From 95309487c901b2dfce8f2b77a35751b8962f2e8f Mon Sep 17 00:00:00 2001 From: Yossi Farjoun Date: Wed, 7 Jun 2017 08:36:30 -0400 Subject: [PATCH] - catching and rethrowing exceptions in threads --- src/main/java/picard/util/IlluminaUtil.java | 9 +++++++++ 1 file changed, 9 insertions(+) diff --git a/src/main/java/picard/util/IlluminaUtil.java b/src/main/java/picard/util/IlluminaUtil.java index 93696bb22..946035a2a 100644 --- a/src/main/java/picard/util/IlluminaUtil.java +++ b/src/main/java/picard/util/IlluminaUtil.java @@ -129,6 +129,15 @@ public static byte getSolexaQualityCharFromFourQualities(final String[] qualitie /** Describes adapters used on each pair of strands */ public static enum IlluminaAdapterPair implements AdapterPair { + /** The following sequences can be found in + https://support.illumina.com/content/dam/illumina-support/documents/documentation/chemistry_documentation/experiment-design/illumina-adapter-sequences_1000000002694-01.pdf + and are protected by the following copyright notice: + + Oligonucleotide sequences (c) 2016 Illumina, Inc. All rights reserved. Derivative works created by + Illumina customers are authorized for use with Illumina instruments and products only. All other + uses are strictly prohibited. + */ + PAIRED_END( "AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGACGCTCTTCCGATCT", //58 bases) "AGATCGGAAGAGCGGTTCAGCAGGAATGCCGAGACCGATCTCGTATGCCGTCTTCTGCTTG"), // 61 bases