ($MARCH =~ /amd64/i) {
 +    $BITS = 64;
  } elsif ($MARCH eq 'fat86') {
      $BITS = '32_64';
  } elsif ($MARCH =~ /i?86/i) {
 @@ -337,6 +339,16 @@ if ($OSTYPE =~ /linux/i) {
      $OSINC = 'unix';
      $TOOLS = 'gcc' unless ($TOOLS);
      $PYTHON = 'python';
 +} elsif ($OSTYPE =~ /freebsd/i) {
 +    $LPFX = 'lib';
 +    $OBJX = 'o';
 +    $LOBX = 'pic.o';
 +    $LIBX = 'a';
 +    $SHLX = 'so';
 +    $EXEX = '';
 +    $OSINC = 'unix';
 +    $TOOLS = 'clang' unless ($TOOLS);
 +    $PYTHON = $ENV{FREEBSD_PYTHON_CMD};
  } elsif ($OSTYPE =~ /darwin/i) {
      $LPFX = 'lib';
      $OBJX = 'o';
+@@ -386,14 +398,14 @@ if ($TOOLS =~ /gcc$/) {
+     my $versionMin = '-mmacosx-version-min=10.10';
+     $CP   = "$CPP -c $versionMin";
+     if ($BITS ne '32_64') {
+-        $ARCH_FL = '-arch i386' if ($BITS == 32);
++        $ARCH_FL = '' if ($BITS == 32);
+         $OPT = '-O3';
+         $AR      = 'ar rc';
+         $LD      = "clang $ARCH_FL";
+         $LP      = "$CPP $versionMin $ARCH_FL";
+     } else {
+         $MAKE_MANIFEST = '( echo "$^" > $@/manifest )';
+-        $ARCH_FL       = '-arch i386 -arch x86_64';
++        $ARCH_FL       = '-arch x86_64';
+         $OPT    = '-O3';
+         $AR     = 'libtool -static -o';
+         $LD     = "clang -Wl,-arch_multiple $ARCH_FL -Wl,-all_load";