Switch from conanfile.txt to conanfile.py

.github/workflows/build-dockerfile.yml

@@ -14,7 +14,7 @@ on:
       - "test/**"
       - "CMakeLists.txt"
       - "Dockerfile"
-      - "conanfile.txt"
+      - "conanfile.py"
     tags:
       - 'v*.*.*'
 
@@ -27,7 +27,7 @@ on:
       - "test/**"
       - "CMakeLists.txt"
       - "Dockerfile"
-      - "conanfile.txt"
+      - "conanfile.py"
 
 # https://stackoverflow.com/a/72408109
 concurrency:

.github/workflows/codecov.yml

@@ -14,7 +14,7 @@ on:
       - "src/**"
       - "test/**"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
     tags:
       - 'v*.*.*'
 
@@ -27,7 +27,7 @@ on:
       - "src/**"
       - "test/**"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
 
 # https://stackoverflow.com/a/72408109
 concurrency:
@@ -67,7 +67,7 @@ jobs:
       - name: Generate cache key
         id: cache-key
         run: |
-          hash="${{ hashFiles('conanfile.txt', '.github/workflows/codecov.yml') }}"
+          hash="${{ hashFiles('conanfile.py', '.github/workflows/codecov.yml') }}"
 
           # This can be used by to always update a cache entry (useful e.g. for ccache)
           current_date="$(date '+%s')"

.github/workflows/fuzzy-testing.yml

@@ -14,7 +14,7 @@ on:
       - "test/scripts/link_h5_dataset.py"
       - "test/scripts/patch_hictkpy.py"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
     tags:
       - 'v*.*.*'
 
@@ -145,7 +145,7 @@ jobs:
         id: cache-key
         working-directory: hictkpy
         run: |
-          hash="${{ hashFiles('conanfile.txt') }}"
+          hash="${{ hashFiles('conanfile.py') }}"
 
           echo "key=fuzzy-testing-$hash" >> $GITHUB_OUTPUT
 

.github/workflows/macos-ci.yml

@@ -13,7 +13,7 @@ on:
       - "src/**"
       - "test/**"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
     tags:
       - 'v*.*.*'
 
@@ -25,7 +25,7 @@ on:
       - "src/**"
       - "test/**"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
 
 # https://stackoverflow.com/a/72408109
 concurrency:
@@ -114,9 +114,9 @@ jobs:
           compiler_version="${{ matrix.compiler_version }}"
           build_type="${{ matrix.build_type }}"
 
-          conanfile_hash="${{ hashFiles('conanfile.txt') }}"
+          conanfile_hash="${{ hashFiles('conanfile.py') }}"
           workflow_hash="${{ hashFiles('.github/workflows/macos-ci.yml') }}"
-          combined_hash="${{ hashFiles('conanfile.txt', '.github/workflows/macos-ci.yml') }}"
+          combined_hash="${{ hashFiles('conanfile.py', '.github/workflows/macos-ci.yml') }}"
 
           # This can be used by to always update a cache entry (useful e.g. for ccache)
           current_date="$(date '+%s')"

.github/workflows/run-clang-tidy.yml

@@ -14,7 +14,7 @@ on:
       - "test/**"
       - ".clang-tidy"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
     tags:
       - 'v*.*.*'
 
@@ -27,7 +27,7 @@ on:
       - "test/**"
       - ".clang-tidy"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
 
 # https://stackoverflow.com/a/72408109
 concurrency:
@@ -64,7 +64,7 @@ jobs:
       - name: Generate cache key
         id: cache-key
         run: |
-          hash="${{ hashFiles('conanfile.txt', '.github/workflows/run-clang-tidy.yml') }}"
+          hash="${{ hashFiles('conanfile.py', '.github/workflows/run-clang-tidy.yml') }}"
 
           # This can be used by to always update a cache entry (useful e.g. for ccache)
           current_date="$(date '+%s')"

.github/workflows/ubuntu-ci.yml

@@ -13,7 +13,7 @@ on:
       - "src/**"
       - "test/**"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
     tags:
       - 'v*.*.*'
 
@@ -25,7 +25,7 @@ on:
       - "src/**"
       - "test/**"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
 
 # https://stackoverflow.com/a/72408109
 concurrency:
@@ -187,9 +187,9 @@ jobs:
           build_type="${{ matrix.build_type }}"
           dev_mode="${{ matrix.developer_mode }}"
 
-          conanfile_hash="${{ hashFiles('conanfile.txt') }}"
+          conanfile_hash="${{ hashFiles('conanfile.py') }}"
           workflow_hash="${{ hashFiles('.github/workflows/ubuntu-ci.yml') }}"
-          combined_hash="${{ hashFiles('conanfile.txt', '.github/workflows/ubuntu-ci.yml') }}"
+          combined_hash="${{ hashFiles('conanfile.py', '.github/workflows/ubuntu-ci.yml') }}"
 
           # This can be used by to always update a cache entry (useful e.g. for ccache)
           current_date="$(date '+%s')"

.github/workflows/windows-ci.yml

@@ -13,7 +13,7 @@ on:
       - "src/**"
       - "test/**"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
     tags:
       - 'v*.*.*'
 
@@ -25,7 +25,7 @@ on:
       - "src/**"
       - "test/**"
       - "CMakeLists.txt"
-      - "conanfile.txt"
+      - "conanfile.py"
 
 # https://stackoverflow.com/a/72408109
 concurrency:
@@ -92,9 +92,9 @@ jobs:
           compiler="${{ matrix.compiler-name }}"
           build_type="${{ matrix.build_type }}"
 
