.gitmodules

# Most of these are listed as relative paths to allow for https/ssh matching with the primary Rosetta repo
# But we do explicitly specify RosettaCommons, to allow things to work for forks

############################
# External Modules
############################
[submodule "source/external/msgpack/msgpack-c.upstream"]
	path = source/external/msgpack/msgpack-c.upstream
	url = https://github.com/msgpack/msgpack-c.git
[submodule "source/external/c-cmaes/c-cmaes"]
	path = source/external/c-cmaes/c-cmaes
	url = https://github.com/CMA-ES/c-cmaes.git
[submodule "source/external/libzmq"]
	path = source/external/libzmq
	url = ../../RosettaCommons/libzmq.git
[submodule "source/external/mmtf/mmtf-cpp"]
	path = source/external/mmtf/mmtf-cpp
	url = ../../RosettaCommons/mmtf-cpp.git
[submodule "source/external/rdkit/rdkit.upstream"]
	path = source/external/rdkit/rdkit.upstream
	url = ../../RosettaCommons/rdkit.git
[submodule "source/external/bcl"]
	path = source/external/bcl
	url = https://github.com/RosettaCommons/bcl_rosetta
	branch = bcl_rosetta
############################
# Boost Modules
############################

# Rosetta forks
[submodule "source/external/boost_submod/integer"]
	path = source/external/boost_submod/integer
	url = https://github.com/RosettaCommons/boost_integer.git
[submodule "source/external/boost_submod/lexical_cast"]
	path = source/external/boost_submod/lexical_cast
	url = https://github.com/RosettaCommons/boost_lexical_cast.git
[submodule "source/external/boost_submod/multi_index"]
	path = source/external/boost_submod/multi_index
	url = https://github.com/RosettaCommons/boost_multi_index.git

# Original boost modules
[submodule "source/external/boost_submod/accumulators"]
	path = source/external/boost_submod/accumulators
	url = https://github.com/boostorg/accumulators.git
[submodule "source/external/boost_submod/algorithm"]
	path = source/external/boost_submod/algorithm
	url = https://github.com/boostorg/algorithm.git
[submodule "source/external/boost_submod/any"]
	path = source/external/boost_submod/any
	url = https://github.com/boostorg/any.git
[submodule "source/external/boost_submod/array"]
	path = source/external/boost_submod/array
	url = https://github.com/boostorg/array.git
[submodule "source/external/boost_submod/assert"]
	path = source/external/boost_submod/assert
	url = https://github.com/boostorg/assert.git
[submodule "source/external/boost_submod/assign"]
	path = source/external/boost_submod/assign
	url = https://github.com/boostorg/assign.git
[submodule "source/external/boost_submod/atomic"]
	path = source/external/boost_submod/atomic
	url = https://github.com/boostorg/atomic.git
[submodule "source/external/boost_submod/bimap"]
	path = source/external/boost_submod/bimap
	url = https://github.com/boostorg/bimap.git
[submodule "source/external/boost_submod/bind"]
	path = source/external/boost_submod/bind
	url = https://github.com/boostorg/bind.git
[submodule "source/external/boost_submod/chrono"]
	path = source/external/boost_submod/chrono
	url = https://github.com/boostorg/chrono.git
[submodule "source/external/boost_submod/circular_buffer"]
	path = source/external/boost_submod/circular_buffer
	url = https://github.com/boostorg/circular_buffer.git
[submodule "source/external/boost_submod/compute"]
	path = source/external/boost_submod/compute
	url = https://github.com/boostorg/compute.git
[submodule "source/external/boost_submod/concept_check"]
	path = source/external/boost_submod/concept_check
	url = https://github.com/boostorg/concept_check.git
[submodule "source/external/boost_submod/config"]
	path = source/external/boost_submod/config
	url = https://github.com/boostorg/config.git
[submodule "source/external/boost_submod/container"]
	path = source/external/boost_submod/container
	url = https://github.com/boostorg/container.git
[submodule "source/external/boost_submod/container_hash"]
