DOC: Revise generation of examples to work in RTD

Amends #3131.

Author: oesteban

doc/Makefile

@@ -22,7 +22,6 @@ help:
 	      		"items (ChangeLog)"
 	@echo "  linkcheck check all external links for integrity"
 	@echo "  doctest   run all doctests embedded in the documentation"
-	@echo "  sf_satra copy html files to sourceforge (satra only)"
 
 clean:
 	-rm -rf _build/* *~ api/generated interfaces/generated users/examples documentation.zip
@@ -35,11 +34,6 @@ htmlonly:
 html: clean htmlonly
 	@echo "Build HTML and API finished."
 
-examples2rst: clean
-	mkdir -p users/examples
-	../tools/make_examples.py -x ../../../examples/test_spm.py --no-exec
-	@echo "examples2rst finished."
-
 latex: clean
 	$(SPHINXBUILD) -b latex $(ALLSPHINXOPTS) _build/latex
 	@echo

doc/conf.py

@@ -16,8 +16,16 @@
 from packaging.version import Version
 import nipype
 
+doc_path = os.path.abspath(os.path.dirname(__file__))
 os.makedirs('users/examples', exist_ok=True)
-os.system('python ../tools/make_examples.py -x ../../../examples/test_spm.py --no-exec')
+
+os.chdir(os.path.join(doc_path, 'users', 'examples'))
+os.system("""python ../../../tools/ex2rst -x ../../../examples/test_spm.py \
+--project Nipype --outdir . ../../../examples""")
+os.system("""python ../../../tools/ex2rst --project Nipype --outdir . \
+../../../examples/frontiers_paper""")
+os.chdir(doc_path)
+
 
 # If extensions (or modules to document with autodoc) are in another directory,
 # add these directories to sys.path here. If the directory is relative to the

tools/ex2rst

@@ -158,9 +158,11 @@ def exfile2rstfile(filename, opts):
     """
     #  doc filename
     dfilename = os.path.basename(filename[:-3]) + '.rst'
+    dfilepath = os.path.join(opts.outdir, os.path.basename(dfilename))
+    print("Creating file %s." % os.path.abspath(dfilepath))
 
     # open dest file
-    dfile = open(os.path.join(opts.outdir, os.path.basename(dfilename)), 'w')
+    dfile = open(dfilepath, 'w')
 
     # place header
     dfile.write('.. AUTO-GENERATED FILE -- DO NOT EDIT!\n\n')
@@ -196,8 +198,8 @@ def exfile2rstfile(filename, opts):
 
 
 def main():
-    parser = OptionParser( \
-        usage="%prog [options] <filename|directory> [...]", \
+    parser = OptionParser(
+        usage="%prog [options] <filename|directory> [...]",
         version="%prog 0.1", description="""\
 %prog converts Python scripts into restructered text (ReST) format suitable for
 integration into the Sphinx documentation framework. Its key feature is that it
@@ -217,7 +219,7 @@ the respective indentation is removed in the ReST output.
 
 The parser algorithm automatically excludes file headers and starts with the
 first (module-level) docstring instead.
-""" ) #'
+""")
 
     # define options
     parser.add_option(
@@ -293,8 +295,7 @@ Name of the project that contains the examples. This name is used in the
     if len(toparse) != len(toparse_list):
         print('Ignoring duplicate parse targets.')
 
-    if not os.path.exists(opts.outdir):
-        os.mkdir(outdir)
+    os.makedirs(opts.outdir, exist_ok=True)
 
     # finally process all examples
     for t in toparse: