add pantax

recipes/pantax/build.sh

@@ -0,0 +1,14 @@
+#!/usr/bin/env bash
+
+if [ "$(uname)" == "Darwin" ]; then
+    cp -rf $SRC_DIR $PREFIX
+else
+    cd ${SRC_DIR}/scripts
+    chmod +x pantax
+    chmod +x data_preprocessing
+    cp ${SRC_DIR}/scripts/pantax ${SRC_DIR}/scripts/data_preprocessing ${PREFIX}/bin
+    cp ${SRC_DIR}/scripts/*py ${PREFIX}/bin
+
+    cd ${SRC_DIR}/tools/fastix
+    RUST_BACKTRACE=1 cargo install --verbose --locked --no-track --root ${PREFIX} --path .
+fi

recipes/pantax/meta.yaml

@@ -0,0 +1,52 @@
+{% set name = "pantax" %}
+{% set version = "1.0.2" %}
+
+package:
+  name: {{ name }}
+  version: {{ version }}
+
+source:
+  - url: https://github.com/LuoGroup2023/PanTax/releases/download/v{{ version }}/{{ name }}.tar.gz  
+    sha256: 9433f3d6c5ca6870de4aa0d92cfc591973fda5f8620f5a8e9befa01f954b8dfb
+
+build:
+  skip: True  # [osx]
+  number: 0
+  run_exports:
+    - {{ pin_subpackage(name, max_pin="x") }}   
+
+requirements:
+  build:
+    - {{ compiler('rust') }}
+  host:
+    - python ==3.10
+    - pip
+  run:
+    - python =3.10
+    - samtools =1.19.2
+    - bcftools =1.19
+    - htslib =1.19.1
+    - pggb =0.6.0
+    - vg
+    - graphaligner =1.0.17 
+    - h5py =3.10.0
+    - pandas =2.2.0
+    - tqdm
+    - numpy =1.26.3
+    - networkx =3.2.1
+    - pyarrow =14.0.2
+
+test:
+  commands:
+    - pantax -h
+
+about:
+  home: https://github.com/LuoGroup2023/PanTax
+  license: GPL-3.0-or-later
+  license_file: LICENSE
+  license_family: GPL3
+  summary: Strain-level taxonomic classification of metagenomic data using pangenome graphs
+
+extra:
+  skip-lints:
+    - should_be_noarch_python