	path = source/external/boost_submod/container_hash
	url = https://github.com/boostorg/container_hash.git
[submodule "source/external/boost_submod/conversion"]
	path = source/external/boost_submod/conversion
	url = https://github.com/boostorg/conversion.git
[submodule "source/external/boost_submod/core"]
	path = source/external/boost_submod/core
	url = https://github.com/boostorg/core.git
[submodule "source/external/boost_submod/date_time"]
	path = source/external/boost_submod/date_time
	url = https://github.com/boostorg/date_time.git
[submodule "source/external/boost_submod/detail"]
	path = source/external/boost_submod/detail
	url = https://github.com/boostorg/detail.git
[submodule "source/external/boost_submod/dynamic_bitset"]
	path = source/external/boost_submod/dynamic_bitset
	url = https://github.com/boostorg/dynamic_bitset.git
[submodule "source/external/boost_submod/endian"]
	path = source/external/boost_submod/endian
	url = https://github.com/boostorg/endian.git
[submodule "source/external/boost_submod/exception"]
	path = source/external/boost_submod/exception
	url = https://github.com/boostorg/exception.git
[submodule "source/external/boost_submod/filesystem"]
	path = source/external/boost_submod/filesystem
	url = https://github.com/boostorg/filesystem.git
[submodule "source/external/boost_submod/foreach"]
	path = source/external/boost_submod/foreach
	url = https://github.com/boostorg/foreach.git
[submodule "source/external/boost_submod/format"]
	path = source/external/boost_submod/format
	url = https://github.com/boostorg/format.git
[submodule "source/external/boost_submod/function"]
	path = source/external/boost_submod/function
	url = https://github.com/boostorg/function.git
[submodule "source/external/boost_submod/functional"]
	path = source/external/boost_submod/functional
	url = https://github.com/boostorg/functional.git
[submodule "source/external/boost_submod/function_types"]
	path = source/external/boost_submod/function_types
	url = https://github.com/boostorg/function_types.git
[submodule "source/external/boost_submod/fusion"]
	path = source/external/boost_submod/fusion
	url = https://github.com/boostorg/fusion.git
[submodule "source/external/boost_submod/geometry"]
	path = source/external/boost_submod/geometry
	url = https://github.com/boostorg/geometry.git
[submodule "source/external/boost_submod/graph"]
	path = source/external/boost_submod/graph
	url = https://github.com/boostorg/graph.git
[submodule "source/external/boost_submod/interval"]
	path = source/external/boost_submod/interval
	url = https://github.com/boostorg/interval.git
[submodule "source/external/boost_submod/intrusive"]
	path = source/external/boost_submod/intrusive
	url = https://github.com/boostorg/intrusive.git
[submodule "source/external/boost_submod/io"]
	path = source/external/boost_submod/io
	url = https://github.com/boostorg/io.git
[submodule "source/external/boost_submod/iostreams"]
	path = source/external/boost_submod/iostreams
	url = https://github.com/boostorg/iostreams.git
[submodule "source/external/boost_submod/iterator"]
	path = source/external/boost_submod/iterator
	url = https://github.com/boostorg/iterator.git
[submodule "source/external/boost_submod/locale"]
	path = source/external/boost_submod/locale
	url = https://github.com/boostorg/locale.git
[submodule "source/external/boost_submod/math"]
	path = source/external/boost_submod/math
	url = https://github.com/boostorg/math.git
[submodule "source/external/boost_submod/move"]
	path = source/external/boost_submod/move
	url = https://github.com/boostorg/move.git
[submodule "source/external/boost_submod/mp11"]
	path = source/external/boost_submod/mp11
	url = https://github.com/boostorg/mp11.git
[submodule "source/external/boost_submod/mpi"]
	path = source/external/boost_submod/mpi
	url = https://github.com/boostorg/mpi.git
[submodule "source/external/boost_submod/mpl"]
	path = source/external/boost_submod/mpl
