Add patch fixing failing tests for Bowtie

parent 5c71209f
Description: adjust expected test output, bowtie-1.2.1+ returns 2000 processed
reads instead of 1000
From: Alex Mestiashvili <mailatgoogl@gmail.com>
--- bioperl-run.orig/t/Bowtie.t
+++ bioperl-run/t/Bowtie.t
@@ -185,14 +185,14 @@
ok $bowtiefac->_run( -ind => $refseq,
-seq => $rda1, -seq2 => $rda2 ), "read paired fasta sequence";
- like($bowtiefac->stderr, qr/reads processed: 1000/, "bowtie success");
+ like($bowtiefac->stderr, qr/reads processed: 2000/, "bowtie success");
$bowtiefac->reset_parameters( -fasta => 0 );
$bowtiefac->set_parameters( -fastq => 1 );
ok $bowtiefac->_run( -ind => $refseq,
-seq => $rdq1, -seq2 => $rdq2 ), "read paired fastq sequence";
- like($bowtiefac->stderr, qr/reads processed: 1000/, "bowtie success");
+ like($bowtiefac->stderr, qr/reads processed: 2000/, "bowtie success");
# test single
adjust_bowtie_tests.patch
skip_tests_for_wise.patch
skip_tests_for_phylip.patch
skip_tests_for_phyml.patch
......
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