1.0.2 Fix minor bug relating to HLA panel construction

rwdavies · Dec 24, 2021 · 510cb26 · 510cb26
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -1,3 +1,5 @@
+* v1.0.2
+	* Fix minor but that prevented HLA reference panel from building on new reference data
 * v1.0.1
 	* Fix minor but that prevented HLA reference panel from building
 * v1.0.0

diff --git a/QUILT/DESCRIPTION b/QUILT/DESCRIPTION
@@ -1,8 +1,8 @@
 Package: QUILT
 Type: Package
 Title: QUILT
-Version: 1.0.1
-Date: 2021-09-20
+Version: 1.0.2
+Date: 2021-12-24
 Author: Robert William Davies
 Maintainer: Robert William Davies <[email protected]>
 Description: QUILT performs imputation of individuals sequenced to low coverage

diff --git a/README.md b/README.md
@@ -1,13 +1,13 @@
 QUILT
 =====
-**__Current Version: 1.0.1__**
-Release date: Sept 20, 2021
+**__Current Version: 1.0.2__**
+Release date: Dec 24, 2021
 
 [![Build Status](https://img.shields.io/travis/rwdavies/QUILT/master.svg)](https://travis-ci.com/rwdavies/QUILT/)
 
 Changes in latest version
 
-1. Fix minor but that prevented HLA reference panel from building
+1. Fix minor but that prevented HLA reference panel from building on new reference data
 
 For details of past changes please see [CHANGELOG](CHANGELOG.md).
 
@@ -53,8 +53,8 @@ git clone --recursive https://github.com/rwdavies/QUILT.git
 cd QUILT
 ./scripts/install-dependencies.sh
 cd releases
-wget https://github.com/rwdavies/quilt/releases/download/1.0.0/QUILT_1.0.0.tar.gz ## or curl -O
-R CMD INSTALL QUILT_1.0.0.tar.gz
+wget https://github.com/rwdavies/quilt/releases/download/1.0.2/QUILT_1.0.2.tar.gz ## or curl -O
+R CMD INSTALL QUILT_1.0.2.tar.gz
 ```
 
 ### conda <a name="paragraph-installation-conda"></a>

diff --git a/README_QUILT-HLA.md b/README_QUILT-HLA.md
@@ -114,6 +114,12 @@ Max N=5132 haplotyes built using QUILT 0.1.5, IPD-IGMT version 3.39, 1000 Genome
 http://www.stats.ox.ac.uk/~rdavies/QUILT_HLA_reference_package_2021_04_09.tar
 ```
 
+Max N=5132 haplotyes built using QUILT 1.0.1, IPD-IGMT version 3.43, 1000 Genomes Project haplotypes (20201028), and 1000 Genomes Project HLA types (20181129). 
+```
+http://www.stats.ox.ac.uk/~rdavies/QUILT_HLA_reference_package_2021_12_24.tar
+```
+
+
 ## Preparing a reference package <a name="paragraph-preparing"></a>
 
 An example of this is presented in detail in [example/QUILT_hla_reference_panel_construction.Md](example/QUILT_hla_reference_panel_construction.Md), which was used to make the reference panel package from 1000 Genomes Project data presented above.
diff --git a/example/QUILT_hla_reference_panel_construction.Md b/example/QUILT_hla_reference_panel_construction.Md
@@ -9,7 +9,7 @@ Where you want to store the files as you work on them, and where the output file
 ```
 inputs_dir=/data/smew1/rdavies/quilt_hla_2021_12_24_3430/
 test_dir=/data/smew1/rdavies/quilt_hla_2021_12_24_3430/
-reference_package_dir=/data/smew1/rdavies/quilt_hla_2021_12_24_3430/quilt_hla_reference_panel_files/
+reference_package_dir=/data/smew1/rdavies/quilt_hla_2021_12_24_3430/quilt_hla_reference_panel_files_2021_12_24/
 mkdir -p ${test_dir}
 mkdir -p ${inputs_dir}
 mkdir -p ${reference_package_dir}