From 2c4d9fd2b393baa68e006a265f92aff5b5392317 Mon Sep 17 00:00:00 2001
From: tcarver <tjc>
Date: Wed, 18 Jan 2012 15:14:23 +0000
Subject: [PATCH] changes for multi-allele calls
---
.../artemis/components/variant/WriteVCFTest.java | 10 +++++-----
1 file changed, 5 insertions(+), 5 deletions(-)
diff --git a/test/uk/ac/sanger/artemis/components/variant/WriteVCFTest.java b/test/uk/ac/sanger/artemis/components/variant/WriteVCFTest.java
index 6fb0047c6..5222ac9f0 100644
--- a/test/uk/ac/sanger/artemis/components/variant/WriteVCFTest.java
+++ b/test/uk/ac/sanger/artemis/components/variant/WriteVCFTest.java
@@ -391,7 +391,7 @@ public class WriteVCFTest
basesBuff.append("aagaaaggatataaaattgatatatttttaaatttttcttatatgaataatgaatataat");
basesBuff.append("gacaaatttaattttattcaattagttactgaaatttttaataaaaataataatgtaatg");
basesBuff.append("tttagaaatgaaaaattatatatgaataataataattatgaatttataaagaaattacat");
- basesBuff.append("ttatttttaaatgctcctttttatttttttaatatgtttaataataacacaaaagaaatt");
+ basesBuff.append("ttatttttaaatgctcctttttatttttttaatatgtttaataataakacaaaagaaatt"); // multi-allele
basesBuff.append("cgattagtacatgattataaatatacgacgaatttttataaaattcaaatatatatatac");
basesBuff.append("ccaccgatacaaatacataaagcttctatcgttattcttgtctacgttaattttatatat");
basesBuff.append("tattacatgtataattatccttttgtgttcttttatatttttgtttttttcttgagcttc");
@@ -424,17 +424,17 @@ public class WriteVCFTest
basesBuff.append("gataataataatagtaataatagcaataataataataataataataataataatagtaat");
basesBuff.append("gaatatacaaaaagaaagaatacacataaaaaacatttaaatgaacactataaaaatgag");
basesBuff.append("agtaataagaaaaaggttaatgaaaagaaatacaataatagtgtgtatgttaataataat");
- basesBuff.append("ataaagaaaaatcatgtaaacaaaaataaaaatgaaaattatttacaaaatgtgtggtta");
- basesBuff.append("tttttattcgataatgaagttagaaaagaaaatgaacaatgtgttggaaaaattatatca");
+ basesBuff.append("ataaagaaaaatcatgtmaacaaaaataaaaatgaaaattatttacaaaatgtgtggtta"); // multi-allele m = A or C
+ basesBuff.append("tttttattcgataatgaagttagaaaagaaaatgamcaatgtgttggaaaaattatatca"); // multi-allele
basesBuff.append("ctggatactttcaataccatagaaaaattttacaagaactataaatatatgaaatcgcct");
- basesBuff.append("tcagccattaaggaatactacaacatttatctttttaaacataattttagacccctcttt");
+ basesBuff.append("tcagccattaaggaawamtacaacatttatctttttaaacawaattttagacccctcttt"); // multi-allele
basesBuff.append("gacgaatatccaaatggttttatttgtaccgttaaaaatgccaatcattttaaaaatgac");
basesBuff.append("agcgttgatataatatgggaaaaaatggttcttttggctataggagaagaatttagctta");
basesBuff.append("atcgacttatgtggtttacaattatgcataagagataatgaaatgttttttaaaatatgg");
basesBuff.append("atgaaaaattattcaaattatctaaaaaatatattgatgaaaaaattaagggacgcctac");
basesBuff.append("aatgtatacaataacaaaaaaaatcaacaaggaaagggaaaaaatgaaaaggctaaaaag");
basesBuff.append("aattacaataaaaataataagggcgcagaatttgtagctagtaaaaaggattctttaaaa");
- basesBuff.append("atgcataattatccaaacatagtaccaccaccaaattatttaggaaattactatgtttac");
+ basesBuff.append("atgcataattatccaaacatagtaccaccaccaaattatttaggaaattacwatgtttac"); // multi-allele
basesBuff.append("aaatacaacctagatatgaatttgttttatttatataataatcaaaatatgcctaacccg");
basesBuff.append("tatatatacattcctgtcaatgtacccaataatcaatataataatatttatccagattat");
basesBuff.append("atgtacgacagtaatacgagctatcctatagatataattaataataatttattaagtaat");
--
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