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Workflow bugfixes #77

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Merged
andrewdavidsmith merged 3 commits into from
Jun 13, 2025
Merged

Workflow bugfixes #77

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2d76f67
.github/workflows/abismal_release_macos.yml: accidentally installing …
andrewdavidsmith Jun 13, 2025
89646a9
.github/workflows/abismal_release_linux.yml: adding threads to make f…
andrewdavidsmith Jun 13, 2025
241155c
.github/workflows/abismal_distcheck_ubuntu.yml: properly naming the d…
andrewdavidsmith Jun 13, 2025
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2 changes: 1 addition & 1 deletion .github/workflows/abismal_distcheck_ubuntu.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -8,7 +8,7 @@ on:
branches: [ "master" ]

jobs:
build:
distcheck:
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v4
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4 changes: 2 additions & 2 deletions .github/workflows/abismal_release_linux.yml
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Expand Up @@ -35,7 +35,7 @@ jobs:
--disable-lzma \
--disable-ref-cache \
LDADD="-L/usr/local/lib" && \
make CFLAGS="-Wall -O2 -fvisibility=hidden" libhts.a && \
make -j4 CFLAGS="-Wall -O2 -fvisibility=hidden" libhts.a && \
cp libhts.a /usr/local/lib/ && \
cp -r ../htslib /usr/local/include/ && \
cd /workspace && \
Expand All @@ -48,7 +48,7 @@ jobs:
- name: Get version number
id: get-vn
run: |
awk '/AC_INIT/ {print "vn="$2}' configure.ac | sed -e "s/\[//; s/\]//; s/,//" >> "$GITHUB_OUTPUT"
awk '/AC_INIT/ {print "vn="$2}' configure.ac | sed "s/\[//; s/\]//; s/,//" >> "$GITHUB_OUTPUT"
env:
GH_TOKEN: ${{ github.token }}
- name: Upload the binary
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6 changes: 2 additions & 4 deletions .github/workflows/abismal_release_macos.yml
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Expand Up @@ -17,11 +17,9 @@ jobs:
run: sudo mkdir -p /opt/abismal/lib /opt/abismal/include
- name: Install dependency headers and static libs
run: |
brew install zlib gsl automake
brew install zlib automake
sudo cp $(brew --prefix zlib)/lib/*.a /opt/abismal/lib
sudo cp $(brew --prefix gsl)/lib/*.a /opt/abismal/lib
sudo cp -r $(brew --prefix zlib)/include/* /opt/abismal/include
sudo cp -r $(brew --prefix gsl)/include/* /opt/abismal/include
- name: Build and install HTSlib
run: |
git clone --recursive https://github.com/samtools/htslib.git
Expand All @@ -36,7 +34,7 @@ jobs:
--disable-ref-cache \
--without-libdeflate \
LDADD="-L/usr/local/lib"
make CFLAGS="-Wall -O2 -fvisibility=hidden" libhts.a
make -j4 CFLAGS="-Wall -O2 -fvisibility=hidden" libhts.a
sudo cp libhts.a /opt/abismal/lib
- name: Build abismal
run: |
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