From e9a56fec18007341231af89b32eec9578b1ba622 Mon Sep 17 00:00:00 2001
From: canfirtina <canfirtina@gmail.com>
Date: Tue, 4 Jul 2023 16:50:39 +0200
Subject: [PATCH] Test README fixes

---
 README.md      | 13 +++++++++++--
 test/README.md |  7 ++++++-
 2 files changed, 17 insertions(+), 3 deletions(-)

diff --git a/README.md b/README.md
index fd25191..10bbc7c 100644
--- a/README.md
+++ b/README.md
@@ -162,13 +162,22 @@ To cite RawHash, you can use the following BibTeX:
 ```bibtex
 @article{firtina_rawhash_2023,
 	title = {{RawHash}: {Enabling} {Fast} and {Accurate} {Real}-{Time} {Analysis} of {Raw} {Nanopore} {Signals} for {Large} {Genomes}},
-	doi = {10.1093/bioinformatics/btad272},
+	author = {Firtina, Can and Mansouri Ghiasi, Nika and Lindegger, Joel and Singh, Gagandeep and Cavlak, Meryem Banu and Mao, Haiyu and Mutlu, Onur},
 	journal = {Bioinformatics},
-	author = {Firtina, Can and Ghiasi, Nika Mansouri and Lindegger, Joel and Singh, Gagandeep and Cavlak, Meryem Banu and Mao, Haiyu and Mutlu, Onur},
+	volume = {39},
+	number = {Supplement_1},
+	pages = {i297-i307},
+	year = {2023},
+	month = jun,
 	year = {2023},
+	doi = {10.1093/bioinformatics/btad272},
+	issn = {1367-4811},
+	url = {https://doi.org/10.1093/bioinformatics/btad272},
 }
 ```
 
 # Acknowledgement
 
 RawHash uses [klib](https://github.com/attractivechaos/klib), some code snippets from [Minimap2](https://github.com/lh3/minimap2) (e.g., pipelining, hash table usage) and [Sigmap](https://github.com/haowenz/sigmap) (e.g., chaining).
+
+We thank [Melina Soysal](https://github.com/melina2200) and [Marie-Louise Dugua](https://github.com/MarieSarahLouise) for their feedback to improve the RawHash implementation and test scripts.
diff --git a/test/README.md b/test/README.md
index 92e63cb..907ec2f 100644
--- a/test/README.md
+++ b/test/README.md
@@ -35,11 +35,16 @@ mkdir -p rawhash-env/bin && cd rawhash-env
 
 #Optional Step 0 Creating a conda environment (Note we highly recommend using conda for easy installation of dependencies).
 #If not using conda, the packages with the specified versions below (e.g.,  python=3.6.15) must be installed manually in your environment
+conda config --add channels defaults
+conda config --add channels bioconda
+conda config --add channels conda-forge
+conda config --set channel_priority strict
+
 conda create -n rawhash-env python=3.6.15 pip=20.2.3 ont_vbz_hdf_plugin=1.0.1
 conda activate rawhash-env
 
 #Installing SRA Toolkit
-wget -qO- https://ftp-trace.ncbi.nlm.nih.gov/sra/sdk/current/sratoolkit.current-ubuntu64.tar.gz | tar xzv; cp -r ./sratoolkit.3.0.1-ubuntu64/bin/* bin/; rm -rf sratoolkit.3.0.1-ubuntu64
+wget -qO- https://ftp-trace.ncbi.nlm.nih.gov/sra/sdk/3.0.1/sratoolkit.3.0.1-ubuntu64.tar.gz | tar xzv; cp -r ./sratoolkit.3.0.1-ubuntu64/bin/* bin/; rm -rf sratoolkit.3.0.1-ubuntu64
 
 #Step 1 Compiling the tools
 #Cloning and compiling RawHash