[med-svn] [roary] 04/04: change shebang line to raise Standards version
Sascha Steinbiss
satta at debian.org
Sun Jan 21 23:44:58 UTC 2018
This is an automated email from the git hooks/post-receive script.
satta pushed a commit to branch master
in repository roary.
commit 39d7e909252471cb3cc102e78c30afb082babd88
Author: Sascha Steinbiss <satta at debian.org>
Date: Mon Jan 22 00:44:37 2018 +0100
change shebang line to raise Standards version
---
debian/changelog | 3 +
debian/control | 2 +-
debian/patches/series | 1 +
debian/patches/use-debian-perl-path.patch | 612 ++++++++++++++++++++++++++++++
4 files changed, 617 insertions(+), 1 deletion(-)
diff --git a/debian/changelog b/debian/changelog
index f74776b..ac76c80 100644
--- a/debian/changelog
+++ b/debian/changelog
@@ -1,6 +1,9 @@
roary (3.11.4+dfsg-1) unstable; urgency=medium
* New upstream release.
+ * Bump Standards-Version.
+ * Add patch to use a shebang line of #!/usr/bin/perl, as
+ mandated by policy 10.4 (>= Standards version 4.1.2)
-- Sascha Steinbiss <satta at debian.org> Mon, 15 Jan 2018 13:40:31 +0100
diff --git a/debian/control b/debian/control
index 9b3c31e..6844d8b 100644
--- a/debian/control
+++ b/debian/control
@@ -35,7 +35,7 @@ Build-Depends: debhelper (>= 10),
mafft,
fasttree
Build-Depends-Indep: perl
-Standards-Version: 4.1.1
+Standards-Version: 4.1.3
Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/roary.git
Vcs-Git: https://anonscm.debian.org/git/debian-med/roary.git
Homepage: http://sanger-pathogens.github.io/Roary/
diff --git a/debian/patches/series b/debian/patches/series
index 5f6df31..acc8a76 100644
--- a/debian/patches/series
+++ b/debian/patches/series
@@ -1,2 +1,3 @@
rename_R_script.patch
use-dz-starter.patch
+use-debian-perl-path.patch
diff --git a/debian/patches/use-debian-perl-path.patch b/debian/patches/use-debian-perl-path.patch
new file mode 100644
index 0000000..849700a
--- /dev/null
+++ b/debian/patches/use-debian-perl-path.patch
@@ -0,0 +1,612 @@
+Description: use Debian Perl path
+ According to Policy 10.4 (introduced in Standards version 4.1.2)
+ the shebang at the top of Perl command scripts must be "#!/usr/bin/perl".
+ This patches changes the included scripts to conform to this.
+Author: Sascha Steinbiss <satta at debian.org>
+--- a/bin/create_pan_genome
++++ b/bin/create_pan_genome
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::CreatePanGenome;
+
+--- a/bin/extract_proteome_from_gff
++++ b/bin/extract_proteome_from_gff
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::ExtractProteomeFromGFF;
+
+--- a/bin/iterative_cdhit
++++ b/bin/iterative_cdhit
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::IterativeCdhit;
+
+--- a/bin/pan_genome_assembly_statistics
++++ b/bin/pan_genome_assembly_statistics
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::AssemblyStatistics;
+
+--- a/bin/pan_genome_core_alignment
++++ b/bin/pan_genome_core_alignment
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::RoaryCoreAlignment;
+
+--- a/bin/pan_genome_post_analysis
++++ b/bin/pan_genome_post_analysis
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::RoaryPostAnalysis;
+
+--- a/bin/pan_genome_reorder_spreadsheet
++++ b/bin/pan_genome_reorder_spreadsheet
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::RoaryReorderSpreadsheet;
+
+--- a/bin/parallel_all_against_all_blastp
++++ b/bin/parallel_all_against_all_blastp
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::ParallelAllAgainstAllBlastp;
+
+--- a/bin/protein_alignment_from_nucleotides
++++ b/bin/protein_alignment_from_nucleotides
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::GeneAlignmentFromNucleotides;
+
+--- a/bin/query_pan_genome
++++ b/bin/query_pan_genome
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::QueryRoary;
+
+--- a/bin/roary
++++ b/bin/roary
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::Roary;
+
+--- a/bin/roary-pan_genome_reorder_spreadsheet
++++ b/bin/roary-pan_genome_reorder_spreadsheet
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::RoaryReorderSpreadsheet;
+
+--- a/bin/roary-query_pan_genome
++++ b/bin/roary-query_pan_genome
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::QueryRoary;
+
+--- a/bin/roary-unique_genes_per_sample
++++ b/bin/roary-unique_genes_per_sample
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::UniqueGenesPerSample;
+
