In doc/Makefile.am:

>  
> -all-local: Doxyfile.stamp
> +Doxyfile.stamp: Doxyfile Doxyfile-gi $(doxygen_sources)
> +	$(AM_V_GEN)$(DOXYGEN) Doxyfile-gi && $(DOXYGEN) Doxyfile && echo "" > $@
> +
> +ALL_TARGETS = Doxyfile.stamp
> +
> +if WITH_PYTHON
> +
> +geany-scintilla-gtkdoc.h: geany-gtkdoc.h
> +
> +geany-gtkdoc.h: Doxyfile.stamp $(top_srcdir)/scripts/gen-api-gtkdoc.py
> +	$(AM_V_GEN)$(top_srcdir)/scripts/gen-api-gtkdoc.py xml -d $(builddir) \
> +	-o geany-gtkdoc.h --sci-output geany-scintilla-gtkdoc.h

this doesn't properly check for failure. Something like this is needed:

diff --git a/doc/Makefile.am b/doc/Makefile.am
index 3396063..1f97e4c 100644
--- a/doc/Makefile.am
+++ b/doc/Makefile.am
@@ -123,7 +123,8 @@ geany-scintilla-gtkdoc.h: geany-gtkdoc.h

 geany-gtkdoc.h: Doxyfile.stamp $(top_srcdir)/scripts/gen-api-gtkdoc.py
     $(AM_V_GEN)$(top_srcdir)/scripts/gen-api-gtkdoc.py xml -d $(builddir) \
-    -o geany-gtkdoc.h --sci-output geany-scintilla-gtkdoc.h
+    -o geany-gtkdoc.h --sci-output geany-scintilla-gtkdoc.h \
+    || { $(RM) geany-gtkdoc.h geany-scintilla-gtkdoc.h && exit 1; }

 ALL_TARGETS += geany-gtkdoc.h geany-scintilla-gtkdoc.h

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