style(#6): Run nix fmt

README.md

@@ -1,4 +1,4 @@
-# Dragmap 
+# Dragmap
 
 Dragmap is the Dragen mapper/aligner Open Source Software.
 
@@ -9,72 +9,57 @@ Dragmap is the Dragen mapper/aligner Open Source Software.
 Dragmap is available in the [Bioconda](https://anaconda.org/bioconda/dragmap) package manager.If you choose to install with bioconda, please first follow the bioconda install procedure from here:
 https://bioconda.github.io/user/install.html
 
-Once you have bioconda installed, you should be able to install Dragmap with  `conda install dragmap` (or `conda create -n myenv dragmap` to install in a new environment). This will install the `dragen-os` binary.
+Once you have bioconda installed, you should be able to install Dragmap with `conda install dragmap` (or `conda create -n myenv dragmap` to install in a new environment). This will install the `dragen-os` binary.
 
 ### Build from source
 
 #### Prerequisites
 
 Compilation was tested on CentOS 7
 
-* C++17 compatible compiler (e.g gcc-c++ >= 7.1)
-* GNU make >= 3.82
-* Boost library :  boost169-devel >= 1.69.0-1.el7
-* For unit tests : googletest (>= v1.6)
-* Hardware: x86_86, 64GB RAM minimum
-* OS: Centos >= 7.7
+- C++17 compatible compiler (e.g gcc-c++ >= 7.1)
+- GNU make >= 3.82
+- Boost library : boost169-devel >= 1.69.0-1.el7
+- For unit tests : googletest (>= v1.6)
+- Hardware: x86_86, 64GB RAM minimum
+- OS: Centos >= 7.7
 
 #### Install
 
-
 The basic procedure is
 
     make
 
 Binary will be generated in ./build/release/
 
-
 Then optionally, to install to /usr/bin/
 
     make install
 
-
-
 By default make will compile and launch unit tests. To disable unit tests, use HAS_GTEST=0, e.g. :
 
-
     HAS_GTEST=0 make
 
-
-To compile with unit tests, if google test was installed in user space, it might be required to set GTEST_ROOT and LD_LIBRARY_PATH to where gtest was installed, e.g. : 
+To compile with unit tests, if google test was installed in user space, it might be required to set GTEST_ROOT and LD_LIBRARY_PATH to where gtest was installed, e.g. :
 
     export GTEST_ROOT=/home/username/lib/gtest
     export LD_LIBRARY_PATH=/home/username/lib/gtest/lib
 
-
-
-
 #### Other variables controlling the build process:
 
+- GCC_BASE
+- CXX
+- BOOST_ROOT
+- BOOST_INCLUDEDIR
+- BOOST_LIBRARYDIR
 
-* GCC_BASE 
-* CXX 
-* BOOST_ROOT 
-* BOOST_INCLUDEDIR 
-* BOOST_LIBRARYDIR 
-
-
-
+## Basic command line usage
 
-
-## Basic command line usage 
-
-### Command line options 
+### Command line options
 
     dragen-os --help
 
-
-### Build hash table of a reference fasta file 
+### Build hash table of a reference fasta file
 
     dragen-os --build-hash-table true --ht-reference reference.fasta  --output-directory /home/data/reference/
 
@@ -84,7 +69,7 @@ To compile with unit tests, if google test was installed in user space, it might
 
 ### Align paired-end reads :
 
-Output result to standard output 
+Output result to standard output
 
     dragen-os -r /home/data/reference/ -1 reads_1.fastq.gz -2 reads_2.fastq.gz >  result.sam
 
@@ -96,7 +81,6 @@ Or directly to a file :
 
     dragen-os -r /home/data/reference/ -1 reads_1.fastq.gz  >  result.sam
 
-
 ## Pull requests
 
 We are not accepting pull requests into this repository at this time, in particular because of conflicts concerns with our internal repository. For any bug report / recommendation / feature request, please open an issue.