+--- a/bin/transfer_annotation_to_groups
++++ b/bin/transfer_annotation_to_groups
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ package Bio::Roary::Main::TransferAnnotationToGroups;
+
+--- a/t/00_requires_external.t
++++ b/t/00_requires_external.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+
+ use Test::Most;
+ use FindBin;
+--- a/t/Bio/Roary/AccessoryBinaryFasta.t
++++ b/t/Bio/Roary/AccessoryBinaryFasta.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/AccessoryClustering.t
++++ b/t/Bio/Roary/AccessoryClustering.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/AnalyseGroups.t
++++ b/t/Bio/Roary/AnalyseGroups.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/AnnotateGroups.t
++++ b/t/Bio/Roary/AnnotateGroups.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/AssemblyStatistics.t
++++ b/t/Bio/Roary/AssemblyStatistics.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/ChunkFastaFile.t
++++ b/t/Bio/Roary/ChunkFastaFile.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/CombinedProteome.t
++++ b/t/Bio/Roary/CombinedProteome.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/CommandLine/ExtractProteomeFromGff.t
++++ b/t/Bio/Roary/CommandLine/ExtractProteomeFromGff.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Data::Dumper;
+ use Cwd;
+--- a/t/Bio/Roary/CommandLine/GeneAlignmentFromNucleotides.t
++++ b/t/Bio/Roary/CommandLine/GeneAlignmentFromNucleotides.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Data::Dumper;
+ use Cwd;
+--- a/t/Bio/Roary/CommandLine/ParallelAllAgainstAllBlastp.t
++++ b/t/Bio/Roary/CommandLine/ParallelAllAgainstAllBlastp.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Data::Dumper;
+ use Cwd;
+--- a/t/Bio/Roary/CommandLine/QueryRoary.t
++++ b/t/Bio/Roary/CommandLine/QueryRoary.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Data::Dumper;
+ use Cwd;
+--- a/t/Bio/Roary/CommandLine/Roary.t
++++ b/t/Bio/Roary/CommandLine/Roary.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Data::Dumper;
+ use File::Path qw( remove_tree);
+--- a/t/Bio/Roary/CommandLine/RoaryCoreAlignment.t
++++ b/t/Bio/Roary/CommandLine/RoaryCoreAlignment.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Data::Dumper;
+ use Cwd;
+--- a/t/Bio/Roary/CommandLine/RoaryPostAnalysis.t
++++ b/t/Bio/Roary/CommandLine/RoaryPostAnalysis.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Data::Dumper;
+ use File::Path qw( remove_tree);
+--- a/t/Bio/Roary/CommandLine/RoaryReorderSpreadsheet.t
++++ b/t/Bio/Roary/CommandLine/RoaryReorderSpreadsheet.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Data::Dumper;
+ use Cwd;
+--- a/t/Bio/Roary/CommandLine/TransferAnnotationToGroups.t
++++ b/t/Bio/Roary/CommandLine/TransferAnnotationToGroups.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Data::Dumper;
+ use Cwd;
+--- a/t/Bio/Roary/ContigsToGeneIDsFromGFF.t
++++ b/t/Bio/Roary/ContigsToGeneIDsFromGFF.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/EmblGroups.t
++++ b/t/Bio/Roary/EmblGroups.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/External/Blastp.t
++++ b/t/Bio/Roary/External/Blastp.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/External/Cdhit.t
++++ b/t/Bio/Roary/External/Cdhit.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/External/CheckTools.t
++++ b/t/Bio/Roary/External/CheckTools.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/External/Mafft.t
++++ b/t/Bio/Roary/External/Mafft.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/External/Makeblastdb.t
++++ b/t/Bio/Roary/External/Makeblastdb.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/External/Mcl.t
++++ b/t/Bio/Roary/External/Mcl.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/External/Prank.t
++++ b/t/Bio/Roary/External/Prank.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/ExtractCoreGenesFromSpreadsheet.t
++++ b/t/Bio/Roary/ExtractCoreGenesFromSpreadsheet.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/ExtractProteomeFromGFFs.t
++++ b/t/Bio/Roary/ExtractProteomeFromGFFs.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/FilterFullClusters.t
++++ b/t/Bio/Roary/FilterFullClusters.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/GeneNamesFromGFF.t
++++ b/t/Bio/Roary/GeneNamesFromGFF.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/GroupLabels.t
++++ b/t/Bio/Roary/GroupLabels.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/GroupStatistics.t
