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Update medaka to 1.12.0 #48523

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Update medaka to 1.12.0 #48523

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aa89b02
Update medaka to 1.12.0
BiocondaBot Jun 17, 2024
a995c2a
clean up recipe
mencian Jun 17, 2024
61f3e0b
Merge branch 'master' into bump/medaka
aliciaaevans Jul 1, 2024
476a685
medaka: Update libcurl to 8.x and openssl to 3.x
martin-g Jul 2, 2024
b98727c
Revert back to openssl 1.1.1
martin-g Jul 2, 2024
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364 changes: 0 additions & 364 deletions recipes/medaka/LICENSE.md
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8 changes: 5 additions & 3 deletions recipes/medaka/build.sh
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Original file line number Diff line number Diff line change
@@ -1,10 +1,10 @@
#!/bin/bash
#!/bin/bash -euo

export INCLUDE_PATH="${PREFIX}/include"
export LIBRARY_PATH="${PREFIX}/lib"
export LDFLAGS="${LDFLAGS} -L${PREFIX}/lib"

export CFLAGS="-I${PREFIX}/include ${LDFLAGS}"
export CFLAGS="${CFLAGS} -O3 -I${PREFIX}/include ${LDFLAGS}"

# disable Makefile driven build of htslib.a
sed -i.bak "s/'build_ext': HTSBuild//" setup.py
Expand All @@ -13,4 +13,6 @@ sed -i.bak "s/'build_ext': HTSBuild//" setup.py
sed -i.bak 's/extra_objects.*//' build.py
sed -i.bak 's/^libraries=\[/libraries=\["hts",/' build.py

$PYTHON -m pip install . --no-deps --ignore-installed -vvv
rm -rf *.bak

${PYTHON} -m pip install . --no-deps --no-build-isolation --no-cache-dir -vvv
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