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Update clair3-illumina to 1.0.7 (bioconda#47036)
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* Update clair3-illumina to 1.0.7

* try pinning snippy to <1.2.0

* fix meta.yaml formatting

* remove snippy pinning

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Co-authored-by: mencian <[email protected]>
Co-authored-by: Joshua Zhuang <[email protected]>
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3 people authored Apr 9, 2024
1 parent e0c1c31 commit 1907180
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Showing 2 changed files with 11 additions and 7 deletions.
4 changes: 0 additions & 4 deletions recipes/clair3-illumina/build.sh
Original file line number Diff line number Diff line change
Expand Up @@ -5,7 +5,3 @@ cp -rv preprocess/realign $PREFIX/bin/preprocess
cd $PREFIX/bin/preprocess/realign
$CXX -std=c++14 -O1 -shared -fPIC -o realigner ssw_cpp.cpp ssw.c realigner.cpp
$CXX -std=c++11 -shared -fPIC -o debruijn_graph -O3 debruijn_graph.cpp -I $PREFIX/include -L $PREFIX/lib




14 changes: 11 additions & 3 deletions recipes/clair3-illumina/meta.yaml
Original file line number Diff line number Diff line change
@@ -1,26 +1,28 @@
{% set name = "clair3-illumina" %}
{% set version = "1.0.6" %}
{% set version = "1.0.7" %}

package:
name: {{ name }}
version: {{ version }}

source:
url: https://github.com/HKU-BAL/Clair3/archive/refs/tags/v{{ version }}.zip
sha256: 30821ae909e4d28d5ca01594873b7977690cc2e63f5777b5d6799ec86660e370
sha256: 4c48146a1a9c0af547444719f443f8f536f5ce51b2f0c426107ef4288b31a4f2

build:
number: 0
skip: True # [osx]
run_exports:
- {{ pin_subpackage(name, max_pin="x.x") }}
- {{ pin_subpackage(name, max_pin="x") }}

requirements:
build:
- {{ compiler('cxx') }}
host:
- boost-cpp
run:
- clair3

test:
imports:
- tensorflow
Expand All @@ -31,5 +33,11 @@ test:
about:
home: 'https://github.com/HKU-BAL/Clair3'
license: BSD-3-Clause
license_family: BSD
license_file: LICENSE.md
summary: "Clair3 with libraries to support variant calling using Illumina short-reads. Version in sync with Clair3."
dev_url: 'https://github.com/HKU-BAL/Clair3'

extra:
identifiers:
- doi:10.1038/s43588-022-00387-x

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