| commit | 4416d3c42502c9843e001f08396fdeec2c5d484c | [log] [tgz] |
|---|---|---|
| author | Anbang Xu <anbangx@gmail.com> | Wed Jul 24 18:17:07 2013 -0700 |
| committer | Anbang Xu <anbangx@gmail.com> | Wed Jul 24 18:17:07 2013 -0700 |
| tree | 8a36c8d40758f348d59047a4d90446764a01dd48 | |
| parent | 311001a24a821f09dc750ba979d3232a1ef6b95b [diff] |
debugging p4
diff --git a/genomix/genomix-hadoop/data/webmap/8 b/genomix/genomix-hadoop/data/webmap/8 new file mode 100644 index 0000000..3959d4d --- /dev/null +++ b/genomix/genomix-hadoop/data/webmap/8
@@ -0,0 +1 @@ +1 AATAGAACTT
diff --git a/genomix/genomix-hadoop/src/main/java/edu/uci/ics/genomix/hadoop/contrailgraphbuilding/GenomixMapper.java b/genomix/genomix-hadoop/src/main/java/edu/uci/ics/genomix/hadoop/contrailgraphbuilding/GenomixMapper.java index 3b615cb..98f561f 100644 --- a/genomix/genomix-hadoop/src/main/java/edu/uci/ics/genomix/hadoop/contrailgraphbuilding/GenomixMapper.java +++ b/genomix/genomix-hadoop/src/main/java/edu/uci/ics/genomix/hadoop/contrailgraphbuilding/GenomixMapper.java
@@ -226,7 +226,7 @@ public void setCurKmerByOldNextKmer(){ curKmerDir = nextKmerDir; curForwardKmer.set(nextForwardKmer); - preReverseKmer.set(nextReverseKmer); + curReverseKmer.set(nextReverseKmer); } public void setMapperOutput(OutputCollector<KmerBytesWritable, NodeWritable> output) throws IOException{
diff --git a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/genomix/hadoop/contrailgraphbuilding/GraphBuildingTest.java b/genomix/genomix-hadoop/src/test/java/edu/uci/ics/genomix/hadoop/contrailgraphbuilding/GraphBuildingTest.java index 797efb2..42c43f8 100644 --- a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/genomix/hadoop/contrailgraphbuilding/GraphBuildingTest.java +++ b/genomix/genomix-hadoop/src/test/java/edu/uci/ics/genomix/hadoop/contrailgraphbuilding/GraphBuildingTest.java
@@ -22,13 +22,13 @@ private JobConf conf = new JobConf(); private static final String ACTUAL_RESULT_DIR = "actual"; private static final String HADOOP_CONF_PATH = ACTUAL_RESULT_DIR + File.separator + "conf.xml"; - private static final String DATA_PATH = "data/webmap/test.txt"; + private static final String DATA_PATH = "data/webmap/8"; private static final String HDFS_PATH = "/webmap"; private static final String RESULT_PATH = "/result"; // private static final int COUNT_REDUCER = 2; - private static final int SIZE_KMER = 5; - private static final int READ_LENGTH = 8; + private static final int SIZE_KMER = 3; + private static final int READ_LENGTH = 10; private MiniDFSCluster dfsCluster; private MiniMRCluster mrCluster;