From 3cb18f380fc7608a8e507af096e7642ba78b5778 Mon Sep 17 00:00:00 2001
From: Aaron <aaronquinlan@gmail.com>
Date: Tue, 21 Sep 2010 09:23:49 -0400
Subject: [PATCH] Updated BED struct for future fjoin alg. support.
---
Makefile | 1 +
src/utils/bedFile/bedFile.h | 13 +++++++++++--
2 files changed, 12 insertions(+), 2 deletions(-)
diff --git a/Makefile b/Makefile
index 9393e69f..9d279003 100644
--- a/Makefile
+++ b/Makefile
@@ -20,6 +20,7 @@ SUBDIRS = $(SRC_DIR)/annotateBed \
$(SRC_DIR)/complementBed \
$(SRC_DIR)/coverageBed \
$(SRC_DIR)/fastaFromBed \
+ $(SRC_DIR)/fjoin \
$(SRC_DIR)/genomeCoverageBed \
$(SRC_DIR)/groupBy \
$(SRC_DIR)/intersectBed \
diff --git a/src/utils/bedFile/bedFile.h b/src/utils/bedFile/bedFile.h
index d9cc9c15..972b6e18 100644
--- a/src/utils/bedFile/bedFile.h
+++ b/src/utils/bedFile/bedFile.h
@@ -89,6 +89,12 @@ struct BED {
// Add'l fields for BED12 and/or custom BED annotations
vector<string> otherFields;
+
+ // experimental fields for the FJOIN approach.
+ bool added;
+ bool finished;
+ // list of hits from another file.
+ vector<BED> overlaps;
public:
// constructors
@@ -101,7 +107,10 @@ public:
name(""),
score(""),
strand(""),
- otherFields()
+ otherFields(),
+ added(false),
+ finished(false),
+ overlaps()
{}
// BED3
@@ -141,10 +150,10 @@ public:
strand(strand),
otherFields(otherFields)
{}
+
}; // BED
-
/*
Structure for regular BED COVERAGE records
*/
--
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