Migrate to ducc (#183)

* Ducc migrated

.flake8

@@ -0,0 +1,8 @@
+[flake8]
+exclude =
+    pymaster/nmtlib.py
+    test/
+    setup.py
+    sandbox_validation/
+    doc/
+    build/

.github/workflows/ci.yml

@@ -16,7 +16,7 @@ jobs:
         os: 
           - ubuntu-latest
         py:
-          - 3.8
+          - 3.11
         CC:
           - gcc
 
@@ -38,6 +38,7 @@ jobs:
           pip install -U numpy
           pip install -U scipy
           pip install -U healpy
+          pip install -U ducc0
           pip install -U flake8
           pip install -U pytest
           pip install -U pytest-cov

.readthedocs.yaml

@@ -0,0 +1,25 @@
+# .readthedocs.yaml
+# Read the Docs configuration file
+# See https://docs.readthedocs.io/en/stable/config-file/v2.html for details
+
+# Required
+version: 2
+
+build:
+  os: ubuntu-22.04
+  tools:
+    python: "3.11"
+
+# Build documentation in the docs/ directory with Sphinx
+sphinx:
+   builder: html
+   configuration: doc/conf.py
+
+# If using Sphinx, optionally build your docs in additional formats such as PDF
+# formats:
+#    - pdf
+
+# Optionally declare the Python requirements required to build your docs
+python:
+   install:
+   - requirements: doc/requirements.txt

Makefile.am

@@ -1,20 +1,15 @@
 EXTRA_DIST = doc README.md
 
 lib_LTLIBRARIES = libnmt.la
-libnmt_la_SOURCES = src/utils.c src/flatsky_utils.c src/healpix_extra.c src/nmt_bins.c src/nmt_bins_flat.c src/nmt_field.c src/nmt_field_flat.c src/nmt_mask.c src/nmt_mask_flat.c src/nmt_master.c src/nmt_covar.c src/nmt_master_flat.c src/nmt_covar_flat.c src/nmt_io.c
+libnmt_la_SOURCES = src/utils.c src/flatsky_utils.c src/healpix_extra.c src/nmt_bins.c src/nmt_bins_flat.c src/nmt_field_flat.c src/nmt_mask.c src/nmt_mask_flat.c src/nmt_master.c src/nmt_covar.c src/nmt_master_flat.c src/nmt_covar_flat.c src/nmt_io.c
 libnmt_la_CPPFLAGS = $(OPENMP_CFLAGS) -I./src/
-libnmt_la_LDFLAGS = $(OPENMP_CFLAGS) @fftw_thread_type@ -lfftw3 -lgsl -lgslcblas -lcfitsio @libsharp_libs@ -lm
+libnmt_la_LDFLAGS = $(OPENMP_CFLAGS) @fftw_thread_type@ -lfftw3 -lgsl -lgslcblas -lcfitsio -lm
 
 include_HEADERS = src/namaster.h
 
-bin_PROGRAMS = namaster
-namaster_SOURCES = src/nmt_main.c
-namaster_LDADD = libnmt.la
-namaster_CPPFLAGS = $(OPENMP_CFLAGS) -I./src/
-namaster_LDFLAGS = $(OPENMP_CFLAGS) -L./ -lnmt @fftw_thread_type@ -lfftw3 -lgsl -lgslcblas -lcfitsio @libsharp_libs@ -lm
-
 noinst_PROGRAMS = test/check_nmt
 TESTS = test/check_nmt
-test_check_nmt_SOURCES = test/nmt_test.c test/nmt_test_utils.c test/nmt_test_fsk.c test/nmt_test_hpex.c test/nmt_test_bins.c test/nmt_test_field.c test/nmt_test_master.c test/nmt_test_covar.c test/nmt_test_bins_flat.c test/nmt_test_field_flat.c test/nmt_test_master_flat.c test/nmt_test_covar_flat.c test/nmt_test_mask.c test/nmt_test_field_car.c
+test_check_nmt_LDADD = libnmt.la
+test_check_nmt_SOURCES = test/nmt_test.c test/nmt_test_utils.c test/nmt_test_fsk.c test/nmt_test_hpex.c test/nmt_test_bins.c test/nmt_test_bins_flat.c test/nmt_test_field_flat.c test/nmt_test_master_flat.c test/nmt_test_covar_flat.c test/nmt_test_mask.c
 test_check_nmt_CPPFLAGS = $(OPENMP_CFLAGS) -I./test/ -I./src/
-test_check_nmt_LDFLAGS = $(OPENMP_CFLAGS) -L./ -lnmt @fftw_thread_type@ -lfftw3 -lgsl -lgslcblas -lcfitsio @libsharp_libs@ -lm
+test_check_nmt_LDFLAGS = $(OPENMP_CFLAGS) -L./ -lnmt @fftw_thread_type@ -lfftw3 -lgsl -lgslcblas -lcfitsio -lm