	url = https://github.com/boostorg/mpl.git
[submodule "source/external/boost_submod/multiprecision"]
	path = source/external/boost_submod/multiprecision
	url = https://github.com/boostorg/multiprecision.git
[submodule "source/external/boost_submod/numeric_conversion"]
	path = source/external/boost_submod/numeric_conversion
	url = https://github.com/boostorg/numeric_conversion.git
[submodule "source/external/boost_submod/optional"]
	path = source/external/boost_submod/optional
	url = https://github.com/boostorg/optional.git
[submodule "source/external/boost_submod/parameter"]
	path = source/external/boost_submod/parameter
	url = https://github.com/boostorg/parameter.git
[submodule "source/external/boost_submod/phoenix"]
	path = source/external/boost_submod/phoenix
	url = https://github.com/boostorg/phoenix.git
[submodule "source/external/boost_submod/pool"]
	path = source/external/boost_submod/pool
	url = https://github.com/boostorg/pool.git
[submodule "source/external/boost_submod/predef"]
	path = source/external/boost_submod/predef
	url = https://github.com/boostorg/predef.git
[submodule "source/external/boost_submod/preprocessor"]
	path = source/external/boost_submod/preprocessor
	url = https://github.com/boostorg/preprocessor.git
[submodule "source/external/boost_submod/property_map"]
	path = source/external/boost_submod/property_map
	url = https://github.com/boostorg/property_map.git
[submodule "source/external/boost_submod/property_tree"]
	path = source/external/boost_submod/property_tree
	url = https://github.com/boostorg/property_tree.git
[submodule "source/external/boost_submod/proto"]
	path = source/external/boost_submod/proto
	url = https://github.com/boostorg/proto.git
[submodule "source/external/boost_submod/ptr_container"]
	path = source/external/boost_submod/ptr_container
	url = https://github.com/boostorg/ptr_container.git
[submodule "source/external/boost_submod/python"]
	path = source/external/boost_submod/python
	url = https://github.com/boostorg/python.git
[submodule "source/external/boost_submod/qvm"]
	path = source/external/boost_submod/qvm
	url = https://github.com/boostorg/qvm.git
[submodule "source/external/boost_submod/random"]
	path = source/external/boost_submod/random
	url = https://github.com/boostorg/random.git
[submodule "source/external/boost_submod/range"]
	path = source/external/boost_submod/range
	url = https://github.com/boostorg/range.git
[submodule "source/external/boost_submod/ratio"]
	path = source/external/boost_submod/ratio
	url = https://github.com/boostorg/ratio.git
[submodule "source/external/boost_submod/rational"]
	path = source/external/boost_submod/rational
	url = https://github.com/boostorg/rational.git
[submodule "source/external/boost_submod/regex"]
	path = source/external/boost_submod/regex
	url = https://github.com/boostorg/regex.git
[submodule "source/external/boost_submod/serialization"]
	path = source/external/boost_submod/serialization
	url = https://github.com/boostorg/serialization.git
[submodule "source/external/boost_submod/smart_ptr"]
	path = source/external/boost_submod/smart_ptr
	url = https://github.com/boostorg/smart_ptr.git
[submodule "source/external/boost_submod/spirit"]
	path = source/external/boost_submod/spirit
	url = https://github.com/boostorg/spirit.git
[submodule "source/external/boost_submod/static_assert"]
	path = source/external/boost_submod/static_assert
	url = https://github.com/boostorg/static_assert.git
[submodule "source/external/boost_submod/system"]
	path = source/external/boost_submod/system
	url = https://github.com/boostorg/system.git
[submodule "source/external/boost_submod/thread"]
	path = source/external/boost_submod/thread
	url = https://github.com/boostorg/thread.git
[submodule "source/external/boost_submod/throw_exception"]
	path = source/external/boost_submod/throw_exception
	url = https://github.com/boostorg/throw_exception.git
