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Remove internal FastaReader/FastaSequence and replace this with classes from JABAWS
[proteocache.git]
/
datadb
/
compbio
/
cassandra
/
JpredParserLocalFile.java
diff --git
a/datadb/compbio/cassandra/JpredParserLocalFile.java
b/datadb/compbio/cassandra/JpredParserLocalFile.java
index
4b254ae
..
f48178c
100644
(file)
--- a/
datadb/compbio/cassandra/JpredParserLocalFile.java
+++ b/
datadb/compbio/cassandra/JpredParserLocalFile.java
@@
-15,19
+15,22
@@
import java.util.Calendar;
import java.util.Date;
import java.util.List;
import java.util.Date;
import java.util.List;
+import compbio.data.sequence.FastaReader;
+import compbio.data.sequence.FastaSequence;
+
public class JpredParserLocalFile implements JpredParser {
public class JpredParserLocalFile implements JpredParser {
- private CassandraNativeConnector cc = new CassandraNativeConnector();
+ private CassandraWriter cw = new CassandraWriter();
private String dirprefix;
public void setSource(String newsourceprefix) {
this.dirprefix = newsourceprefix;
}
private String dirprefix;
public void setSource(String newsourceprefix) {
this.dirprefix = newsourceprefix;
}
- JpredParserLocalFile() {
+ public JpredParserLocalFile() {
this.dirprefix = "/home/asherstnev/Projects/Java.projects/proteocache/data_stress_test/data.dat";
}
this.dirprefix = "/home/asherstnev/Projects/Java.projects/proteocache/data_stress_test/data.dat";
}
- JpredParserLocalFile(String sourceurl) {
+ public JpredParserLocalFile(String sourceurl) {
this.dirprefix = sourceurl;
}
this.dirprefix = sourceurl;
}
@@
-103,7
+106,7
@@
public class JpredParserLocalFile implements JpredParser {
} catch (ParseException e) {
e.printStackTrace();
}
} catch (ParseException e) {
e.printStackTrace();
}
- countinsertions += cc.FormQueryTables(insertdate, starttime, finishtime, ip, id, "OK", "OK", newprotein, seqs);
+ //countinsertions += cw.FormQueryTables(insertdate, starttime, finishtime, ip, id, "OK", "OK", newprotein, seqs);
}
fr.close();
} catch (IOException e) {
}
fr.close();
} catch (IOException e) {