Commit fc089df8 authored by Aaron's avatar Aaron
Browse files

Tweaked the includes in tabFile.h and groupBy.cpp

parent 7ba65284
......@@ -12,7 +12,7 @@ export CXXFLAGS = -Wall -O2
export LIBS = -lz
# define our source subdirectories
SUBDIRS = $(SRC_DIR)/bamToBed $(SRC_DIR)/bedToBam $(SRC_DIR)/bed12ToBed6 $(SRC_DIR)/closestBed $(SRC_DIR)/complementBed $(SRC_DIR)/coverageBed $(SRC_DIR)/fastaFromBed $(SRC_DIR)/genomeCoverageBed $(SRC_DIR)/groupBy $(SRC_DIR)/intersectBed $(SRC_DIR)/linksBed $(SRC_DIR)/maskFastaFromBed $(SRC_DIR)/mergeBed $(SRC_DIR)/overlap $(SRC_DIR)/pairToBed $(SRC_DIR)/pairToPair $(SRC_DIR)/shuffleBed $(SRC_DIR)/slopBed $(SRC_DIR)/sortBed $(SRC_DIR)/subtractBed $(SRC_DIR)/windowBed
SUBDIRS = $(SRC_DIR)/bamToBed $(SRC_DIR)/bedToBam $(SRC_DIR)/bedToIgv $(SRC_DIR)/bed12ToBed6 $(SRC_DIR)/closestBed $(SRC_DIR)/complementBed $(SRC_DIR)/coverageBed $(SRC_DIR)/fastaFromBed $(SRC_DIR)/genomeCoverageBed $(SRC_DIR)/groupBy $(SRC_DIR)/intersectBed $(SRC_DIR)/linksBed $(SRC_DIR)/maskFastaFromBed $(SRC_DIR)/mergeBed $(SRC_DIR)/overlap $(SRC_DIR)/pairToBed $(SRC_DIR)/pairToPair $(SRC_DIR)/shuffleBed $(SRC_DIR)/slopBed $(SRC_DIR)/sortBed $(SRC_DIR)/subtractBed $(SRC_DIR)/windowBed
UTIL_SUBDIRS = $(SRC_DIR)/utils/lineFileUtilities $(SRC_DIR)/utils/bedFile $(SRC_DIR)/utils/tabFile $(SRC_DIR)/utils/genomeFile $(SRC_DIR)/utils/gzstream $(SRC_DIR)/utils/bedFilePE $(SRC_DIR)/utils/sequenceUtilities $(SRC_DIR)/utils/BamTools
......
......@@ -10,6 +10,7 @@
Licenced under the GNU General Public License 2.0+ license.
******************************************************************************/
#include <vector>
#include <map>
#include <numeric>
#include <iterator>
#include <iostream>
......
......@@ -9,22 +9,14 @@
Licensed under the GNU General Public License 2.0+ license.
******************************************************************************/
#ifndef BEDFILE_H
#define BEDFILE_H
#ifndef TABFILE_H
#define TABFILE_H
#include "gzstream.h"
#include <vector>
#include <map>
#include <set>
#include <string>
#include <iostream>
#include <fstream>
#include <sstream>
#include <cstring>
#include <algorithm>
#include <limits.h>
#include <stdint.h>
#include <cstdio>
using namespace std;
// enum to flag the state of a given line in a TAB file.
......
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