From 4afed02bbcb406d8c634153bf6d641eaadb029fb Mon Sep 17 00:00:00 2001
From: Robert Leach <rleach@princeton.edu>
Date: Tue, 17 Dec 2019 16:25:53 -0500
Subject: [PATCH] Added dependencies in the install instructions

Change as necessary. This is just what I had to do to get it to install on springdale7.
---
 README.md | 13 ++++++++++++-
 1 file changed, 12 insertions(+), 1 deletion(-)

diff --git a/README.md b/README.md
index 9809f75..13b7a5e 100644
--- a/README.md
+++ b/README.md
@@ -11,7 +11,18 @@ Additional software needed:
 
 To install all dependencies, try running `install_dependencies.sh`, which installs dependencies to `~/split_seq_reqs/`.
 
-To install the package: run `pip install -e .` (might need sudo).
+To install the package, run:
+
+```
+git clone https://github.com/Alex-Rosenberg/split-seq-pipeline.git
+cd split-seq-pipeline
+export HTSLIB_CONFIGURE_OPTIONS=--disable-bz2
+pip install cython
+pip install pandas
+pip install scipy
+pip install matplotlib
+pip install -e . (might need sudo).
+```
 
 ## Generating a reference genome
 Download human reference genome<br>