Add a new recipe for shigapass (bioconda#47806)

* Added a new recipe for shigapass

* Updated tests

* updated build requirements

recipes/shigapass/build.sh

@@ -0,0 +1,29 @@
+#!/bin/bash
+
+# Copy shell script to bin
+mkdir -p $PREFIX/bin
+cp SCRIPT/ShigaPass.sh $PREFIX/bin
+
+# Create folder to copy database to
+target=${PREFIX}/share/${PKG_NAME}-${PKG_VERSION}
+mkdir -p ${target}/db
+touch ${target}/db/.empty
+
+# Unzip test files
+gunzip Example/Input/*.fasta.gz
+
+# Build index
+bash SCRIPT/ShigaPass.sh -l Example/Input/ShigaPass_test.txt -o Example/ShigaPass_Results -p SCRIPT/ShigaPass_DataBases -u -k
+
+# Copy ShigaPass db to target
+cp -r SCRIPT/ShigaPass_DataBases/* ${target}/db
+
+# Set ShigaPass DB PATH variable on env activation
+mkdir -p ${PREFIX}/etc/conda/activate.d ${PREFIX}/etc/conda/deactivate.d
+cat <<EOF >> ${PREFIX}/etc/conda/activate.d/shigapass.sh
+export SP_DB_PATH=${target}/db/
+EOF
+
+cat <<EOF >> ${PREFIX}/etc/conda/deactivate.d/shigapass.sh
+unset SP_DB_PATH
+EOF

recipes/shigapass/meta.yaml

@@ -0,0 +1,34 @@
+{% set name = "ShigaPass" %}
+{% set version = "1.5.0" %}
+
+package:
+  name: "{{ name|lower }}"
+  version: {{ version }}
+
+source:
+  url: https://github.com/imanyass/{{ name }}/archive/refs/tags/v{{ version }}.tar.gz
+  sha256: b07299943cd7bbe1f778b57152b6cd7e92cc8640ffd7192fde91dd1efcc99ead
+
+build:
+  number: 0
+  noarch: generic
+  run_exports:
+    - {{ pin_subpackage('shigapass', max_pin="x") }}
+
+requirements:
+  build:
+    - blast
+  run:
+    - blast
+
+test:
+  commands:
+    - blastn -h
+    - makeblastdb -h
+    - bash ShigaPass.sh -h
+
+about:
+  home: https://github.com/imanyass/ShigaPass/
+  license: GPL3
+  summary: 'ShigaPass: An in silico tool to predict Shigella serotypes'
+  license_file: LICENSE