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Update paragraph to 2.3 #16539

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merged 4 commits into from
Aug 29, 2019
Merged

Update paragraph to 2.3 #16539

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2dc3cbe
Update paragraph to 2.3
BiocondaBot Jul 25, 2019
b80e136
restructure for a newer boost
dpryan79 Aug 29, 2019
ff54a49
experiment
dpryan79 Aug 29, 2019
7a807c6
The last experiment failed
dpryan79 Aug 29, 2019
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3 changes: 2 additions & 1 deletion recipes/paragraph/build.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -5,10 +5,11 @@ sed -i.bak "s/-Werror //" src/cmake/cxx.cmake

# external htslib.a means we need -lz and co
sed -i.bak "s/\${LIBLZMA_LIBRARIES}/\${LIBLZMA_LIBRARIES} \${LIBBZIP2_LIBRARIES} \${LIBZLIB_LIBRARIES}/;s/libhts.a/libhts.so/" src/cmake/GetHtslib.cmake
sed -i.bak "53d" CMakeLists.txt

mkdir build
pushd build
export HTSLIB_INSTALL_PATH=${PREFIX}
cmake ../ -DCMAKE_CXX_COMPILER=${CXX} -DCMAKE_C_COMPILER=${CC} -DBOOST_ROOT=${PREFIX} -DCMAKE_INSTALL_PREFIX=${PREFIX} -DHTSLIB_INSTALL_PATH=${PREFIX} -DCMAKE_CXX_FLAGS="${CXXFLAGS} -Wno-deprecated-declarations"
cmake ../ -DCMAKE_CXX_COMPILER=${CXX} -DCMAKE_C_COMPILER=${CC} -DBOOST_ROOT=${BUILD_PREFIX} -DCMAKE_INSTALL_PREFIX=${PREFIX} -DHTSLIB_INSTALL_PATH=${PREFIX} -DCMAKE_CXX_FLAGS="${CXXFLAGS} -Wno-deprecated-declarations"
make
make install
12 changes: 5 additions & 7 deletions recipes/paragraph/meta.yaml
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@@ -1,32 +1,30 @@
{% set name = "paragraph" %}
{% set version = "2.2b" %}
{% set version = "2.3" %}

package:
name: "{{ name|lower }}"
version: "{{ version }}"

source:
url: https://github.com/Illumina/{{ name }}/archive/v{{ version }}.tar.gz
sha256: 9ee8f566c1c8159e3ec850dd682739c9913e540a66d9dd610e0cfc51a526bddc
sha256: 6394314e42005026893a305362a1fed58d37f2ca02ed5fc6c54d4c5d12caf1eb

build:
skip: True # [py27 or osx]
skip: True # [osx]
number: 0

requirements:
build:
- "{{ compiler('c') }}"
- "{{ compiler('cxx') }}"
- cmake
host:
- python
- boost-cpp
- boost
host:
- htslib
- zlib
- bzip2
run:
- python
- python >=3
- htslib
- zlib
- bzip2
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