# 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