From 0db2e5c06a50f8e1caeef63647c7bf35fadebf2a Mon Sep 17 00:00:00 2001 From: dpryan79 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