[submodule "source/external/boost_submod/timer"]
	path = source/external/boost_submod/timer
	url = https://github.com/boostorg/timer.git
[submodule "source/external/boost_submod/tokenizer"]
	path = source/external/boost_submod/tokenizer
	url = https://github.com/boostorg/tokenizer.git
[submodule "source/external/boost_submod/tti"]
	path = source/external/boost_submod/tti
	url = https://github.com/boostorg/tti.git
[submodule "source/external/boost_submod/tuple"]
	path = source/external/boost_submod/tuple
	url = https://github.com/boostorg/tuple.git
[submodule "source/external/boost_submod/type_index"]
	path = source/external/boost_submod/type_index
	url = https://github.com/boostorg/type_index.git
[submodule "source/external/boost_submod/typeof"]
	path = source/external/boost_submod/typeof
	url = https://github.com/boostorg/typeof.git
[submodule "source/external/boost_submod/type_traits"]
	path = source/external/boost_submod/type_traits
	url = https://github.com/boostorg/type_traits.git
[submodule "source/external/boost_submod/ublas"]
	path = source/external/boost_submod/ublas
	url = https://github.com/boostorg/ublas.git
[submodule "source/external/boost_submod/unordered"]
	path = source/external/boost_submod/unordered
	url = https://github.com/boostorg/unordered.git
[submodule "source/external/boost_submod/utility"]
	path = source/external/boost_submod/utility
	url = https://github.com/boostorg/utility.git
[submodule "source/external/boost_submod/uuid"]
	path = source/external/boost_submod/uuid
	url = https://github.com/boostorg/uuid.git
[submodule "source/external/boost_submod/variant"]
	path = source/external/boost_submod/variant
	url = https://github.com/boostorg/variant.git
[submodule "source/external/boost_submod/winapi"]
	path = source/external/boost_submod/winapi
	url = https://github.com/boostorg/winapi.git
[submodule "source/external/boost_submod/xpressive"]
	path = source/external/boost_submod/xpressive
	url = https://github.com/boostorg/xpressive.git
[submodule "source/external/boost_submod/crc"]
	path = source/external/boost_submod/crc
	url = https://github.com/boostorg/crc.git
[submodule "source/external/boost_submod/flyweight"]
	path = source/external/boost_submod/flyweight
	url = https://github.com/boostorg/flyweight.git
[submodule "source/external/boost_submod/multi_array"]
	path = source/external/boost_submod/multi_array
	url = https://github.com/boostorg/multi_array.git
############################
# PyRosetta-build-related
###########################
[submodule "source/src/python/PyRosetta/binder"]
	path = source/src/python/PyRosetta/binder
	url = ../../RosettaCommons/binder.git
[submodule "source/external/pybind11"]
	path = source/external/pybind11
	url = ../../RosettaCommons/pybind11.git
###########################
# Rosetta modules
###########################
[submodule "tools"]
	path = tools
	url = ../../RosettaCommons/tools.git
[submodule "demos"]
	path = demos
	url = ../../RosettaCommons/demos.git
[submodule "documentation"]
	path = documentation
	url = ../../RosettaCommons/documentation.git
[submodule "database/additional_protocol_data"]
	path = database/additional_protocol_data
	url = ../../RosettaCommons/additional_protocol_data.git
[submodule "tests/scientific/data"]
	path = tests/scientific/data
	url = ../../RosettaCommons/scientific_benchmark_data.git
[submodule "rosetta_scripts_scripts"]
	path = rosetta_scripts_scripts
	url = ../../RosettaCommons/rosetta_scripts_scripts.git
[submodule "pyrosetta_scripts"]
	path = pyrosetta_scripts
	url = ../../RosettaCommons/pyrosetta_scripts.git
[submodule "PyRosetta.notebooks"]
	path = PyRosetta.notebooks
	url = ../../RosettaCommons/PyRosetta.notebooks.git
############################
[submodule "database/protocol_data/tensorflow_graphs/tensorflow_graph_repo_submodule"]
	path = database/protocol_data/tensorflow_graphs/tensorflow_graph_repo_submodule
	url = ../../RosettaCommons/tensorflow_graphs.git