Merge pull request #106 from reds-heig/speedup_ripser_cpp

Update ripser backend, add robinhood hashmap optimization

.github/workflows/python-app.yml

@@ -25,6 +25,7 @@ jobs:
         python-version: ${{ matrix.python-version }}
     - name: Install dependencies
       run: |
+        git clone https://github.com/martinus/robin-hood-hashing ripser/robinhood
         python -m pip install --upgrade pip
         pip install flake8 pytest-cov Cython
         pip install -e ".[testing]"
@@ -58,7 +59,8 @@ jobs:
       - name: Set up conda
         shell: bash -l {0}
         run: |    
-          conda install numpy pandas scipy matplotlib pytest cython
+          conda install git numpy pandas scipy matplotlib pytest cython
+          git clone https://github.com/martinus/robin-hood-hashing ripser/robinhood
           python setup.py install
       - name: Test with pytest
         shell: bash -l {0}
@@ -82,7 +84,9 @@ jobs:
       - name: Set up conda
         shell: bash -l {0}
         run: |    
-          conda install numpy pandas scipy matplotlib pytest libpython cython
+          echo -e "[build]\ncompiler=msvc\n" >> setup.cfg
+          conda install git numpy pandas scipy matplotlib pytest libpython cython
+          git clone https://github.com/martinus/robin-hood-hashing ripser/robinhood
           python setup.py install
       - name: Test with pytest
         shell: bash -l {0}

.github/workflows/python-publish.yml

@@ -24,6 +24,7 @@ jobs:
           python-version: ${{ matrix.python-version }}
       - name: Install dependencies
         run: |
+          git clone https://github.com/martinus/robin-hood-hashing ripser/robinhood
           python -m pip install --upgrade pip
           pip install setuptools wheel twine Cython numpy pytest
           python setup.py install
@@ -55,6 +56,7 @@ jobs:
           architecture: ${{ matrix.arch }}
       - name: Install dependencies
         run: |
+          git clone https://github.com/martinus/robin-hood-hashing ripser/robinhood
           python -m pip install --upgrade pip
           pip install setuptools wheel twine Cython numpy pytest
           python setup.py install

CHANGELOG.md

@@ -1,3 +1,9 @@
+# 0.6.0
+    - Update C++ backend to commit 286d369 of [ripser](https://github.com/Ripser/ripser) but keeping same functionalities
+    - Add support to robinhood hashmap into the C++ Backend
+    - Update CI in order to compile C++ with robinhood enable
+    - Enable Enclosing radius when threshold is set to infinity
+
 # 0.5.5
     - Updating CI/CD pipeline.
 

ripser/_version.py

@@ -1 +1 @@
-__version__ = "0.5.5"
+__version__ = "0.6.0"