error in make: src/libmapnik.so: undefined reference to `pixman_...'

[tonylampada]

I'm trying to install mapnik on ubuntu 16.04 following these instructions:
https://github.com/mapnik/mapnik/wiki/UbuntuInstallation

I'm actually trying to build a docker image with, using the Dockerfile below. I get an error during the make phase (output below)

It looks like this was working yesterday and it stopped working today (today = 2017/08/01).
Since there seems to be no code change in the repo I assume maybe it has something to do with the dependencies that are downloaded when I do the source bootstrap.sh step.

make output

(...)
clang++-3.8 -o utils/svg2png/svg2png.o -c -std=c++14 -D_GLIBCXX_USE_CXX11_ABI=0 -fvisibility=hidden -fvisibility-inlines-hidden -Wall -pthread -ftemplate-depth-300 -Wsign-compare -Wno-unsequenced -Wtautological-compare -Wheader-hygiene -Wc++14-extensions -O3 -DMAPNIK_MEMORY_MAPPED_FILE -DMAPNIK_HAS_DLCFN -DBIGINT -DHAVE_JPEG -DMAPNIK_USE_PROJ4 -DHAVE_PNG -DHAVE_WEBP -DHAVE_TIFF -DLINUX -DMAPNIK_THREADSAFE -DBOOST_SPIRIT_NO_PREDEFINED_TERMINALS=1 -DBOOST_PHOENIX_NO_PREDEFINED_TERMINALS=1 -DBOOST_SPIRIT_USE_PHOENIX_V3=1 -DNDEBUG -DMAPNIK_MEMORY_MAPPED_FILE -DMAPNIK_HAS_DLCFN -DBIGINT -DHAVE_JPEG -DMAPNIK_USE_PROJ4 -DHAVE_PNG -DHAVE_WEBP -DHAVE_TIFF -DLINUX -DMAPNIK_THREADSAFE -DBOOST_SPIRIT_NO_PREDEFINED_TERMINALS=1 -DBOOST_PHOENIX_NO_PREDEFINED_TERMINALS=1 -DBOOST_SPIRIT_USE_PHOENIX_V3=1 -DNDEBUG -DHAVE_CAIRO -DGRID_RENDERER -DSVG_RENDERER -DHAVE_CAIRO -Imason_packages/.link/include/cairo -Imason_packages/.link/include/pixman-1 -Ideps -Ideps/mapbox/geometry/include -Ideps/mapbox/variant/include -Ideps/agg/include -Iinclude -Imason_packages/.link/include -Imason_packages/.link/include/freetype2 -Imason_packages/.link/include/libpng16 -Imason_packages/linux-x86_64/libgdal/2.1.3/include utils/svg2png/svg2png.cpp
clang++-3.8 -o utils/mapnik-index/mapnik-index utils/mapnik-index/mapnik-index.o utils/mapnik-index/process_csv_file.o utils/mapnik-index/process_geojson_file_x3.o plugins/input/csv/csv_utils.os -Ldeps/agg -Lsrc -Lsrc/json -Lsrc/wkt -Lmason_packages/.link/lib -Lmason_packages/linux-x86_64/libgdal/2.1.3/lib -lmapnik -lboost_program_options -lboost_system -lmapnik-json -lmapnik-wkt -licuuc
src/libmapnik.so: undefined reference to `pixman_image_get_component_alpha'
src/libmapnik.so: undefined reference to `pixman_image_get_stride'
src/libmapnik.so: undefined reference to `pixman_rasterize_trapezoid'
src/libmapnik.so: undefined reference to `pixman_image_composite32'
src/libmapnik.so: undefined reference to `pixman_region32_contains_point'
src/libmapnik.so: undefined reference to `pixman_image_get_data'
src/libmapnik.so: undefined reference to `pixman_region32_rectangles'
src/libmapnik.so: undefined reference to `pixman_image_get_width'
src/libmapnik.so: undefined reference to `pixman_region32_subtract'
src/libmapnik.so: undefined reference to `pixman_region32_n_rects'
src/libmapnik.so: undefined reference to `pixman_image_set_destroy_function'
src/libmapnik.so: undefined reference to `pixman_image_create_bits'
src/libmapnik.so: undefined reference to `pixman_region32_fini'
src/libmapnik.so: undefined reference to `pixman_region32_init_rects'
src/libmapnik.so: undefined reference to `pixman_image_ref'
src/libmapnik.so: undefined reference to `pixman_blt'
src/libmapnik.so: undefined reference to `pixman_image_get_height'
src/libmapnik.so: undefined reference to `pixman_image_set_repeat'
src/libmapnik.so: undefined reference to `pixman_image_create_radial_gradient'
src/libmapnik.so: undefined reference to `pixman_image_create_solid_fill'
src/libmapnik.so: undefined reference to `pixman_image_set_clip_region32'
src/libmapnik.so: undefined reference to `pixman_region32_not_empty'
src/libmapnik.so: undefined reference to `pixman_image_set_filter'
src/libmapnik.so: undefined reference to `icudt57_dat'
src/libmapnik.so: undefined reference to `pixman_image_unref'
src/libmapnik.so: undefined reference to `pixman_region32_init'
src/libmapnik.so: undefined reference to `pixman_region32_copy'
src/libmapnik.so: undefined reference to `pixman_image_set_transform'
src/libmapnik.so: undefined reference to `pixman_image_get_depth'
src/libmapnik.so: undefined reference to `pixman_fill'
src/libmapnik.so: undefined reference to `pixman_region32_translate'
src/libmapnik.so: undefined reference to `pixman_region32_init_rect'
src/libmapnik.so: undefined reference to `pixman_transform_point_3d'
src/libmapnik.so: undefined reference to `pixman_region32_contains_rectangle'
src/libmapnik.so: undefined reference to `pixman_image_create_linear_gradient'
src/libmapnik.so: undefined reference to `pixman_region32_equal'
src/libmapnik.so: undefined reference to `pixman_add_triangles'
src/libmapnik.so: undefined reference to `pixman_region32_extents'
src/libmapnik.so: undefined reference to `pixman_region32_intersect'
src/libmapnik.so: undefined reference to `pixman_image_set_component_alpha'
src/libmapnik.so: undefined reference to `pixman_format_supported_destination'
src/libmapnik.so: undefined reference to `pixman_region32_union'
clang: error: linker command failed with exit code 1 (use -v to see invocation)
scons: *** [utils/mapnik-index/mapnik-index] Error 1
scons: building terminated because of errors.
Makefile:46: recipe for target 'mapnik' failed
make: *** [mapnik] Error 2
The command '/bin/sh -c JOBS=4 make' returned a non-zero code: 2

