adding conda meta.yaml file

.gitlab-ci.yml

@@ -21,6 +21,7 @@ pages:
   - pip3 install -U -r requirements.txt
   - python3 setup.py install
   - sphinx-build -b html docs/source public
+  # - conda build .
   # - tar --exclude='.[^/]*' -czvf public/radioSphere.tar.gz .
 
   artifacts:

recipes/meta.yaml

+{% set name = "radioSphere" %}
+{% set data = load_setup_py_data(setup_file='../setup.py') %}
+
+package:
+  name: {{ name|lower }}
+  version: 1.0.0 # {{ data.get('version') }}
+
+source:
+  # url: ./../dist/{{ name }}-1.0.0.tar.gz # for local testing
+  url: https://gricad-gitlab.univ-grenoble-alpes.fr/ttk/radioSphere/-/archive/version-1.0.0/radioSphere-version-1.0.0.tar.gz
+
+build:
+  number: 0
+  script: {{ PYTHON }} setup.py install . -vv
+
+requirements:
+  build:
+    - {{ compiler('cxx') }}
+  host:
+    - python
+    - pip
+    - eigen
+    - llvm-openmp
+    - matplotlib
+    - numpy x.x
+    - python
+    - scipy
+    - cython  # to build the C++ projector for now
+    - tifffile
+    # - opencv-python
+    - pytest
+  run:
+    - matplotlib
+    - numpy x.x
+    - scipy
+    - ipython
+    - tifffile
+    - pytest
+
+# test:
+#   imports:
+#     - radiosphere
+#     - radiosphere.tests
+
+about:
+  home: "https://ttk.gricad-gitlab.univ-grenoble-alpes.fr/ttk/radioSphere"
+  license: GPL-3.0+
+  license_family: GPL
+  license_file: LICENSE
+  summary: "Single-projection reconstruction technique for positioning monodisperse spheres in 3D with a divergent x-ray beam"
+  doc_url: https://ttk.gricad-pages.univ-grenoble-alpes.fr/radioSphere/
+
+extra:
+  recipe-maintainers:
+    - ostamati
+    - benjym
+    - edwardando

setup.py

@@ -7,11 +7,17 @@ import os
 import sysconfig
 
 name="radioSphere"
-version='1.0.0'
+version="1.0.0"
 
 modules = ["DEM"]
 packages = ["radioSphere", "radioSphere.DEM"]
 
+# os.environ["clang"] = "g++-11"
+if os.getenv('PREFIX') != None: # if we are compiling with conda
+    EIGEN_LOC = os.getenv('PREFIX')
+else:
+    EIGEN_LOC = "/opt/homebrew/Cellar/eigen/3.4.0_1/include/eigen3/" # on benjy's macbook pro installed with brew, this is so very very brittle
+
 def readConf(fileName, comments=["#"]):
     """
     Reads a configuration files.
@@ -41,9 +47,7 @@ setup(
                   sources=["tools/projectSphereC3.cython/_projectSphereC.pyx",
                            "tools/projectSphereC3.cython/projectSphereC.cpp"],
                   include_dirs=[numpy.get_include()],
-                  # extra_compile_args=['-fopenmp','-I/usr/local/include/eigen3'],
-                  extra_compile_args=['-I/usr/local/include/eigen3', '-I/usr/include/eigen3'],
-                  # extra_compile_args=['-fopenmp','-I/usr/include/eigen3'],
+                  extra_compile_args=['-fopenmp','-I/usr/local/include/eigen3', '-I/usr/include/eigen3', '-I' + EIGEN_LOC + '/include/eigen3'],
                   # extra_link_args=['-fopenmp'],
                   language='c++')],
     test_suite="tests",

tools/detectSpheres.py

@@ -4,7 +4,7 @@ Implementation of tomopack by Stéphane Roux
 
 import os
 import numpy
-import radioSphere.projectSphere
+import projectSphere
 import scipy.ndimage
 from scipy.spatial import distance