20251125

2025-11-25 00:28:51 +08:00
commit eb3f16c30e
406 changed files with 91653 additions and 0 deletions
@@ -0,0 +1,41 @@
+#!/usr/bin/env perl
+
+use strict;
+use warnings;
+
+my $usage = "usage: $0 db query [opts]\n\n";
+
+unless (@ARGV) {
+    die $usage;
+}
+my $db = $ARGV[0] or die $usage;
+my $query = $ARGV[1] or die $usage;
+
+shift @ARGV;
+shift @ARGV;
+
+main: {
+
+    my $cmd = "makeblastdb -in $db -dbtype nucl";
+    &process_cmd($cmd) unless (-s "$db.nin"); # only build it once
+
+    $cmd = "blastn -db $db -query $query -dust no @ARGV";
+    &process_cmd($cmd);
+
+    exit(0);
+}
+
+####
+sub process_cmd {
+    my ($cmd) = @_;
+
+    my $ret = system($cmd);
+    if ($ret) {
+        die "Error, CMD: $cmd died with ret $ret";
+    }
+    
+    return;
+}
+
+    
+