Dockerfile

FROM ubuntu:16.04
RUN apt-get update -y --fix-missing
RUN apt-get install -yqq vim nano software-properties-common python python-pip python-dev curl
RUN apt-get install -y python-software-properties

RUN apt-add-repository -y ppa:ubuntugis/ubuntugis-unstable
RUN apt-get update
RUN apt-get install -yqq gdal-bin libgdal-dev libgdal20 g++

ENV PYTHONUNBUFFERED 1

ENV SHELL /bin/bash
ENV PYTHONPATH /usr/src/app
RUN echo "export LS_OPTIONS='--color=auto'" >>~/.bashrc
RUN echo "eval "\`dircolors\`"" >>~/.bashrc
RUN echo "alias ls='ls \$LS_OPTIONS'" >>~/.bashrc
RUN echo "alias ll='ls \$LS_OPTIONS -l'" >>~/.bashrc
RUN echo "alias l='ls \$LS_OPTIONS -lA'" >>~/.bashrc

RUN pip install GDAL==2.1.0 --global-option=build_ext --global-option="-I/usr/include/gdal"

RUN apt-get install -y software-properties-common

ENV CXX clang++-3.8 
ENV CC clang-3.8
RUN apt-get install -y zlib1g-dev 
RUN apt-get install -y clang
RUN apt-get install -y make
RUN apt-get install -y pkg-config
RUN apt-get install -y curl
RUN add-apt-repository -y ppa:ubuntu-toolchain-r/test
RUN apt-get update -y
RUN apt-get install -y gcc-6
RUN apt-get install -y g++-6
RUN apt-get install -y git
WORKDIR /
RUN git clone https://github.com/mapnik/mapnik mapnik-3.x --depth 10
WORKDIR /mapnik-3.x
RUN git submodule update --init
#RUN source bootstrap.sh
RUN /bin/bash -c "source bootstrap.sh"
RUN ./configure CUSTOM_CXXFLAGS="-D_GLIBCXX_USE_CXX11_ABI=0" CXX=${CXX} CC=${CC} RUNTIME_LINK=shared BENCHMARK=0 DEMO=0 CPP_TESTS=0
RUN JOBS=4 make
RUN make install

[springmeyer]

That is an odd error @tonylampada. Is there a globally installed libpixman-1.0 on your system in /usr/lib ? If so maybe that is conflicting?