.gitignore
.travis.yml
CONTRIBUTING.md
LICENSE
README.rst
docker-compose.yml
requirements.txt
setup.py
sourceme.sh
test_requirements.txt
.travis/config.yml
.travis/merge_script.sh
EMaligner/EM_aligner_python_schema.py
EMaligner/EMaligner.py
EMaligner/__init__.py
EMaligner.egg-info/PKG-INFO
EMaligner.egg-info/SOURCES.txt
EMaligner.egg-info/dependency_links.txt
EMaligner.egg-info/requires.txt
EMaligner.egg-info/top_level.txt
EMaligner/distributed/Doxyfile
EMaligner/distributed/em_dist_solve.c
EMaligner/distributed/em_solver.sh
EMaligner/distributed/ema.c
EMaligner/distributed/ema.h
EMaligner/distributed/makefile
EMaligner/distributed/one_file_one_node.c
EMaligner/distributed/sourceme.sh
EMaligner/distributed/sourceme_pastix_debug.sh
EMaligner/distributed/sourceme_pastix_nodebug.sh
EMaligner/distributed/sourceme_superlu_pastix_nodebug.sh
EMaligner/example_jsons/montage_test.json
EMaligner/example_jsons/small3D_test.json
EMaligner/qctools/CheckPointMatches.py
EMaligner/qctools/CheckResiduals.py
EMaligner/qctools/CheckTransforms.py
EMaligner/qctools/README.md
EMaligner/qctools/__init__.py
EMaligner/qctools/figures/pm_map_example.png
EMaligner/qctools/figures/residual_map_example.png
EMaligner/qctools/figures/transform_map_example.png
fakedata/README.md
fakedata/create_fake_image.py
fakedata/create_perfect_stack.py
fakedata/create_pointmatches.py
fakedata/create_raw_stack.py
fakedata/fake_schema.py
fakedata/pointmatch_template.json
fakedata/tilespec_template.json
fakedata/tspec.json
integration_tests/test_data.py
integration_tests/test_montage.py
integration_tests/test_rough.py
integration_tests/test_files/montage_pointmatches.json
integration_tests/test_files/montage_test.json
integration_tests/test_files/raw_tiles_for_montage.json
integration_tests/test_files/rough_input_matches.json
integration_tests/test_files/rough_input_tiles.json
integration_tests/test_files/rough_test.json
integration_tests/test_files/small3D_test.json
match_filtering/README.md