From 2d76f672cd70c0fcfd918d48633e166c5a9b46eb Mon Sep 17 00:00:00 2001
From: Andrew D Smith <andrewds@usc.edu>
Date: Thu, 12 Jun 2025 20:20:57 -0700
Subject: [PATCH 1/3] .github/workflows/abismal_release_macos.yml: accidentally
 installing gsl which is not needed or used

---
 .github/workflows/abismal_release_macos.yml | 6 ++----
 1 file changed, 2 insertions(+), 4 deletions(-)

diff --git a/.github/workflows/abismal_release_macos.yml b/.github/workflows/abismal_release_macos.yml
index dcc7d56..ea648bf 100644
--- a/.github/workflows/abismal_release_macos.yml
+++ b/.github/workflows/abismal_release_macos.yml
@@ -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
@@ -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: |

From 89646a98a1a1ca7e26777ec2148b3d6dd55a776c Mon Sep 17 00:00:00 2001
From: Andrew D Smith <andrewds@usc.edu>
Date: Thu, 12 Jun 2025 20:21:20 -0700
Subject: [PATCH 2/3] .github/workflows/abismal_release_linux.yml: adding
 threads to make for htslib

---
 .github/workflows/abismal_release_linux.yml | 4 ++--
 1 file changed, 2 insertions(+), 2 deletions(-)

diff --git a/.github/workflows/abismal_release_linux.yml b/.github/workflows/abismal_release_linux.yml
index d286e07..78acf9c 100644
--- a/.github/workflows/abismal_release_linux.yml
+++ b/.github/workflows/abismal_release_linux.yml
@@ -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 && \
@@ -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

From 241155c6955fc0687b96f2514a154cd9ce3bd5f8 Mon Sep 17 00:00:00 2001
From: Andrew D Smith <andrewds@usc.edu>
Date: Thu, 12 Jun 2025 20:23:17 -0700
Subject: [PATCH 3/3] .github/workflows/abismal_distcheck_ubuntu.yml: properly
 naming the distcheck step

---
 .github/workflows/abismal_distcheck_ubuntu.yml | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/.github/workflows/abismal_distcheck_ubuntu.yml b/.github/workflows/abismal_distcheck_ubuntu.yml
index 8b93039..f3272e3 100644
--- a/.github/workflows/abismal_distcheck_ubuntu.yml
+++ b/.github/workflows/abismal_distcheck_ubuntu.yml
@@ -8,7 +8,7 @@ on:
     branches: [ "master" ]
 
 jobs:
-  build:
+  distcheck:
     runs-on: ubuntu-latest
     steps:
     - uses: actions/checkout@v4