Preparing 0.5.0 release

Author: leoisl

CHANGELOG.md

@@ -6,7 +6,14 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## [Unreleased]
 
-## [0.4.0] - 2022-22-11
+## [0.5.0] - 2023-07-18
+
+### Fixed
+
+- Properly handling Ns in the MSA, and in the denovo sequences (see [PR #60](https://github.com/iqbal-lab-org/make_prg/pull/60)
+and [PR #61](https://github.com/iqbal-lab-org/make_prg/pull/61) for more details);
+
+## [0.4.0] - 2022-11-22
 
 ### Added
 - `make_prg update` command, that updates PRGs without requiring to rebuild MSAs and the PRG itself from scratch;
@@ -103,8 +110,9 @@ operations.
   source project CHANGELOG.
 
 
-[Unreleased]: https://github.com/iqbal-lab-org/make_prg/compare/0.4.0...HEAD
+[Unreleased]: https://github.com/iqbal-lab-org/make_prg/compare/0.5.0...HEAD
 
+[0.5.0]: https://github.com/iqbal-lab-org/make_prg/compare/0.4.0...0.5.0
 [0.4.0]: https://github.com/iqbal-lab-org/make_prg/compare/0.2.0...0.4.0
 [0.2.0]: https://github.com/iqbal-lab-org/make_prg/compare/0.1.1...0.2.0
 [0.1.1]: https://github.com/iqbal-lab-org/make_prg/compare/0.1.0...0.1.1

Dockerfile

@@ -1,6 +1,6 @@
-# To build: docker build . -t make_prg:0.4.0
+# To build: docker build . -t make_prg:0.5.0
 # Tagged as such, it can be used in scripts/build_precompiled_binary/build_precompiled_binary.sh to build the precompiled binary
-FROM python:3.10-slim
+FROM python:3.8-slim
 
 ENV DEBIAN_FRONTEND=noninteractive
 

README.md

@@ -37,13 +37,13 @@ In this binary, all libraries are linked statically. Compilation is done using [
 
 #### Download
 ```
-wget https://github.com/iqbal-lab-org/make_prg/releases/download/0.4.0/make_prg_0.4.0
+wget https://github.com/iqbal-lab-org/make_prg/releases/download/0.5.0/make_prg_0.5.0
 ```
 
 #### Run
 ```
-chmod +x make_prg_0.4.0
-./make_prg_0.4.0 -h
+chmod +x make_prg_0.5.0
+./make_prg_0.5.0 -h
 ```
 
 ### pip
@@ -77,7 +77,7 @@ The above will use the latest version. If you want to specify a version then use
 [tag][quay.io] (or commit) like so.
 
 ```sh
-VERSION="0.4.0"
+VERSION="0.5.0"
 URI="docker://quay.io/iqballab/make_prg:${VERSION}"
 ```
 

pyproject.toml

@@ -1,6 +1,6 @@
 [tool.poetry]
 name = "make_prg"
-version = "0.4.0"
+version = "0.5.0"
 description = "Code to create a PRG from a Multiple Sequence Alignment file"
 authors = ["Michael Hall <michael@mbh.sh>", "Leandro Ishi <leandro@ebi.ac.uk>", "Brice Letcher <bletcher@ebi.ac.uk>",
            "Rachel Colquhoun <rachel.colquhoun@ed.ac.uk>"]

sample_example/run_make_prg_on_sample_example.sh

@@ -2,9 +2,9 @@
 set -eu
 
 # configs
-version="0.4.0"
+version="0.5.0"
 make_prg="./make_prg_${version}"
-make_prg_URL="https://github.com/iqbal-lab-org/make_prg/releases/download/0.4.0/make_prg_0.4.0"
+make_prg_URL="https://github.com/iqbal-lab-org/make_prg/releases/download/${version}/make_prg_${version}"
 
 
 if [ ! -f ${make_prg} ]; then

scripts/build_precompiled_binary/build_precompiled_binary.sh

@@ -1,7 +1,7 @@
 #!/usr/bin/env bash
 set -eu
 
-version="0.4.0"
+version="0.5.0"
 
 CURRENT_DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
 SCRIPTS_DIR="$(dirname "${CURRENT_DIR}")"