++++ b/t/Bio/Roary/GroupStatistics.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/InflateClusters.t
++++ b/t/Bio/Roary/InflateClusters.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/OrderGenes.t
++++ b/t/Bio/Roary/OrderGenes.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/Output/CoreGeneAlignmentCoorindatesEMBL.t
++++ b/t/Bio/Roary/Output/CoreGeneAlignmentCoorindatesEMBL.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/Output/DifferenceBetweenSets.t
++++ b/t/Bio/Roary/Output/DifferenceBetweenSets.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/Output/GroupsMultifastaProtein.t
++++ b/t/Bio/Roary/Output/GroupsMultifastaProtein.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/Output/GroupsMultifastas.t
++++ b/t/Bio/Roary/Output/GroupsMultifastas.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/Output/GroupsMultifastasNucleotide.t
++++ b/t/Bio/Roary/Output/GroupsMultifastasNucleotide.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use File::Path qw( remove_tree);
+--- a/t/Bio/Roary/Output/NumberOfGroups.t
++++ b/t/Bio/Roary/Output/NumberOfGroups.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/Output/QueryGroups.t
++++ b/t/Bio/Roary/Output/QueryGroups.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/ParallelAllAgainstAllBlast.t
++++ b/t/Bio/Roary/ParallelAllAgainstAllBlast.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/PrepareInputFiles.t
++++ b/t/Bio/Roary/PrepareInputFiles.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/PresenceAbsenceMatrix.t
++++ b/t/Bio/Roary/PresenceAbsenceMatrix.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/QC/Report.t
++++ b/t/Bio/Roary/QC/Report.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/ReformatInputGFFs.t
++++ b/t/Bio/Roary/ReformatInputGFFs.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/ReorderSpreadsheet.t
++++ b/t/Bio/Roary/ReorderSpreadsheet.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/SampleOrder.t
++++ b/t/Bio/Roary/SampleOrder.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/SequenceLengths.t
++++ b/t/Bio/Roary/SequenceLengths.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/SortFasta.t
++++ b/t/Bio/Roary/SortFasta.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/SplitGroups.t
++++ b/t/Bio/Roary/SplitGroups.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Data::Dumper;
+--- a/t/Bio/Roary/UniqueGenesPerSample.t
++++ b/t/Bio/Roary/UniqueGenesPerSample.t
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use strict;
+ use warnings;
+ use Test::Files;
+--- a/t/bin/dummy_blastp
++++ b/t/bin/dummy_blastp
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Getopt::Long;
+ my ($output_filename,$query,$db,$evalue,$num_threads,$outfmt,$max_target_seqs) ;
+--- a/t/bin/dummy_cd-hit
++++ b/t/bin/dummy_cd-hit
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ system("touch output");
+ system("touch output.clstr");
+ system("touch output.bak.clstr");
+--- a/t/bin/dummy_makeblastdb
++++ b/t/bin/dummy_makeblastdb
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Getopt::Long;
+ my($output_filename,$dbtype,$in,$logfile,$parse_seqids,$mask_data);
+--- a/t/bin/dummy_mcl
++++ b/t/bin/dummy_mcl
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Getopt::Long;
+ my ($output_filename,$abc_format,$inflation);
+--- a/t/bin/dummy_mcxdeblast
++++ b/t/bin/dummy_mcxdeblast
+@@ -1,2 +1,2 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ 1;
+\ No newline at end of file
+--- a/t/bin/dummy_segmasker
++++ b/t/bin/dummy_segmasker
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ use Moose;
+ use Getopt::Long;
+ my($output_filename,$dbtype,$in,$logfile,$parse_seqids,$mask_data,$infmt,$outfmt);
+--- a/t/dummy_blastp
++++ b/t/dummy_blastp
+@@ -1,3 +1,3 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ system("touch results.out");
+ 1;
+\ No newline at end of file
+--- a/t/dummy_cd-hit
++++ b/t/dummy_cd-hit
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ system("touch output");
+ system("touch output.clstr");
+ system("touch output.bak.clstr");
+--- a/t/dummy_makeblastdb
++++ b/t/dummy_makeblastdb
+@@ -1,4 +1,4 @@
+-#!/usr/bin/env perl
++#!/usr/bin/perl
+ system("touch output_contigs.phr");
+ system("touch output_contigs.pin");
+ system("touch output_contigs.psq");
--
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