From 0db2e5c06a50f8e1caeef63647c7bf35fadebf2a Mon Sep 17 00:00:00 2001
From: dpryan79 <dpryan@dpryan.com>
Date: Mon, 25 Aug 2014 15:36:29 +0200
Subject: [PATCH] Tweak README
---
Makefile | 4 ++--
README.md | 7 +++----
2 files changed, 5 insertions(+), 6 deletions(-)
diff --git a/Makefile b/Makefile
index 518721a..57e5cc6 100644
--- a/Makefile
+++ b/Makefile
@@ -1,11 +1,11 @@
-#Please see the README file or Tutorial for help in setting these options.
+#Please see the tutorial (http://sourceforge.net/projects/dna-bison/files/bison_tutorial.tar.gz/download) for help in setting these options.
WORK=/home/ryand#This should be changed to match your needs
PREFIX = $(WORK)/bin
CC = mpicc
HTSLIB=true
INCLUDE_DIRS = -I$(WORK)/include
LIB_DIRS = -L$(WORK)/libs
-OPTS := -Wall -O3 -g #-g -DDEBUG -DNOTHROTTLE
+OPTS := -Wall -O3 #-g -DDEBUG -DNOTHROTTLE
#MPI = -lmpich -lmpl #This is usually appropriate for mpich2
#MPI = #This is appropriate for mvapich2
MPI = -lmpi #This is usually appropriate for openmpi
diff --git a/README.md b/README.md
index 5a6d847..124e0ca 100644
--- a/README.md
+++ b/README.md
@@ -284,8 +284,7 @@ even when limited to the same resources.
* Added bedGraph2MOABS to convert bedGraph files for use by MOABS. See usage
above.
- * Added support for HTS-lib (you'll need to add -DHTSLIB to the OPTS line of
- the Makefile).
+ * Added support for HTSlib.
* Fixed a small bug wherein --reorder wasn't being invoked when multiple
output BAM files were to be used.
@@ -294,8 +293,8 @@ even when limited to the same resources.
* There is now a [tutorial](http://sourceforge.net/projects/dna-bison/files/bison_tutorial.tar.gz/download).
- * The default minimum MAPQ and Phred scores used by bison_mbias have been
- updated to match bison_methylation_extractor.
+ * The default minimum MAPQ and Phred scores used by `bison_mbias` have been
+ updated to match `bison_methylation_extractor`.
###0.3.1
* The various bedGraph files didn't previously have a "track" line. The UCSC