From 1c179e93a8149509d0a732f629c355fe4855320f Mon Sep 17 00:00:00 2001
From: John Blischak <jdblischak@gmail.com>
Date: Fri, 30 Aug 2024 15:07:15 -0400
Subject: [PATCH] Build TileDB-VCF-Py on Windows without conda

---
 .github/workflows/windows.yml               | 34 +++++++++------------
 libtiledbvcf/cmake/Modules/FindHTSlib.cmake |  4 +--
 2 files changed, 17 insertions(+), 21 deletions(-)

diff --git a/.github/workflows/windows.yml b/.github/workflows/windows.yml
index 9c14fee05..8c5242f2b 100644
--- a/.github/workflows/windows.yml
+++ b/.github/workflows/windows.yml
@@ -18,31 +18,27 @@ on:
       - 'ci/gha-win-env.yml'
       - 'libtiledbvcf/**'
   workflow_dispatch:
-defaults:
-  run:
-    shell: cmd /C CALL {0}
 jobs:
   build:
     runs-on: windows-2022
     steps:
       - uses: actions/checkout@v4
-      - name: Install conda env
-        uses: mamba-org/setup-micromamba@v1
         with:
-          environment-file: ci/gha-win-env.yml
-          cache-environment: true
-          init-shell: cmd.exe
-          condarc: |
-            channels:
-              - conda-forge
-              - tiledb
-            channel_priority: strict
-      - name: Build libtiledbvcf
-        run: cmd /C CALL ci\build-libtiledbvcf.bat
-      - name: libtiledbvcf version
-        run: tiledbvcf.exe version
-      - name: Build tiledbvcf-py
-        run: cmd /C CALL ci\build-tiledbvcf-py.bat
+          fetch-depth: 0 # fetch everything for python setuptools_scm
+      - name: Build and install libtiledbvcf
+        run: |
+          cmake -S libtiledbvcf -B libtiledbvcf\build
+          cmake --build libtiledbvcf\build -j2
+          cmake --build libtiledbvcf\build -j2 --target install-libtiledbvcf
+      - name: Set up Python
+        uses: actions/setup-python@v5
+        with:
+          python-version: "3.11"
+      - name: Install tiledbvcf-py
+        run: |
+          set TileDB_DIR=.\libtiledbvcf\build\externals\install\lib\cmake\TileDB\
+          cd apis\python
+          python -m pip install -v .[test,dev]
       - name: tiledbvcf-py version
         run: python -c "import tiledbvcf; print(tiledbvcf.version)"
       - name: Test
diff --git a/libtiledbvcf/cmake/Modules/FindHTSlib.cmake b/libtiledbvcf/cmake/Modules/FindHTSlib.cmake
index 9bf26dd08..4ae5db6d9 100644
--- a/libtiledbvcf/cmake/Modules/FindHTSlib.cmake
+++ b/libtiledbvcf/cmake/Modules/FindHTSlib.cmake
@@ -91,11 +91,11 @@ if (NOT HTSLIB_FOUND)
       message("CMD_EXE_PATH is ${CMD_EXE_PATH}")
       string(REPLACE "/" "\\\\" CMD_EXE_PATH_FWD_SLASH "${CMD_EXE_PATH}")
       message("CMD_EXE_PATH_FWD_SLASH is ${CMD_EXE_PATH_FWD_SLASH}")
-      
+
       ExternalProject_Add(ep_htslib
         PREFIX "externals"
         URL https://github.com/TileDB-Inc/m2w64-htslib-build/releases/download/1.20-0/m2w64-htslib-1.20-0.tar.gz
-        URL_HASH SHA1=da39a3ee5e6b4b0d3255bfef95601890afd80709
+        URL_HASH SHA1=6f3e208ccc0262f89dcdf344d96e40696a5db133
         UPDATE_COMMAND ""
         CONFIGURE_COMMAND ""
         BUILD_COMMAND ""