-          conanfile_hash="${{ hashFiles('conanfile.txt') }}"
+          conanfile_hash="${{ hashFiles('conanfile.py') }}"
           workflow_hash="${{ hashFiles('.github/workflows/windows-ci.yml') }}"
-          combined_hash="${{ hashFiles('conanfile.txt', '.github/workflows/windows-ci.yml') }}"
+          combined_hash="${{ hashFiles('conanfile.py', '.github/workflows/windows-ci.yml') }}"
 
           # This can be used by to always update a cache entry (useful e.g. for ccache)
           current_date="$(date '+%s')"

Dockerfile

@@ -40,8 +40,8 @@ RUN conan install /tmp/conanfile.txt                 \
 # Build hictk deps using Conan
 RUN mkdir -p "$src_dir"
 
-COPY conanfile.txt "$src_dir"
-RUN conan install "$src_dir/conanfile.txt"       \
+COPY conanfile.py "$src_dir"
+RUN conan install "$src_dir/conanfile.py"       \
              --build=missing                     \
              -pr:b="$CONAN_DEFAULT_PROFILE_PATH" \
              -pr:h="$CONAN_DEFAULT_PROFILE_PATH" \

conanfile.py

@@ -0,0 +1,74 @@
+# Copyright (C) 2023 Roberto Rossini <roberros@uio.no>
+#
+# SPDX-License-Identifier: MIT
+
+from conan import ConanFile
+from conan.tools.build import check_min_cppstd
+
+
+required_conan_version = ">=1.53.0"
+
+
+class NCHGConan(ConanFile):
+    name = "hictk"
+    description = "Blazing fast toolkit to work with .hic and .cool files."
+    license = "MIT"
+    topics = ("hictk", "bioinformatics")
+    homepage = "https://github.com/paulsengroup/hictk"
+    url = "https://github.com/paulsengroup/hictk"
+    package_type = "header-library"
+    settings = "os", "arch", "compiler", "build_type"
+
+    options = {
+        "shared": [True, False],
+        "fPIC": [True, False],
+    }
+
+    default_options = {
+        "shared": False,
+        "fPIC": True,
+    }
+
+    generators = "CMakeDeps"
+
+    @property
+    def _min_cppstd(self):
+        return 17
+
+    def requirements(self):
+        self.requires("bshoshany-thread-pool/4.1.0#be1802a8768416a6c9b1393cf0ce5e9c")
+        self.requires("catch2/3.5.4#d346ca291f8f62040fd9c1a891654711")
+        self.requires("cli11/2.4.1#afacffd31f631bbb8b7c7d6425fe7a66")
+        self.requires("concurrentqueue/1.0.4#1e48e1c712bcfd892087c9c622a51502")
+        self.requires("eigen/3.4.0#2e192482a8acff96fe34766adca2b24c")
+        self.requires("fast_float/6.1.1#e29acaa3d0543dee343abe3f6815346e")
+        self.requires("fmt/10.2.1#9199a7a0611866dea5c8849a77467b25")
+        self.requires("hdf5/1.14.3#31ccd8d4de83844f5db48471df1944a1")
+        self.requires("highfive/2.9.0#c57477beed8b0110fadeb6da8f48bcc5")
+        self.requires("libdeflate/1.19#3ea74a4549efc14d4b1202dc4bfbf602")
+        self.requires("parallel-hashmap/1.3.11#1e67f4855a3f7cdeb977cc472113baf7")
+        self.requires("readerwriterqueue/1.0.6#aaa5ff6fac60c2aee591e9e51b063b83")
+        self.requires("span-lite/0.11.0#519fd49fff711674cfed8cd17d4ed422")
+        self.requires("spdlog/1.13.0#8e88198fd5b9ee31d329431a6d0ccaa2")
+        self.requires("zstd/1.5.6#67383dae85d33f43823e7751a6745ea1")
+
+    def validate(self):
+        if self.settings.get_safe("compiler.cppstd"):
+            check_min_cppstd(self, self._min_cppstd)
+
+    def configure(self):
+        if self.settings.compiler in ["clang", "gcc"]:
+            self.settings.compiler.libcxx = "libstdc++11"
+
+        self.options["fmt"].header_only = True
+        self.options["hdf5"].enable_cxx = False
+        self.options["hdf5"].hl = False
+        self.options["hdf5"].threadsafe = False
+        self.options["hdf5"].parallel = False
+        self.options["hictk"].with_eigen = False
+        self.options["highfive"].with_boost = False
+        self.options["highfive"].with_eigen = False
+        self.options["highfive"].with_opencv = False
+        self.options["highfive"].with_xtensor = False
+        self.options["spdlog"].header_only = True
+        self.options["zstd"].build_programs = False

setup_conan_environments.sh

@@ -12,7 +12,7 @@ trap "cd '$PWD'" EXIT
 git_root="$(readlink -f "$(git rev-parse --show-toplevel)")"
 
 wd="$git_root/conan-envs"
-conanfile="$git_root/conanfile.txt"
+conanfile="$git_root/conanfile.py"
 
 for compiler in gcc clang; do
   for build_type in Debug Release RelWithDebInfo; do

test/packaging/test_find_package/README.md

@@ -4,7 +4,7 @@ Test to ensure hictk can be included in a project through `find_package()`.
 
 ```bash
 # Build and install hictk
-conan install conanfile.txt --output-folder build/
+conan install conanfile.py --output-folder build/
 cmake -DCMAKE_BUILD_TYPE=Release -S ../../../ -B hictk_build -DHICTK_ENABLE_TESTING=OFF -DHICTK_BUILD_TOOLS=OFF -DCMAKE_PREFIX_PATH="$PWD/build" -DCMAKE_INSTALL_PREFIX=hictk_install
 cmake --build hictk_build/
 cmake --install hictk_build/