configure.ac

@@ -29,17 +29,13 @@ AS_IF(
     [test "x$enable_fftw_pthreads" = "xyes"], [AC_SUBST([fftw_thread_type], "-lfftw3_threads -lpthread")],
     [test "x$enable_fftw_pthreads" != "xyes"], [AC_SUBST([fftw_thread_type], "-lfftw3_omp")])
 
-# Set libsharp libraries needed
-AC_SUBST([libsharp_libs], "-lsharp2")
-
 # Checks for libraries.
 AC_SEARCH_LIBS([pow],[m],[],AC_MSG_ERROR(Couldn't find libm. Required.))
 AC_SEARCH_LIBS([cblas_dgemm],[gslcblas],[],AC_MSG_ERROR(Couldn't find libgslcblas.))
 AC_SEARCH_LIBS([gsl_spline2d_eval_e],[gsl],[],AC_MSG_ERROR(Couldn't find libgsl. GSL V2+ required.))
 AC_SEARCH_LIBS([ffopen],[cfitsio],[],AC_MSG_ERROR(Couldn't find cfitsio))
 AC_SEARCH_LIBS([ring2nest],[chealpix],[],AC_MSG_ERROR(Couldn't find libchealpix))
 AC_SEARCH_LIBS([fftw_execute],[fftw3],[],AC_MSG_ERROR(Couldn't find libfftw3))
-AC_SEARCH_LIBS([sharp_execute],[sharp2],[],AC_MSG_ERROR(Couldn't find libsharp2))
 
 # Checks for header files.
 AC_CHECK_HEADERS([stdlib.h string.h math.h stdarg.h unistd.h time.h omp.h complex.h])

doc/Makefile

@@ -3,17 +3,29 @@
 
 # You can set these variables from the command line.
 SPHINXOPTS    =
-SPHINXBUILD   = python -msphinx
-SPHINXPROJ    = pymaster
-SOURCEDIR     = source
-BUILDDIR      = build
+SPHINXBUILD   = python3 -msphinx
+SPHINXPROJ    = NaMaster
+SOURCEDIR     = .
+BUILDDIR      = _build
 
 # Put it first so that "make" without argument is like "make help".
 help:
 	@$(SPHINXBUILD) -M help "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
 
 .PHONY: help Makefile
 
+generate-api: ./apidoc.sh
+	bash $<
+.PHONY: html
+html: generate-api
+	@$(SPHINXBUILD) -M html "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
+
+clean-api:
+	rm -rf api/*.rst
+.PHONY: clean
+clean: clean-api
+	@$(SPHINXBUILD) -M clean "$(SOURCEDIR)" "$(BUILDDIR)" $(SPHINXOPTS) $(O)
+
 # Catch-all target: route all unknown targets to Sphinx using the new
 # "make mode" option.  $(O) is meant as a shortcut for $(SPHINXOPTS).
 %: Makefile

doc/apidoc.sh

@@ -0,0 +1,3 @@
+# bash
+
+sphinx-apidoc -T -f -e -o api/ ../pymaster/ ../pymaster/tests/* ../pymaster/tests ../pymaster/nmtlib.py