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Use portable shebangs instead of hardcoding interpreters
See also: https://blogs.gentoo.org/mgorny/2016/02/08/a-quick-note-on-portable-shebangs/
--- a/scripts/dnadiff.pl
+++ b/scripts/dnadiff.pl
@@ -1,4 +1,4 @@
-#!__PERL_PATH -w
+#!/usr/bin/env perl
#-------------------------------------------------------------------------------
# Programmer: Adam M Phillippy, University of Maryland
--- a/scripts/exact-tandems.csh
+++ b/scripts/exact-tandems.csh
@@ -1,4 +1,4 @@
-#!__CSH_PATH -f
+#!/usr/bin/env csh
#
# Find exact tandem repeats in specified file involving an
# exact duplicate of at least the specified length
--- a/scripts/mapview.pl
+++ b/scripts/mapview.pl
@@ -1,4 +1,4 @@
-#!__PERL_PATH
+#!/usr/bin/env perl
use lib "__SCRIPT_DIR";
use Foundation;
--- a/scripts/mummerplot.pl
+++ b/scripts/mummerplot.pl
@@ -1,4 +1,4 @@
-#!__PERL_PATH
+#!/usr/bin/env perl
################################################################################
# Programmer: Adam M Phillippy, The Institute for Genomic Research
--- a/scripts/nucmer2xfig.pl
+++ b/scripts/nucmer2xfig.pl
@@ -1,4 +1,4 @@
-#!__PERL_PATH
+#!/usr/bin/env perl
# (c) Steven Salzberg 2001
# Make an xfig plot for a comparison of a reference chromosome (or single
# molecule) versus a multifasta file of contigs from another genome.
--- a/scripts/nucmer.pl
+++ b/scripts/nucmer.pl
@@ -1,4 +1,4 @@
-#!__PERL_PATH
+#!/usr/bin/env perl
#-------------------------------------------------------------------------------
# Programmer: Adam M Phillippy, The Institute for Genomic Research
--- a/scripts/promer.pl
+++ b/scripts/promer.pl
@@ -1,4 +1,4 @@
-#!__PERL_PATH
+#!/usr/bin/env perl
#-------------------------------------------------------------------------------
# Programmer: Adam M Phillippy, The Institute for Genomic Research
--- a/scripts/run-mummer1.csh
+++ b/scripts/run-mummer1.csh
@@ -1,4 +1,4 @@
-#!__CSH_PATH -f
+#!/usr/bin/env csh
#
# **SEVERELY** antiquated script for running the mummer 1 suite
# -r option reverse complements the query sequence, coordinates of the reverse
--- a/scripts/run-mummer3.csh
+++ b/scripts/run-mummer3.csh
@@ -1,4 +1,4 @@
-#!__CSH_PATH -f
+#!/usr/bin/env csh
#
# for running the basic mummer 3 suite, should use nucmer instead when possible
# to avoid the confusing reverse coordinate system of the raw programs.
|
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