├── .codecov.yml ├── .github └── workflows │ └── ci.yaml ├── .gitignore ├── Dockerfile ├── LICENSE.txt ├── Makefile ├── README.md ├── automates ├── __init__.py ├── apps │ ├── CodeExplorer │ │ ├── .gitignore │ │ ├── .matplotlibrc │ │ ├── Dockerfile │ │ ├── README.md │ │ ├── __init__.py │ │ ├── app.py │ │ ├── app.wsgi │ │ ├── cyjs.py │ │ ├── grfn_with_alignments.json │ │ ├── petasce_with_alignments.json │ │ ├── petasce_with_alignments_2.json │ │ ├── requirements.txt │ │ ├── run.sh │ │ ├── setup_sista_vm.sh │ │ ├── static │ │ │ ├── codemirror │ │ │ │ ├── mode │ │ │ │ │ └── fortran │ │ │ │ │ │ └── fortran.js │ │ │ │ └── theme │ │ │ │ │ └── monokai.css │ │ │ ├── cytoscape-panzoom.css │ │ │ ├── cytoscape-panzoom.js │ │ │ ├── cytoscape-popper.js │ │ │ ├── example_programs │ │ │ │ ├── SIR-simple.f │ │ │ │ ├── cropYield.f │ │ │ │ ├── petASCE.f │ │ │ │ └── petPT.f │ │ │ ├── hyde.css │ │ │ ├── ml4ai.png │ │ │ ├── poole.css │ │ │ ├── style.css │ │ │ ├── syntax.css │ │ │ ├── tippy.css │ │ │ └── ua_logo.png │ │ ├── surface_plots.py │ │ └── templates │ │ │ ├── about.html │ │ │ ├── cyjs.js │ │ │ ├── editor.js │ │ │ ├── head.html │ │ │ ├── help.html │ │ │ ├── index.html │ │ │ ├── modelAnalysis.html │ │ │ ├── navbar.html │ │ │ └── sensitivityAnalysis.html │ ├── ModX │ │ ├── app.py │ │ ├── app.wsgi │ │ ├── static │ │ │ ├── css │ │ │ │ ├── hyde.css │ │ │ │ ├── poole.css │ │ │ │ ├── style.css │ │ │ │ ├── syntax.css │ │ │ │ └── tippy.css │ │ │ └── js │ │ │ │ └── controller.js │ │ └── templates │ │ │ ├── head.html │ │ │ ├── index.html │ │ │ ├── modals.html │ │ │ ├── model_comparison.html │ │ │ ├── navbar.html │ │ │ └── sidebar.html │ ├── automates │ │ ├── Dockerfile │ │ ├── README.md │ │ ├── automates.py │ │ ├── docker-compose.yaml │ │ ├── execute_driver.py │ │ ├── extract_driver.py │ │ ├── model │ │ │ ├── __init__.py │ │ │ ├── result │ │ │ │ └── api_response.py │ │ │ └── translate │ │ │ │ └── source.py │ │ ├── model_code │ │ │ ├── chime_sir.py │ │ │ ├── chime_sviivr.py │ │ │ └── sir_simple.py │ │ ├── restart.sh │ │ └── translation_driver.py │ └── pdfalign │ │ ├── README.md │ │ ├── align_latex │ │ ├── align_eq_bb.py │ │ ├── arxiv_utils.py │ │ ├── collect_latex.sh │ │ ├── collect_results.py │ │ ├── dsstats.py │ │ ├── evaluate_alignments.py │ │ ├── latex_expansion.py │ │ ├── latex_tokenizer.py │ │ ├── normalize.py │ │ └── tokenize_and_fragment.py │ │ ├── gather_annotations.py │ │ ├── pdfalign.py │ │ └── setup.py ├── docker-compose.yml ├── equation_reading │ ├── decoding.py │ ├── equation_extraction │ │ ├── .gitignore │ │ ├── Dockerfile │ │ ├── LREC2020Specific │ │ │ ├── __init__.py │ │ │ └── prune_annotation_eqns_from_opennmt.py │ │ ├── Makefile │ │ ├── README.md │ │ ├── README_FIRST.md │ │ ├── WYGIWYS_README.md │ │ ├── analyze_data.py │ │ ├── analyze_results.py │ │ ├── augmentation_arxiv.py │ │ ├── brat_stats.py │ │ ├── collect_data.py │ │ ├── containers │ │ │ ├── Singularity.im2markup │ │ │ └── Singularity.pytorch_skimage │ │ ├── convert_arxiv_output_to_opennmt.py │ │ ├── copy_src_for_annotation_eqns.py │ │ ├── data_collection │ │ │ ├── README_FIRST.md │ │ │ ├── __init__.py │ │ │ ├── collect_data.py │ │ │ ├── expand_arxiv.py │ │ │ ├── latex.py │ │ │ └── run_data_collection.sh │ │ ├── detection │ │ │ ├── Dockerfile │ │ │ ├── README.md │ │ │ ├── docker.sh │ │ │ ├── equation.py │ │ │ └── equation │ │ │ │ └── inspect_equation_data.ipynb │ │ ├── docker.sh │ │ ├── evaluation │ │ │ ├── __init__.py │ │ │ └── process_results.py │ │ ├── expand_arxiv.py │ │ ├── graveyard │ │ │ ├── WYGIWYS_README.md │ │ │ ├── analyze_data.py │ │ │ ├── brat_stats.py │ │ │ ├── im2markup_ocelote.md │ │ │ ├── json2brat.py │ │ │ └── process_images.py │ │ ├── im2markup_ocelote.md │ │ ├── image_utils.py │ │ ├── json2brat.py │ │ ├── latex.py │ │ ├── misc │ │ │ ├── policy.xml │ │ │ ├── template.tex │ │ │ ├── template_base.tex │ │ │ ├── template_font.tex │ │ │ └── template_im2markup.tex │ │ ├── normalize_formulas.py │ │ ├── opennmt_data_splits.sh │ │ ├── opennmt_environment_20191025.yml │ │ ├── postprocessing │ │ │ ├── __init__.py │ │ │ ├── augmentation_utils.py │ │ │ ├── convert_arxiv_output_to_opennmt.py │ │ │ ├── normalize_formulas.py │ │ │ ├── opennmt_data_splits.sh │ │ │ ├── rerender_formulas.py │ │ │ └── run_conversion_to_opennmt.sh │ │ ├── process_images.py │ │ ├── process_results.py │ │ ├── prune_annotation_eqns_from_opennmt.py │ │ ├── random │ │ │ ├── convert_tex_to_png.sh │ │ │ ├── convert_to_png.sh │ │ │ ├── copy_src_for_annotation_eqns.py │ │ │ ├── mk_asce_data.py │ │ │ ├── mk_asce_equation_images.py │ │ │ └── render_image_from_latex.py │ │ ├── render_image_from_latex.py │ │ ├── rerender_formulas.py │ │ ├── run_conversion_to_opennmt.sh │ │ ├── run_data_collection.sh │ │ ├── script_descriptions.md │ │ ├── utils.py │ │ └── utils │ │ │ ├── __init__.py │ │ │ ├── image_utils.py │ │ │ └── utils.py │ ├── equation_translation │ │ ├── Dockerfile │ │ ├── eqdec │ │ │ ├── .gitignore │ │ │ ├── Dockerfile │ │ │ ├── app.py │ │ │ ├── environment.yml │ │ │ └── readme.txt │ │ ├── img_translator.py │ │ └── preprocess_img.py │ └── latex_tokenizer.py ├── gromet │ ├── README.md │ ├── execution_engine │ │ ├── primitive_map.py │ │ └── types │ │ │ ├── array.py │ │ │ ├── binary.py │ │ │ ├── defined_types.py │ │ │ ├── indexable.py │ │ │ ├── iterable.py │ │ │ ├── iterator.py │ │ │ ├── list.py │ │ │ ├── map.py │ │ │ ├── other.py │ │ │ ├── record.py │ │ │ ├── sequence.py │ │ │ ├── set.py │ │ │ ├── test.py │ │ │ ├── tuple.py │ │ │ └── unary.py │ ├── fn │ │ ├── README.md │ │ ├── __init__.py │ │ ├── attribute_type.py │ │ ├── function_type.py │ │ ├── gromet_box.py │ │ ├── gromet_box_conditional.py │ │ ├── gromet_box_function.py │ │ ├── gromet_box_loop.py │ │ ├── gromet_fn.py │ │ ├── gromet_fn_module.py │ │ ├── gromet_fn_module_collection.py │ │ ├── gromet_object.py │ │ ├── gromet_port.py │ │ ├── gromet_wire.py │ │ ├── import_reference.py │ │ ├── import_type.py │ │ ├── literal_value.py │ │ ├── source_type.py │ │ └── typed_value.py │ ├── metadata │ │ ├── README.md │ │ ├── __init__.py │ │ ├── bibjson.py │ │ ├── code_file_reference.py │ │ ├── equation_definition.py │ │ ├── equation_extraction.py │ │ ├── equation_literal_value.py │ │ ├── gromet_creation.py │ │ ├── literal_value.py │ │ ├── metadata.py │ │ ├── program_analysis_record_bookkeeping.py │ │ ├── provenance.py │ │ ├── source_code_collection.py │ │ ├── source_code_comment.py │ │ ├── source_code_data_type.py │ │ ├── source_code_loop_init.py │ │ ├── source_code_loop_update.py │ │ ├── source_code_port_default_val.py │ │ ├── source_code_port_keyword_arg.py │ │ ├── source_code_reference.py │ │ ├── text_description.py │ │ ├── text_extraction.py │ │ ├── text_extraction_metadata.py │ │ ├── text_grounding.py │ │ ├── text_literal_value.py │ │ ├── text_units.py │ │ ├── textual_document_collection.py │ │ └── textual_document_reference.py │ └── query │ │ ├── __init__.py │ │ └── query.py ├── jupyter_tools.py ├── model_analysis │ ├── README.md │ ├── __init__.py │ ├── graph_manipulation.py │ ├── identification_algorithms.py │ ├── linking.py │ ├── mesa.py │ ├── networks.py │ ├── sensitivity.py │ ├── utils.py │ └── visualization.py ├── model_assembly │ ├── __init__.py │ ├── air.py │ ├── code_types.py │ ├── expression_trees │ │ ├── expression_visitor.py │ │ └── expression_walker.py │ ├── interfaces.py │ ├── interpreter.py │ ├── linking.py │ ├── metadata.py │ ├── model_dynamics.py │ ├── networks.py │ ├── sandbox.py │ └── structures.py ├── program_analysis │ ├── CAST2GrFN │ │ ├── __init__.py │ │ ├── ann_cast │ │ │ ├── ann_cast_helpers.py │ │ │ ├── ann_cast_pass_prototype.py │ │ │ ├── ann_cast_utility.py │ │ │ ├── annotated_cast.py │ │ │ ├── cast_to_annotated_cast.py │ │ │ ├── container_scope_pass.py │ │ │ ├── grfn_assignment_pass.py │ │ │ ├── grfn_var_creation_pass.py │ │ │ ├── id_collapse_pass.py │ │ │ ├── lambda_expression_pass.py │ │ │ ├── to_grfn_pass.py │ │ │ ├── to_gromet_pass.py │ │ │ └── variable_version_pass.py │ │ ├── cast.py │ │ ├── model │ │ │ ├── cast │ │ │ │ ├── __init__.py │ │ │ │ ├── assignment.py │ │ │ │ ├── ast_node.py │ │ │ │ ├── attribute.py │ │ │ │ ├── binary_op.py │ │ │ │ ├── binary_operator.py │ │ │ │ ├── boolean.py │ │ │ │ ├── call.py │ │ │ │ ├── dict.py │ │ │ │ ├── expr.py │ │ │ │ ├── function_def.py │ │ │ │ ├── list.py │ │ │ │ ├── literal_value.py │ │ │ │ ├── loop.py │ │ │ │ ├── model_break.py │ │ │ │ ├── model_continue.py │ │ │ │ ├── model_if.py │ │ │ │ ├── model_import.py │ │ │ │ ├── model_return.py │ │ │ │ ├── module.py │ │ │ │ ├── name.py │ │ │ │ ├── number.py │ │ │ │ ├── record_def.py │ │ │ │ ├── scalar_type.py │ │ │ │ ├── set.py │ │ │ │ ├── source_code_data_type.py │ │ │ │ ├── source_ref.py │ │ │ │ ├── string.py │ │ │ │ ├── structure_type.py │ │ │ │ ├── subscript.py │ │ │ │ ├── tuple.py │ │ │ │ ├── unary_op.py │ │ │ │ ├── unary_operator.py │ │ │ │ ├── value_constructor.py │ │ │ │ ├── var.py │ │ │ │ └── var_type.py │ │ │ └── cast_to_air_model.py │ │ └── visitors │ │ │ ├── __init__.py │ │ │ ├── cast_function_call_visitor.py │ │ │ ├── cast_to_agraph_visitor.py │ │ │ ├── cast_to_air_function_map.py │ │ │ ├── cast_to_air_visitor.py │ │ │ ├── cast_to_token_cast_visitor.py │ │ │ └── cast_visitor.py │ ├── Dockerfile │ ├── GCC2GrFN │ │ ├── __init__.py │ │ ├── gcc_ast_to_cast.py │ │ ├── gcc_ast_to_cast_utils.py │ │ ├── gcc_basic_blocks_to_digraph.py │ │ └── gcc_plugin_driver.py │ ├── JSON2GroMEt │ │ ├── __init__.py │ │ └── json2gromet.py │ ├── Py2GrFN │ │ ├── __init__.py │ │ ├── cast.py │ │ └── py2grfn.py │ ├── PyAST2CAST │ │ ├── __init__.py │ │ ├── modules_list.py │ │ └── py_ast_to_cast.py │ ├── README.md │ ├── __init__.py │ ├── for2py │ │ ├── .gitignore │ │ ├── README.md │ │ ├── __init__.py │ │ ├── arrays.py │ │ ├── bin │ │ │ ├── OpenFortranParser-0.8.4-3.jar │ │ │ ├── OpenFortranParserXML-0.4.1.jar │ │ │ ├── antlr-3.3-complete.jar │ │ │ └── commons-cli-1.4.jar │ │ ├── f2grfn.py │ │ ├── format.py │ │ ├── genCode.py │ │ ├── genModFileLog.py │ │ ├── genPGM.py │ │ ├── get_comments.py │ │ ├── loop_handle.py │ │ ├── math_ext.py │ │ ├── measure-coverage.py │ │ ├── mod_index_generator.py │ │ ├── preprocessor.py │ │ ├── pyTranslate.py │ │ ├── rectify.py │ │ ├── runner.py │ │ ├── static_save.py │ │ ├── strings.py │ │ ├── syntax.py │ │ ├── translate.py │ │ └── types_ext.py │ ├── gcc_plugin │ │ ├── README.md │ │ └── plugin │ │ │ ├── Makefile │ │ │ ├── ast_dump.cpp │ │ │ └── ast_dump_for.so │ └── translators │ │ └── for2py │ │ ├── .gitignore │ │ ├── Dockerfile │ │ ├── README.md │ │ ├── __init__.py │ │ ├── arrays.py │ │ ├── bin │ │ ├── OpenFortranParser-0.8.4-3.jar │ │ ├── OpenFortranParserXML-0.4.1.jar │ │ ├── antlr-3.3-complete.jar │ │ └── commons-cli-1.4.jar │ │ ├── f2grfn.py │ │ ├── format.py │ │ ├── genCode.py │ │ ├── genModFileLog.py │ │ ├── genPGM.py │ │ ├── get_comments.py │ │ ├── intrinsics.py │ │ ├── loop_handle.py │ │ ├── math_ext.py │ │ ├── measure-coverage.py │ │ ├── mod_index_generator.py │ │ ├── preprocessor.py │ │ ├── pyTranslate.py │ │ ├── rectify.py │ │ ├── runner.py │ │ ├── static_save.py │ │ ├── strings.py │ │ ├── syntax.py │ │ ├── translate.py │ │ └── types_ext.py ├── text_reading │ ├── .gitignore │ ├── .sbtopts │ ├── Dockerfile │ ├── README.md │ ├── build.sbt │ ├── docker │ │ ├── README.md │ │ ├── docker-compose.yml │ │ └── quantities │ │ │ └── Dockerfile │ ├── input │ │ ├── SIR │ │ │ ├── comments │ │ │ │ └── sir_comments.txt │ │ │ ├── grfn │ │ │ │ └── SIR-Gillespie-SD_GrFN.json │ │ │ ├── main.json │ │ │ └── text │ │ │ │ └── ideal_sir_model.json │ │ ├── comments │ │ │ ├── petasce_comments.txt │ │ │ └── petpt_extracted_comments.txt │ │ ├── equations │ │ │ └── sir_ideal_downsampledModel │ │ │ │ └── input │ │ │ │ └── predictions.txt │ │ ├── grfn │ │ │ └── petpt_grfn.json │ │ ├── input1.txt │ │ ├── petpt │ │ │ ├── comments │ │ │ │ └── petpt_extracted_comments.txt │ │ │ └── text │ │ │ │ └── 1998-FAO Irrigation and Drainage Paper No. 56 Crop Evapotranspiration (guidelines for computing crop water requirements).json │ │ └── text │ │ │ └── 1808.08773.json │ ├── install-mac.txt │ ├── notes.txt │ ├── project │ │ ├── build.properties │ │ └── plugins.sbt │ ├── requirements.txt │ ├── run_webapp │ ├── shell │ ├── sparql │ │ ├── query_svo.py │ │ ├── sparql.py │ │ ├── sparqlQuery.sparql │ │ ├── sparqlWikiWrapper.py │ │ └── sparqlWrapper.py │ ├── src │ │ ├── main │ │ │ ├── resources │ │ │ │ ├── AlignmentBaseline │ │ │ │ │ ├── greek2words.tsv │ │ │ │ │ └── mathSymbols.tsv │ │ │ │ ├── GreekLetter.tsv │ │ │ │ ├── application.conf │ │ │ │ ├── frequentWords.tsv │ │ │ │ ├── model.tsv │ │ │ │ ├── org │ │ │ │ │ └── clulab │ │ │ │ │ │ └── aske_automates │ │ │ │ │ │ └── grammars │ │ │ │ │ │ ├── comments │ │ │ │ │ │ ├── descriptions.yml │ │ │ │ │ │ ├── entities.yml │ │ │ │ │ │ ├── master.yml │ │ │ │ │ │ └── units.yml │ │ │ │ │ │ ├── context.yml │ │ │ │ │ │ ├── contextualizedEvents.yml │ │ │ │ │ │ ├── dates.yml │ │ │ │ │ │ ├── descriptions.yml │ │ │ │ │ │ ├── entities.yml │ │ │ │ │ │ ├── entities │ │ │ │ │ │ └── grammar │ │ │ │ │ │ │ ├── avoid.yml │ │ │ │ │ │ │ ├── entities.yml │ │ │ │ │ │ │ └── taxonomy.yml │ │ │ │ │ │ ├── functions.yml │ │ │ │ │ │ ├── locations.yml │ │ │ │ │ │ ├── markdown │ │ │ │ │ │ ├── commands.yml │ │ │ │ │ │ └── master.yml │ │ │ │ │ │ ├── master.yml │ │ │ │ │ │ ├── model.yml │ │ │ │ │ │ ├── modelDescriptions.yml │ │ │ │ │ │ ├── parameterSettings.yml │ │ │ │ │ │ ├── taxonomy.yml │ │ │ │ │ │ ├── template.yml │ │ │ │ │ │ ├── triggers.yml │ │ │ │ │ │ ├── unitRels.yml │ │ │ │ │ │ ├── units.yml │ │ │ │ │ │ ├── unused │ │ │ │ │ │ ├── master_variables.yml │ │ │ │ │ │ └── unused_rules.yml │ │ │ │ │ │ ├── values.yml │ │ │ │ │ │ └── vars.yml │ │ │ │ ├── reference.conf │ │ │ │ ├── stopWords.tsv │ │ │ │ └── unit.tsv │ │ │ └── scala │ │ │ │ └── org │ │ │ │ └── clulab │ │ │ │ ├── aske │ │ │ │ └── automates │ │ │ │ │ ├── OdinActions.scala │ │ │ │ │ ├── OdinEngine.scala │ │ │ │ │ ├── actions │ │ │ │ │ └── ExpansionHandler.scala │ │ │ │ │ ├── alignment │ │ │ │ │ └── Aligner.scala │ │ │ │ │ ├── apps │ │ │ │ │ ├── AlignmentBaseline.scala │ │ │ │ │ ├── AutomatesShell.scala │ │ │ │ │ ├── ExportDoc.scala │ │ │ │ │ ├── ExtractAndAlign.scala │ │ │ │ │ ├── ExtractAndAssembleMentionEvents.scala │ │ │ │ │ ├── ExtractAndExport.scala │ │ │ │ │ └── ParsePdfsToJson.scala │ │ │ │ │ ├── attachments │ │ │ │ │ └── AutomatesAttachment.scala │ │ │ │ │ ├── cosmosjson │ │ │ │ │ ├── CosmosDocument.scala │ │ │ │ │ └── CosmosJsonProcessor.scala │ │ │ │ │ ├── data │ │ │ │ │ ├── DataLoader.scala │ │ │ │ │ ├── Preprocessor.scala │ │ │ │ │ └── Router.scala │ │ │ │ │ ├── entities │ │ │ │ │ ├── EntityConstraints.scala │ │ │ │ │ ├── EntityFinder.scala │ │ │ │ │ ├── EntityHelper.scala │ │ │ │ │ ├── GazetteerEntityFinder.scala │ │ │ │ │ ├── GrobidEntityFinder.scala │ │ │ │ │ ├── RuleBasedEntityFinder.scala │ │ │ │ │ └── StringMatchEntityFinder.scala │ │ │ │ │ ├── grfn │ │ │ │ │ ├── GrFNDocument.scala │ │ │ │ │ └── GrFNParser.scala │ │ │ │ │ ├── mentions │ │ │ │ │ └── CrossSentenceEventMention.scala │ │ │ │ │ ├── quantities │ │ │ │ │ ├── GrobidQuantitiesClient.scala │ │ │ │ │ └── Measurement.scala │ │ │ │ │ ├── scienceparse │ │ │ │ │ ├── ScienceParseClient.scala │ │ │ │ │ └── ScienceParseDocument.scala │ │ │ │ │ └── serializer │ │ │ │ │ └── AutomatesSerializer.scala │ │ │ │ ├── grounding │ │ │ │ ├── SVOGrounder.scala │ │ │ │ └── WikiGrounder.scala │ │ │ │ └── utils │ │ │ │ ├── AlignmentUtils.scala │ │ │ │ ├── DisplayUtils.scala │ │ │ │ ├── DocumentFilter.scala │ │ │ │ ├── FileUtils.scala │ │ │ │ ├── MentionUtils.scala │ │ │ │ ├── Sinker.scala │ │ │ │ └── Sourcer.scala │ │ └── test │ │ │ ├── resources │ │ │ ├── align_payload-for-testing.json │ │ │ ├── double-epidemic-and-chime--GrFN.json │ │ │ ├── double-epidemic-and-chime--documentation.json │ │ │ ├── double-epidemic-and-chime--mentions.json │ │ │ ├── double-epidemic-and-chime-samples-eqns.txt │ │ │ ├── double-epidemic-and-chime-science-parse.json │ │ │ ├── double_epidemic_comment--mentions.json │ │ │ ├── test.conf │ │ │ ├── testTaxonomy.yml │ │ │ └── toy_document_tex │ │ │ │ ├── bmc-mathphys.bst │ │ │ │ ├── bmc_article.bib │ │ │ │ ├── bmc_article.tex │ │ │ │ ├── bmcart-biblio.sty │ │ │ │ ├── bmcart.cls │ │ │ │ ├── readme.html │ │ │ │ ├── spbasic.bst │ │ │ │ └── vancouver.bst │ │ │ └── scala │ │ │ └── org │ │ │ └── clulab │ │ │ └── aske │ │ │ └── automates │ │ │ ├── TestUtils.scala │ │ │ ├── alignment │ │ │ ├── TestAlign.scala │ │ │ └── TestPairwiseW2VAligner.scala │ │ │ ├── entities │ │ │ └── TestStringMatchEntityFinder.scala │ │ │ ├── serialization │ │ │ ├── TestConjDescrSerialization.scala │ │ │ └── TestCrossSentenceSerialization.scala │ │ │ └── text │ │ │ ├── TestAttachments.scala │ │ │ ├── TestCommentDescriptions.scala │ │ │ ├── TestCommentIdentifiers.scala │ │ │ ├── TestCommentUnits.scala │ │ │ ├── TestConjunctions.scala │ │ │ ├── TestContext.scala │ │ │ ├── TestDescriptions.scala │ │ │ ├── TestFunctionFragments.scala │ │ │ ├── TestFunctions.scala │ │ │ ├── TestIdentifiers.scala │ │ │ ├── TestModelDescrs.scala │ │ │ ├── TestModelName.scala │ │ │ ├── TestParameterSetting.scala │ │ │ ├── TestParameterSettingInterval.scala │ │ │ └── TestUnits.scala │ └── webapp │ │ ├── .g8 │ │ └── form │ │ │ ├── app │ │ │ ├── controllers │ │ │ │ └── $model__Camel$Controller.scala │ │ │ └── views │ │ │ │ └── $model__camel$ │ │ │ │ └── form.scala.html │ │ │ ├── default.properties │ │ │ └── test │ │ │ └── controllers │ │ │ └── $model__Camel$ControllerSpec.scala │ │ ├── .gitignore │ │ ├── app │ │ ├── controllers │ │ │ ├── HomeController.scala │ │ │ ├── JsonUtils.scala │ │ │ └── PlayUtils.scala │ │ └── views │ │ │ └── index.scala.html │ │ ├── build.sbt │ │ ├── conf │ │ ├── application.conf │ │ ├── logback.xml │ │ ├── messages │ │ └── routes │ │ ├── project │ │ ├── build.properties │ │ └── scaffold.sbt │ │ ├── public │ │ ├── brat │ │ │ ├── client │ │ │ │ ├── lib │ │ │ │ │ ├── head.load.min.js │ │ │ │ │ ├── jquery-ui-1.8.16.custom.min.js │ │ │ │ │ ├── jquery-ui.combobox.js │ │ │ │ │ ├── jquery-ui.min.js │ │ │ │ │ ├── jquery.ba-bbq.min.js │ │ │ │ │ ├── jquery.json.min.js │ │ │ │ │ ├── jquery.min.js │ │ │ │ │ ├── jquery.svg.min.js │ │ │ │ │ ├── jquery.svgdom.min.js │ │ │ │ │ ├── sprintf.js │ │ │ │ │ └── webfont.js │ │ │ │ └── src │ │ │ │ │ ├── ajax.js │ │ │ │ │ ├── annotation_log.js │ │ │ │ │ ├── annotator_ui.js │ │ │ │ │ ├── configuration.js │ │ │ │ │ ├── dispatcher.js │ │ │ │ │ ├── offline_ajax.js │ │ │ │ │ ├── spinner.js │ │ │ │ │ ├── url_monitor.js │ │ │ │ │ ├── util.js │ │ │ │ │ ├── visualizer.js │ │ │ │ │ └── visualizer_ui.js │ │ │ └── static │ │ │ │ ├── case-studies │ │ │ │ ├── 11419822-full.png │ │ │ │ ├── 11419822-small.png │ │ │ │ ├── 1334229-04-Results-p02-full.png │ │ │ │ ├── 1334229-04-Results-p02-small.png │ │ │ │ ├── AImed.png │ │ │ │ ├── GREC.png │ │ │ │ ├── PMID-1492121-full.png │ │ │ │ ├── PMID-1492121-small.png │ │ │ │ ├── PMID-20300060-full.png │ │ │ │ ├── PMID-20300060-small.png │ │ │ │ ├── biocreative-2-GN.png │ │ │ │ ├── esp.train-doc-536-full.png │ │ │ │ ├── esp.train-doc-536-small.png │ │ │ │ ├── susumu-full.png │ │ │ │ ├── susumu-small.png │ │ │ │ ├── swedish_talbanken05_train.conll-doc-880-full.png │ │ │ │ ├── swedish_talbanken05_train.conll-doc-880-small.png │ │ │ │ ├── train.txt-doc-109-full.png │ │ │ │ └── train.txt-doc-109-small.png │ │ │ │ ├── example-READMEs │ │ │ │ ├── CoNLL-2000 │ │ │ │ │ └── README │ │ │ │ ├── CoNLL-2002 │ │ │ │ │ └── README │ │ │ │ └── CoNLL-2006 │ │ │ │ │ └── README │ │ │ │ ├── fonts │ │ │ │ ├── Astloch-Bold.ttf │ │ │ │ ├── Liberation_Sans-Regular.svg │ │ │ │ ├── Liberation_Sans-Regular.ttf │ │ │ │ ├── PT_Sans-Caption-Web-Regular.svg │ │ │ │ └── PT_Sans-Caption-Web-Regular.ttf │ │ │ │ ├── img │ │ │ │ ├── Fugue-document.png │ │ │ │ ├── Fugue-folder-horizontal-open.png │ │ │ │ ├── Fugue-shadowless-document.png │ │ │ │ ├── Fugue-shadowless-exclamation-white.png │ │ │ │ ├── Fugue-shadowless-exclamation.png │ │ │ │ ├── Fugue-shadowless-external.png │ │ │ │ ├── Fugue-shadowless-folder-horizontal-open.png │ │ │ │ ├── Fugue-shadowless-information-balloon.png │ │ │ │ ├── Fugue-shadowless-magnifier.png │ │ │ │ ├── Fugue-shadowless-question.png │ │ │ │ ├── LICENSE │ │ │ │ ├── arrow-180.png │ │ │ │ ├── arrow.png │ │ │ │ ├── collapse_icon.gif │ │ │ │ ├── expand_icon.gif │ │ │ │ └── spinner.gif │ │ │ │ ├── jquery-theme │ │ │ │ ├── images │ │ │ │ │ ├── ui-bg_flat_0_aaaaaa_40x100.png │ │ │ │ │ ├── ui-bg_flat_55_fbec88_40x100.png │ │ │ │ │ ├── ui-bg_glass_75_d0e5f5_1x400.png │ │ │ │ │ ├── ui-bg_glass_85_dfeffc_1x400.png │ │ │ │ │ ├── ui-bg_glass_95_fef1ec_1x400.png │ │ │ │ │ ├── ui-bg_gloss-wave_55_5c9ccc_500x100.png │ │ │ │ │ ├── ui-bg_inset-hard_100_f5f8f9_1x100.png │ │ │ │ │ ├── ui-bg_inset-hard_100_fcfdfd_1x100.png │ │ │ │ │ ├── ui-icons_217bc0_256x240.png │ │ │ │ │ ├── ui-icons_2e83ff_256x240.png │ │ │ │ │ ├── ui-icons_469bdd_256x240.png │ │ │ │ │ ├── ui-icons_6da8d5_256x240.png │ │ │ │ │ ├── ui-icons_cd0a0a_256x240.png │ │ │ │ │ ├── ui-icons_d8e7f3_256x240.png │ │ │ │ │ └── ui-icons_f9bd01_256x240.png │ │ │ │ ├── jquery-ui-redmond.css │ │ │ │ └── jquery-ui.css │ │ │ │ ├── style-ui.css │ │ │ │ ├── style-vis.css │ │ │ │ └── style.css │ │ ├── images │ │ │ ├── favicon.ico │ │ │ └── loading.svg │ │ ├── javascripts │ │ │ ├── jquery-3.2.1.min.js │ │ │ └── main.js │ │ └── stylesheets │ │ │ └── main.css │ │ └── test │ │ └── controllers │ │ └── HomeControllerSpec.scala └── utils │ ├── astpp.py │ ├── fold.py │ ├── fp.py │ ├── misc.py │ ├── parameters.py │ └── script_functions.py ├── docs ├── Gemfile ├── _config.yml ├── _includes │ ├── head.html │ ├── sidebar.html │ └── toc.html ├── _layouts │ ├── default.html │ ├── page.html │ └── post.html ├── confluence_example.png ├── documentation │ ├── README.md │ ├── TR-standalone-reading-instructions.md │ ├── deliverable_reports │ │ ├── .gitignore │ │ ├── README.md │ │ ├── build_report.py │ │ ├── index.md │ │ ├── m01_architecture_report │ │ │ ├── GrFN_specification_v0.1.md │ │ │ ├── code_summarization.md │ │ │ ├── delphi_representation.md │ │ │ ├── equations.md │ │ │ ├── fig_sources │ │ │ │ ├── 20181127-automates_arch_sketch.HEIC │ │ │ │ ├── 20181127-automates_arch_sketch.png │ │ │ │ ├── 20181127-pa_detail.HEIC │ │ │ │ ├── 20181127-pa_detail.png │ │ │ │ ├── 20181129_architecture.graffle │ │ │ │ │ ├── data.plist │ │ │ │ │ └── image2.png │ │ │ │ ├── 20181129_equation-pipeline-big-picture.jpg │ │ │ │ ├── 20181129_equation-pipeline-data-training.jpg │ │ │ │ ├── 20181130_nlp-pipeline.png │ │ │ │ └── aabb.png │ │ │ ├── figs │ │ │ │ ├── 20181129_architecture.png │ │ │ │ ├── 20181129_architecture_numbered.png │ │ │ │ └── reynolds_number_equation_screenshot.png │ │ │ ├── for2py.md │ │ │ ├── grfn.md │ │ │ ├── index.md │ │ │ ├── introduction.md │ │ │ ├── machine_reading.md │ │ │ └── model_analysis.md │ │ ├── m03_report_prototype_system │ │ │ ├── .gitignore │ │ │ ├── GrFN_specification_v0.1.m3.md │ │ │ ├── code_summarization.md │ │ │ ├── equations.md │ │ │ ├── figs │ │ │ │ ├── extractions.png │ │ │ │ ├── full-asce-cmb.png │ │ │ │ ├── full-pt-cmb.png │ │ │ │ ├── module_corpus_contributions.png │ │ │ │ ├── petpt_equations_example.png │ │ │ │ ├── plant_s1_est.png │ │ │ │ ├── sa_inputs_vs_runtime.png │ │ │ │ ├── sa_samples_vs_runtime.png │ │ │ │ └── webapp_screenshot.png │ │ │ ├── for2py.md │ │ │ ├── grfn.md │ │ │ ├── index.md │ │ │ ├── machine_reading.md │ │ │ ├── model_analysis.md │ │ │ ├── model_analysis_extra.md │ │ │ ├── overview.md │ │ │ └── webapp.md │ │ ├── m05_final_phase1_report │ │ │ ├── .gitignore │ │ │ ├── GrFN_specification_v0.1.m5.md │ │ │ ├── code_summarization.md │ │ │ ├── components.md │ │ │ ├── equation_reading.md │ │ │ ├── figs │ │ │ │ ├── bad_sympy.png │ │ │ │ ├── code_summ │ │ │ │ │ ├── code-crawler.png │ │ │ │ │ └── code-crawler.pptx │ │ │ │ ├── codex_annotations.png │ │ │ │ ├── codex_cag.png │ │ │ │ ├── codex_computational_graph.png │ │ │ │ ├── codex_lambdas.png │ │ │ │ ├── codex_mc_asce_fib.png │ │ │ │ ├── codex_model_comparison.png │ │ │ │ ├── codex_s2_surface.png │ │ │ │ ├── codex_sensitivity_bounds_warning.png │ │ │ │ ├── equation-architecture.png │ │ │ │ ├── equation-architecture.pptx │ │ │ │ ├── extractions.png │ │ │ │ ├── figs_eqns.pptx │ │ │ │ ├── for2py-architecture.png │ │ │ │ ├── good_sympy.png │ │ │ │ ├── j_psi.png │ │ │ │ ├── mismatched_braces.png │ │ │ │ ├── model_analysis │ │ │ │ │ ├── GrFN spec.png │ │ │ │ │ ├── Lambdas.png │ │ │ │ │ ├── PETPT_FIB_CAG.png │ │ │ │ │ ├── PETPT_GrFN.png │ │ │ │ │ ├── SA_compute_time.png │ │ │ │ │ ├── Sensitivity Surface.png │ │ │ │ │ ├── model-analysis.png │ │ │ │ │ ├── model-analysis.pptx │ │ │ │ │ ├── other GrFN.png │ │ │ │ │ ├── petasce_fib.png │ │ │ │ │ ├── petasce_grfn.png │ │ │ │ │ └── sensitivity indices.png │ │ │ │ ├── mult_mentions_wrong.png │ │ │ │ ├── paramSettingVisualization.png │ │ │ │ ├── stack_trace.png │ │ │ │ ├── textrdg-architecture.png │ │ │ │ └── textrdg-architecture.pptx │ │ │ ├── for2py-architecture.pptx │ │ │ ├── for2py.md │ │ │ ├── grfn.md │ │ │ ├── index.md │ │ │ ├── model_analysis.md │ │ │ ├── overview.md │ │ │ ├── readmes │ │ │ │ ├── README_arxiv.md │ │ │ │ ├── README_development_webapp.md │ │ │ │ ├── README_equation_decoding.md │ │ │ │ ├── README_equation_detection.md │ │ │ │ └── README_extract_and_align.md │ │ │ ├── references.md │ │ │ ├── text_reading.md │ │ │ └── webapp.md │ │ ├── m06_milestone_report │ │ │ ├── .gitignore │ │ │ ├── code_summarization.md │ │ │ ├── equation_reading.md │ │ │ ├── index.md │ │ │ ├── m6_milestone_report.tex │ │ │ ├── model_analysis.md │ │ │ ├── overview.md │ │ │ ├── program_analysis.md │ │ │ ├── references.md │ │ │ ├── sources │ │ │ │ ├── MA-report_model_analysis.tex │ │ │ │ └── TR-ER.txt │ │ │ └── text_reading.md │ │ ├── m09_milestone_report │ │ │ ├── GrFN_specification_v0.1.m9.md │ │ │ ├── equation_reading.md │ │ │ ├── figs │ │ │ │ ├── annotation_example.png │ │ │ │ ├── grounding.png │ │ │ │ ├── units_comment.png │ │ │ │ └── units_text.png │ │ │ ├── grfn.md │ │ │ ├── index.md │ │ │ ├── linking.md │ │ │ ├── m09_milestone_report.tex │ │ │ ├── model_analysis.md │ │ │ ├── overview.md │ │ │ ├── program_analysis.md │ │ │ └── text_reading.md │ │ ├── m11_milestone_report │ │ │ ├── demo.md │ │ │ ├── equation_reading.md │ │ │ ├── figs │ │ │ │ ├── EXIT-example.png │ │ │ │ ├── SIR-gillespie-CAG_alt.png │ │ │ │ ├── SIR-gillespie_alt.png │ │ │ │ ├── SIR-simple--GrFN.png │ │ │ │ ├── eqn.png │ │ │ │ ├── example_eqn.png │ │ │ │ ├── greek.png │ │ │ │ ├── greek1.png │ │ │ │ ├── grounding.png │ │ │ │ ├── multi-call-example.png │ │ │ │ └── translated-WD.png │ │ │ ├── grfn.md │ │ │ ├── index.md │ │ │ ├── linking.md │ │ │ ├── model_analysis.md │ │ │ ├── overview.md │ │ │ ├── program_analysis.md │ │ │ └── text_reading.md │ │ └── pandoc_report_template.tex │ ├── equation_reading.md │ ├── presentations │ │ ├── ASKE_Kickoff_UA_AutoMATES.pdf │ │ └── index.md │ ├── tech_reports │ │ └── model_analysis │ │ │ └── README.md │ └── wiki_images │ │ ├── DefinitionExample.png │ │ ├── ParamSettingExample.png │ │ ├── ParamSettingIntervalExample.png │ │ ├── UnitExample.png │ │ └── aske_tr_webapp.png ├── index.md ├── public │ ├── apple-touch-icon-144-precomposed.png │ ├── css │ │ ├── hyde.css │ │ ├── poole.css │ │ └── syntax.css │ └── favicon.ico ├── software.md └── team.md ├── environment.yml ├── notebooks ├── .gitignore ├── GrFN2WiringDiagram │ ├── SIR-Gillespie-SD__alt.f │ ├── SIR-simple.f │ ├── SIR-simple__functions.jl │ ├── SIR-simple__wiring.jl │ ├── example_GrFN2WD_translation.ipynb │ └── translate.py ├── ISA.ipynb ├── MA-Demo.ipynb ├── compareS2.py ├── gromet │ ├── .gitignore │ ├── CHIME_SIR_while_loop.py │ ├── gromet_query.ipynb │ ├── py_src_to_grometFNModuleCollection_JSON.ipynb │ ├── py_src_to_grometFN_JSON.ipynb │ └── system_filepaths.txt ├── model_analysis │ └── sensitivity_analysis │ │ └── sensitivity_notebook.ipynb ├── multi-model-analysis.ipynb ├── notes_SensitivityAnalysis.tex ├── penman.py ├── single-model-analysis.ipynb └── soboltable.py ├── requirements.txt ├── scripts ├── code_summarization │ ├── README.md │ ├── bleu.py │ ├── classfiers.py │ ├── code-crawler │ │ ├── code_crawler.py │ │ ├── duplicate_search.py │ │ └── main.py │ ├── generation.py │ ├── generators.py │ ├── main.py │ ├── requirements.txt │ ├── utils.py │ └── utils │ │ ├── build_classification_datasets.py │ │ ├── build_generation_dataset.py │ │ ├── character_data.py │ │ ├── clean_comments.py │ │ ├── code_finder.py │ │ ├── combine_negs.py │ │ ├── corpus_stats.py │ │ ├── dataset_scores.py │ │ ├── max_code_length.py │ │ ├── negative_examples.py │ │ ├── output_viewer.py │ │ ├── w2v.sh │ │ └── word_freq.py ├── equation_reading │ ├── .gitignore │ ├── PETASCE_py_eqns.txt │ ├── README.md │ ├── batch_decode_eq_images.py │ ├── compare_decoded.py │ ├── equations.txt │ ├── mathjax │ │ ├── render_latex+mathml │ │ │ ├── images │ │ │ │ ├── 0.png │ │ │ │ ├── 1.png │ │ │ │ ├── 2.png │ │ │ │ └── 3.png │ │ │ ├── json-to-js.py │ │ │ ├── latex_data_dev.js │ │ │ ├── render_equations.html │ │ │ └── static │ │ │ │ ├── css │ │ │ │ └── style.css │ │ │ │ └── js │ │ │ │ └── generate-table.js │ │ ├── render_mathml │ │ │ ├── mathml_data_dev.js │ │ │ ├── render_mathml.html │ │ │ └── static │ │ │ │ ├── css │ │ │ │ └── style.css │ │ │ │ └── js │ │ │ │ └── generate-table.js │ │ └── webservice │ │ │ ├── .gitignore │ │ │ ├── README.md │ │ │ ├── big_tex_data.json │ │ │ ├── converter.py │ │ │ ├── package.json │ │ │ ├── server.js │ │ │ └── tex_data.json │ ├── render_eq_img_from_latex.py │ └── tex2py.py ├── ghidra │ ├── DumpRefined.py │ ├── DumpUnrefined.py │ └── README.md ├── gromet │ └── manual_metadata_CHIME_SIR.py ├── harness │ ├── README.md │ ├── generate.py │ ├── harness.py │ └── validate.py ├── mesa │ └── mesa_comparison_tree_example.py ├── model_analysis │ ├── ECD_comparison.py │ ├── SIR_demo │ │ ├── DiscreteSEIRD.jl │ │ ├── DiscreteSIR-noarrays.f │ │ ├── DiscreteSIR-simple.f │ │ ├── DiscreteSIR.f │ │ ├── DiscreteSIR.jl │ │ ├── DiscreteSIR.py │ │ ├── PYTHON-RANDOM_SEQ │ │ └── demo_generate_grfn.py │ ├── TED_example_loader.py │ ├── ZS-TED.py │ ├── cag_converter.py │ ├── dreal_example.py │ ├── identification_examples.py │ ├── intervaltree.py │ ├── pet_fib_comparison.py │ ├── pet_mesa.py │ ├── sa_results_to_csv.py │ ├── simple_sir_sa.py │ ├── soilt_sa.py │ └── test_isa.py ├── model_assembly │ ├── CHIME_beta_comp_experiment.py │ ├── air2grfn.py │ ├── alignment2link_graph.py │ ├── alignment_experiment.py │ ├── cosmos_integration.py │ ├── expression_walker.py │ ├── extract_model_dynamics.py │ ├── grfn2pdf.py │ ├── grfn_json_to_cag.py │ ├── grfn_links_to_csv.py │ ├── parquet_explorer.py │ ├── test_eqdec.py │ └── unique_hypothesis_links.py ├── program_analysis │ ├── PETASCE_simple.py │ ├── PETASCE_simple_preprocessed.f │ ├── PETASCE_simple_preprocessed.xml │ ├── PETASCE_simple_variable_map.pkl │ ├── README.md │ ├── ast_explorer.py │ ├── astpp.py │ ├── call_graph.py │ ├── cast_json_to_air.py │ ├── cast_json_to_grfn.py │ ├── cast_to_agraph.py │ ├── cast_to_token_cast.py │ ├── dependency_viewer.py │ ├── f2grfn_standalone.py │ ├── for_py_output_diff │ │ ├── README.md │ │ ├── tmp1.f │ │ └── tmp1.py │ ├── gcc_json_to_cast.py │ ├── gcc_to_agraph.py │ ├── massage-fortran.py │ ├── measuring-coverage-02.py │ ├── measuring-coverage.py │ ├── modFileLog.json │ ├── multi_file_ingester.py │ ├── python2cast.py │ ├── rectified_PETASCE_simple.xml │ ├── run_ann_cast_pipeline.py │ ├── run_gcc_to_grfn.py │ └── run_python_to_grfn.py ├── swagger │ └── codegen_swagger_models.py ├── tex2py.py └── text_reading │ ├── align_json_package.py │ ├── beautify_cosmos_with_ftfy.py │ ├── extract_align_ground.py │ └── svo_grounding_viewer.py ├── setup.py └── tests ├── apps └── automates │ └── execution │ └── test_gromet_experiment_execution.py ├── data ├── GrFN │ ├── PETASCE_simple.json │ ├── PETASCE_simple_lambdas.py │ ├── PETASCE_simple_torch.json │ ├── PETASCE_simple_torch_lambdas.py │ ├── PETPT_lambdas.py │ ├── PETPT_torch_lambdas.py │ ├── crop_yield.json │ └── crop_yield_lambdas.py ├── TR │ ├── query-results.json │ └── var_terms.json ├── equation_reading │ ├── sample_equations.txt │ └── sample_output.txt ├── model_analysis │ ├── CHIME-SIR.for │ ├── CHIME-SIR.for.005t.gimple │ ├── CHIME-SIR.py │ ├── CHIME-SIR_AIR.json │ ├── CHIME.for │ ├── PNO-alignment.json │ ├── PT_GrFN.json │ ├── mini_ModuleDefs.for │ └── mini_PET.for ├── model_assembly │ ├── AIR │ │ └── PID--AIR.json │ ├── GrFN │ │ ├── PETPT--GrFN.json │ │ ├── PID--GrFN.json │ │ ├── PID-model--GrFN.json │ │ └── PID_from_air--GrFN.json │ └── expression_visitor │ │ ├── binary_ops.json │ │ ├── boolean_ops.json │ │ ├── comparative_ops.json │ │ ├── complex_ops.json │ │ ├── sample_network.pkl │ │ ├── single_values.json │ │ └── unary_ops.json └── program_analysis │ ├── .gitignore │ ├── CAST2GrFN │ ├── ann_cast_pipeline │ │ ├── GE_antiw--AnnCast.pickled │ │ ├── GE_antiw--GrFN.json │ │ ├── GE_antiw2--AnnCast.pickled │ │ ├── GE_antiw2--CAST.json │ │ ├── GE_antiw2--GrFN.json │ │ ├── GE_antiw2_gcc_ast.json │ │ ├── GE_antiw_gcc_ast.json │ │ ├── GE_sat--AnnCast.pickled │ │ ├── GE_sat--GrFN.json │ │ ├── GE_sat_gcc_ast.json │ │ ├── GE_simple--AnnCast.pickled │ │ ├── GE_simple--GrFN.json │ │ ├── GE_simple_PI_controller-antiwindup--AnnCast.pickled │ │ ├── GE_simple_PI_controller-antiwindup--CAST.json │ │ ├── GE_simple_PI_controller-antiwindup--GrFN.json │ │ ├── GE_simple_PI_controller-antiwindup_gcc_ast.json │ │ ├── GE_simple_PI_controller_saturation--AnnCast.pickled │ │ ├── GE_simple_PI_controller_saturation--CAST.json │ │ ├── GE_simple_PI_controller_saturation--GrFN.json │ │ ├── GE_simple_PI_controller_saturation_gcc_ast.json │ │ ├── GE_simple_gcc_ast.json │ │ ├── GE_temp--AnnCast.pickled │ │ ├── GE_temp--CAST.json │ │ ├── GE_temp--GrFN.json │ │ ├── GE_temp_gcc_ast.json │ │ ├── c_ex4--AnnCast.pickled │ │ ├── c_ex4--CAST.json │ │ ├── c_ex4--GrFN.json │ │ ├── c_ex4_gcc_ast.json │ │ ├── call--AnnCast.pickled │ │ ├── call--CAST.json │ │ ├── call--GrFN.json │ │ ├── call_gcc_ast.json │ │ ├── case1--AnnCast.pickled │ │ ├── case1--CAST.json │ │ ├── case1--GrFN.json │ │ ├── case1_gcc_ast.json │ │ ├── case2--AnnCast.pickled │ │ ├── case2--CAST.json │ │ ├── case2--GrFN.json │ │ ├── case2_gcc_ast.json │ │ ├── case3--AnnCast.pickled │ │ ├── case3--CAST.json │ │ ├── case3--GrFN.json │ │ ├── case3_gcc_ast.json │ │ ├── case4--AnnCast.pickled │ │ ├── case4--CAST.json │ │ ├── case4--GrFN.json │ │ ├── case4_gcc_ast.json │ │ ├── case5--AnnCast.pickled │ │ ├── case5--CAST.json │ │ ├── case5--GrFN.json │ │ ├── case5_gcc_ast.json │ │ ├── case6--AnnCast.pickled │ │ ├── case6--CAST.json │ │ ├── case6--GrFN.json │ │ ├── case6_gcc_ast.json │ │ ├── case7--AnnCast.pickled │ │ ├── case7--CAST.json │ │ ├── case7--GrFN.json │ │ ├── case7_gcc_ast.json │ │ ├── case8--AnnCast.pickled │ │ ├── case8--CAST.json │ │ ├── case8--GrFN.json │ │ ├── case8_gcc_ast.json │ │ ├── complex_operator1--AnnCast.pickled │ │ ├── complex_operator1--CAST.json │ │ ├── complex_operator1--GrFN.json │ │ ├── complex_operator1_gcc_ast.json │ │ ├── cscope--AnnCast.pickled │ │ ├── cscope--CAST.json │ │ ├── cscope--GrFN.json │ │ ├── cscope_gcc_ast.json │ │ ├── empty_interf--AnnCast.pickled │ │ ├── empty_interf--GrFN.json │ │ ├── empty_interf2--AnnCast.pickled │ │ ├── empty_interf2--GrFN.json │ │ ├── empty_interf2_gcc_ast.json │ │ ├── empty_interf_gcc_ast.json │ │ ├── ex--AnnCast.pickled │ │ ├── ex--CAST.json │ │ ├── ex--GrFN.json │ │ ├── ex1--AnnCast.pickled │ │ ├── ex1--CAST.json │ │ ├── ex1--GrFN.json │ │ ├── ex1_gcc_ast.json │ │ ├── ex2--AnnCast.pickled │ │ ├── ex2--CAST.json │ │ ├── ex2--GrFN.json │ │ ├── ex2_gcc_ast.json │ │ ├── ex3--AnnCast.pickled │ │ ├── ex3--CAST.json │ │ ├── ex3--GrFN.json │ │ ├── ex3_gcc_ast.json │ │ ├── ex4--AnnCast.pickled │ │ ├── ex4--CAST.json │ │ ├── ex4--GrFN.json │ │ ├── ex4_gcc_ast.json │ │ ├── ex_gcc_ast.json │ │ ├── exprs1--AnnCast.pickled │ │ ├── exprs1--CAST.json │ │ ├── exprs1--GrFN.json │ │ ├── exprs1_gcc_ast.json │ │ ├── fun_call--AnnCast.pickled │ │ ├── fun_call--CAST.json │ │ ├── fun_call--GrFN.json │ │ ├── fun_call_gcc_ast.json │ │ ├── func_call_in_op--AnnCast.pickled │ │ ├── func_call_in_op--CAST.json │ │ ├── func_call_in_op--GrFN.json │ │ ├── func_call_in_op2--AnnCast.pickled │ │ ├── func_call_in_op2--CAST.json │ │ ├── func_call_in_op2--GrFN.json │ │ ├── func_call_in_op2_gcc_ast.json │ │ ├── func_call_in_op3--AnnCast.pickled │ │ ├── func_call_in_op3--CAST.json │ │ ├── func_call_in_op3--GrFN.json │ │ ├── func_call_in_op3_gcc_ast.json │ │ ├── func_call_in_op4--AnnCast.pickled │ │ ├── func_call_in_op4--CAST.json │ │ ├── func_call_in_op4--GrFN.json │ │ ├── func_call_in_op4_gcc_ast.json │ │ ├── func_call_in_op5--AnnCast.pickled │ │ ├── func_call_in_op5--CAST.json │ │ ├── func_call_in_op5--GrFN.json │ │ ├── func_call_in_op5_gcc_ast.json │ │ ├── func_call_in_op_gcc_ast.json │ │ ├── funcall2--AnnCast.pickled │ │ ├── funcall2--GrFN.json │ │ ├── funcall2_gcc_ast.json │ │ ├── funccall--AnnCast.pickled │ │ ├── funccall--CAST.json │ │ ├── funccall--GrFN.json │ │ ├── funccall2--AnnCast.pickled │ │ ├── funccall2--CAST.json │ │ ├── funccall2--GrFN.json │ │ ├── funccall2_gcc_ast.json │ │ ├── funccall_gcc_ast.json │ │ ├── ge_ex--AnnCast.pickled │ │ ├── ge_ex--GrFN.json │ │ ├── ge_ex_gcc_ast.json │ │ ├── global_ex_1--AnnCast.pickled │ │ ├── global_ex_1--CAST.json │ │ ├── global_ex_1--GrFN.json │ │ ├── global_ex_1_gcc_ast.json │ │ ├── global_modified_if_else_branch--AnnCast.pickled │ │ ├── global_modified_if_else_branch--CAST.json │ │ ├── global_modified_if_else_branch--GrFN.json │ │ ├── global_modified_if_else_branch_gcc_ast.json │ │ ├── global_simple_1--AnnCast.pickled │ │ ├── global_simple_1--CAST.json │ │ ├── global_simple_1--GrFN.json │ │ ├── global_simple_1_gcc_ast.json │ │ ├── global_simple_2--AnnCast.pickled │ │ ├── global_simple_2--CAST.json │ │ ├── global_simple_2--GrFN.json │ │ ├── global_simple_2_gcc_ast.json │ │ ├── global_simple_3--AnnCast.pickled │ │ ├── global_simple_3--CAST.json │ │ ├── global_simple_3--GrFN.json │ │ ├── global_simple_3_gcc_ast.json │ │ ├── global_simple_3_w2calls--AnnCast.pickled │ │ ├── global_simple_3_w2calls--CAST.json │ │ ├── global_simple_3_w2calls--GrFN.json │ │ ├── global_simple_3_w2calls_gcc_ast.json │ │ ├── global_simple_4--AnnCast.pickled │ │ ├── global_simple_4--CAST.json │ │ ├── global_simple_4--GrFN.json │ │ ├── global_simple_4_gcc_ast.json │ │ ├── gs4--AnnCast.pickled │ │ ├── gs4--CAST.json │ │ ├── gs4--GrFN.json │ │ ├── gs4_gcc_ast.json │ │ ├── if1--AnnCast.pickled │ │ ├── if1--CAST.json │ │ ├── if1--GrFN.json │ │ ├── if1_gcc_ast.json │ │ ├── if2--AnnCast.pickled │ │ ├── if2--CAST.json │ │ ├── if2--GrFN.json │ │ ├── if2_gcc_ast.json │ │ ├── ifelif3--AnnCast.pickled │ │ ├── ifelif3--CAST.json │ │ ├── ifelif3--GrFN.json │ │ ├── ifelif3_andif--AnnCast.pickled │ │ ├── ifelif3_andif--CAST.json │ │ ├── ifelif3_andif--GrFN.json │ │ ├── ifelif3_andif_gcc_ast.json │ │ ├── ifelif3_gcc_ast.json │ │ ├── ifelse1--AnnCast.pickled │ │ ├── ifelse1--CAST.json │ │ ├── ifelse1--GrFN.json │ │ ├── ifelse1_gcc_ast.json │ │ ├── ifelse2--AnnCast.pickled │ │ ├── ifelse2--CAST.json │ │ ├── ifelse2--GrFN.json │ │ ├── ifelse2_gcc_ast.json │ │ ├── ifex1--AnnCast.pickled │ │ ├── ifex1--CAST.json │ │ ├── ifex1--GrFN.json │ │ ├── ifex1_gcc_ast.json │ │ ├── ifex2--AnnCast.pickled │ │ ├── ifex2--CAST.json │ │ ├── ifex2--GrFN.json │ │ ├── ifex2_gcc_ast.json │ │ ├── ifnested--AnnCast.pickled │ │ ├── ifnested--CAST.json │ │ ├── ifnested--GrFN.json │ │ ├── ifnested_gcc_ast.json │ │ ├── libabs--AnnCast.pickled │ │ ├── libabs--GrFN.json │ │ ├── libabs_gcc_ast.json │ │ ├── libcalls--AnnCast.pickled │ │ ├── libcalls--GrFN.json │ │ ├── libcalls_gcc_ast.json │ │ ├── loop_01--AnnCast.pickled │ │ ├── loop_01--CAST.json │ │ ├── loop_01--GrFN.json │ │ ├── loop_01_gcc_ast.json │ │ ├── loop_02--AnnCast.pickled │ │ ├── loop_02--CAST.json │ │ ├── loop_02--GrFN.json │ │ ├── loop_02_gcc_ast.json │ │ ├── loop_03--AnnCast.pickled │ │ ├── loop_03--CAST.json │ │ ├── loop_03--GrFN.json │ │ ├── loop_03_gcc_ast.json │ │ ├── loop_04--AnnCast.pickled │ │ ├── loop_04--CAST.json │ │ ├── loop_04--GrFN.json │ │ ├── loop_04_gcc_ast.json │ │ ├── loop_05--AnnCast.pickled │ │ ├── loop_05--CAST.json │ │ ├── loop_05--GrFN.json │ │ ├── loop_05_gcc_ast.json │ │ ├── loop_ex--AnnCast.pickled │ │ ├── loop_ex--CAST.json │ │ ├── loop_ex--GrFN.json │ │ ├── loop_ex_gcc_ast.json │ │ ├── loops--AnnCast.pickled │ │ ├── loops--CAST.json │ │ ├── loops--GrFN.json │ │ ├── loops_gcc_ast.json │ │ ├── nested_ifs--AnnCast.pickled │ │ ├── nested_ifs--CAST.json │ │ ├── nested_ifs--GrFN.json │ │ ├── nested_ifs_gcc_ast.json │ │ ├── scope-vars--AnnCast.pickled │ │ ├── scope-vars--CAST.json │ │ ├── scope-vars--GrFN.json │ │ ├── scope-vars_gcc_ast.json │ │ ├── simple_call--AnnCast.pickled │ │ ├── simple_call--CAST.json │ │ ├── simple_call--GrFN.json │ │ ├── simple_call_gcc_ast.json │ │ ├── simple_if--AnnCast.pickled │ │ ├── simple_if--CAST.json │ │ ├── simple_if--GrFN.json │ │ ├── simple_if2--AnnCast.pickled │ │ ├── simple_if2--CAST.json │ │ ├── simple_if2--GrFN.json │ │ ├── simple_if2_gcc_ast.json │ │ ├── simple_if_gcc_ast.json │ │ ├── simple_ifelif--AnnCast.pickled │ │ ├── simple_ifelif--CAST.json │ │ ├── simple_ifelif--GrFN.json │ │ ├── simple_ifelif2--AnnCast.pickled │ │ ├── simple_ifelif2--CAST.json │ │ ├── simple_ifelif2--GrFN.json │ │ ├── simple_ifelif2_gcc_ast.json │ │ ├── simple_ifelif_gcc_ast.json │ │ ├── simple_loop--AnnCast.pickled │ │ ├── simple_loop--CAST.json │ │ ├── simple_loop--GrFN.json │ │ ├── simple_loop_gcc_ast.json │ │ ├── simple_main--AnnCast.pickled │ │ ├── simple_main--CAST.json │ │ ├── simple_main--GrFN.json │ │ ├── simple_main_gcc_ast.json │ │ ├── vsimple0--AnnCast.pickled │ │ ├── vsimple0--CAST.json │ │ ├── vsimple0--GrFN.json │ │ ├── vsimple0_gcc_ast.json │ │ ├── vsimple1--AnnCast.pickled │ │ ├── vsimple1--CAST.json │ │ ├── vsimple1--GrFN.json │ │ ├── vsimple1_gcc_ast.json │ │ ├── vsimple2--AnnCast.pickled │ │ ├── vsimple2--CAST.json │ │ ├── vsimple2--GrFN.json │ │ ├── vsimple2_gcc_ast.json │ │ ├── while1--AnnCast.pickled │ │ ├── while1--CAST.json │ │ ├── while1--GrFN.json │ │ ├── while1_gcc_ast.json │ │ ├── while2--AnnCast.pickled │ │ ├── while2--CAST.json │ │ ├── while2--GrFN.json │ │ ├── while2_gcc_ast.json │ │ ├── wiki--AnnCast.pickled │ │ ├── wiki--CAST.json │ │ ├── wiki--GrFN.json │ │ └── wiki_gcc_ast.json │ ├── ann_cast_pipeline_grfn_2_2 │ │ ├── GE_antiw--AnnCast.pickled │ │ ├── GE_antiw--GrFN.json │ │ ├── GE_antiw2--AnnCast.pickled │ │ ├── GE_antiw2--CAST.json │ │ ├── GE_antiw2--GrFN.json │ │ ├── GE_antiw2_gcc_ast.json │ │ ├── GE_antiw_gcc_ast.json │ │ ├── GE_sat--AnnCast.pickled │ │ ├── GE_sat--GrFN.json │ │ ├── GE_sat_gcc_ast.json │ │ ├── GE_simple--AnnCast.pickled │ │ ├── GE_simple--GrFN.json │ │ ├── GE_simple_PI_controller-antiwindup--AnnCast.pickled │ │ ├── GE_simple_PI_controller-antiwindup--CAST.json │ │ ├── GE_simple_PI_controller-antiwindup--GrFN.json │ │ ├── GE_simple_PI_controller-antiwindup_gcc_ast.json │ │ ├── GE_simple_PI_controller_saturation--AnnCast.pickled │ │ ├── GE_simple_PI_controller_saturation--CAST.json │ │ ├── GE_simple_PI_controller_saturation--GrFN.json │ │ ├── GE_simple_PI_controller_saturation_gcc_ast.json │ │ ├── GE_simple_gcc_ast.json │ │ ├── GE_temp--AnnCast.pickled │ │ ├── GE_temp--CAST.json │ │ ├── GE_temp--GrFN.json │ │ ├── GE_temp_gcc_ast.json │ │ ├── c_ex4--AnnCast.pickled │ │ ├── c_ex4--CAST.json │ │ ├── c_ex4--GrFN.json │ │ ├── c_ex4_gcc_ast.json │ │ ├── call--AnnCast.pickled │ │ ├── call--CAST.json │ │ ├── call--GrFN.json │ │ ├── call_gcc_ast.json │ │ ├── case1--AnnCast.pickled │ │ ├── case1--CAST.json │ │ ├── case1--GrFN.json │ │ ├── case1_gcc_ast.json │ │ ├── case2--AnnCast.pickled │ │ ├── case2--CAST.json │ │ ├── case2--GrFN.json │ │ ├── case2_gcc_ast.json │ │ ├── case3--AnnCast.pickled │ │ ├── case3--CAST.json │ │ ├── case3--GrFN.json │ │ ├── case3_gcc_ast.json │ │ ├── case4--AnnCast.pickled │ │ ├── case4--CAST.json │ │ ├── case4--GrFN.json │ │ ├── case4_gcc_ast.json │ │ ├── case5--AnnCast.pickled │ │ ├── case5--CAST.json │ │ ├── case5--GrFN.json │ │ ├── case5_gcc_ast.json │ │ ├── case6--AnnCast.pickled │ │ ├── case6--CAST.json │ │ ├── case6--GrFN.json │ │ ├── case6_gcc_ast.json │ │ ├── case7--AnnCast.pickled │ │ ├── case7--CAST.json │ │ ├── case7--GrFN.json │ │ ├── case7_gcc_ast.json │ │ ├── case8--AnnCast.pickled │ │ ├── case8--CAST.json │ │ ├── case8--GrFN.json │ │ ├── case8_gcc_ast.json │ │ ├── complex_operator1--AnnCast.pickled │ │ ├── complex_operator1--CAST.json │ │ ├── complex_operator1--GrFN.json │ │ ├── complex_operator1_gcc_ast.json │ │ ├── cscope--AnnCast.pickled │ │ ├── cscope--CAST.json │ │ ├── cscope--GrFN.json │ │ ├── cscope_gcc_ast.json │ │ ├── empty_interf--AnnCast.pickled │ │ ├── empty_interf--GrFN.json │ │ ├── empty_interf2--AnnCast.pickled │ │ ├── empty_interf2--GrFN.json │ │ ├── empty_interf2_gcc_ast.json │ │ ├── empty_interf_gcc_ast.json │ │ ├── ex--AnnCast.pickled │ │ ├── ex--CAST.json │ │ ├── ex--GrFN.json │ │ ├── ex1--AnnCast.pickled │ │ ├── ex1--CAST.json │ │ ├── ex1--GrFN.json │ │ ├── ex1_gcc_ast.json │ │ ├── ex2--AnnCast.pickled │ │ ├── ex2--CAST.json │ │ ├── ex2--GrFN.json │ │ ├── ex2_gcc_ast.json │ │ ├── ex3--AnnCast.pickled │ │ ├── ex3--CAST.json │ │ ├── ex3--GrFN.json │ │ ├── ex3_gcc_ast.json │ │ ├── ex4--AnnCast.pickled │ │ ├── ex4--CAST.json │ │ ├── ex4--GrFN.json │ │ ├── ex4_gcc_ast.json │ │ ├── ex_gcc_ast.json │ │ ├── exprs1--AnnCast.pickled │ │ ├── exprs1--CAST.json │ │ ├── exprs1--GrFN.json │ │ ├── exprs1_gcc_ast.json │ │ ├── fun_call--AnnCast.pickled │ │ ├── fun_call--CAST.json │ │ ├── fun_call--GrFN.json │ │ ├── fun_call_gcc_ast.json │ │ ├── func_call_in_op--AnnCast.pickled │ │ ├── func_call_in_op--CAST.json │ │ ├── func_call_in_op--GrFN.json │ │ ├── func_call_in_op2--AnnCast.pickled │ │ ├── func_call_in_op2--CAST.json │ │ ├── func_call_in_op2--GrFN.json │ │ ├── func_call_in_op2_gcc_ast.json │ │ ├── func_call_in_op3--AnnCast.pickled │ │ ├── func_call_in_op3--CAST.json │ │ ├── func_call_in_op3--GrFN.json │ │ ├── func_call_in_op3_gcc_ast.json │ │ ├── func_call_in_op4--AnnCast.pickled │ │ ├── func_call_in_op4--CAST.json │ │ ├── func_call_in_op4--GrFN.json │ │ ├── func_call_in_op4_gcc_ast.json │ │ ├── func_call_in_op5--AnnCast.pickled │ │ ├── func_call_in_op5--CAST.json │ │ ├── func_call_in_op5--GrFN.json │ │ ├── func_call_in_op5_gcc_ast.json │ │ ├── func_call_in_op_gcc_ast.json │ │ ├── funcall2--AnnCast.pickled │ │ ├── funcall2--GrFN.json │ │ ├── funcall2_gcc_ast.json │ │ ├── funccall--AnnCast.pickled │ │ ├── funccall--CAST.json │ │ ├── funccall--GrFN.json │ │ ├── funccall2--AnnCast.pickled │ │ ├── funccall2--CAST.json │ │ ├── funccall2--GrFN.json │ │ ├── funccall2_gcc_ast.json │ │ ├── funccall_gcc_ast.json │ │ ├── ge_ex--AnnCast.pickled │ │ ├── ge_ex--GrFN.json │ │ ├── ge_ex_gcc_ast.json │ │ ├── global_ex_1--AnnCast.pickled │ │ ├── global_ex_1--CAST.json │ │ ├── global_ex_1--GrFN.json │ │ ├── global_ex_1_gcc_ast.json │ │ ├── global_modified_if_else_branch--AnnCast.pickled │ │ ├── global_modified_if_else_branch--CAST.json │ │ ├── global_modified_if_else_branch--GrFN.json │ │ ├── global_modified_if_else_branch_gcc_ast.json │ │ ├── global_simple_1--AnnCast.pickled │ │ ├── global_simple_1--CAST.json │ │ ├── global_simple_1--GrFN.json │ │ ├── global_simple_1_gcc_ast.json │ │ ├── global_simple_2--AnnCast.pickled │ │ ├── global_simple_2--CAST.json │ │ ├── global_simple_2--GrFN.json │ │ ├── global_simple_2_gcc_ast.json │ │ ├── global_simple_3--AnnCast.pickled │ │ ├── global_simple_3--CAST.json │ │ ├── global_simple_3--GrFN.json │ │ ├── global_simple_3_gcc_ast.json │ │ ├── global_simple_3_w2calls--AnnCast.pickled │ │ ├── global_simple_3_w2calls--CAST.json │ │ ├── global_simple_3_w2calls--GrFN.json │ │ ├── global_simple_3_w2calls_gcc_ast.json │ │ ├── global_simple_4--AnnCast.pickled │ │ ├── global_simple_4--CAST.json │ │ ├── global_simple_4--GrFN.json │ │ ├── global_simple_4_gcc_ast.json │ │ ├── gs4--AnnCast.pickled │ │ ├── gs4--CAST.json │ │ ├── gs4--GrFN.json │ │ ├── gs4_gcc_ast.json │ │ ├── if1--AnnCast.pickled │ │ ├── if1--CAST.json │ │ ├── if1--GrFN.json │ │ ├── if1_gcc_ast.json │ │ ├── if2--AnnCast.pickled │ │ ├── if2--CAST.json │ │ ├── if2--GrFN.json │ │ ├── if2_gcc_ast.json │ │ ├── ifelif3--AnnCast.pickled │ │ ├── ifelif3--CAST.json │ │ ├── ifelif3--GrFN.json │ │ ├── ifelif3_andif--AnnCast.pickled │ │ ├── ifelif3_andif--CAST.json │ │ ├── ifelif3_andif--GrFN.json │ │ ├── ifelif3_andif_gcc_ast.json │ │ ├── ifelif3_gcc_ast.json │ │ ├── ifelse1--AnnCast.pickled │ │ ├── ifelse1--CAST.json │ │ ├── ifelse1--GrFN.json │ │ ├── ifelse1_gcc_ast.json │ │ ├── ifelse2--AnnCast.pickled │ │ ├── ifelse2--CAST.json │ │ ├── ifelse2--GrFN.json │ │ ├── ifelse2_gcc_ast.json │ │ ├── ifex1--AnnCast.pickled │ │ ├── ifex1--CAST.json │ │ ├── ifex1--GrFN.json │ │ ├── ifex1_gcc_ast.json │ │ ├── ifex2--AnnCast.pickled │ │ ├── ifex2--CAST.json │ │ ├── ifex2--GrFN.json │ │ ├── ifex2_gcc_ast.json │ │ ├── ifnested--AnnCast.pickled │ │ ├── ifnested--CAST.json │ │ ├── ifnested--GrFN.json │ │ ├── ifnested_gcc_ast.json │ │ ├── libabs--AnnCast.pickled │ │ ├── libabs--GrFN.json │ │ ├── libabs_gcc_ast.json │ │ ├── libcalls--AnnCast.pickled │ │ ├── libcalls--GrFN.json │ │ ├── libcalls_gcc_ast.json │ │ ├── loop_01--AnnCast.pickled │ │ ├── loop_01--CAST.json │ │ ├── loop_01--GrFN.json │ │ ├── loop_01_gcc_ast.json │ │ ├── loop_02--AnnCast.pickled │ │ ├── loop_02--CAST.json │ │ ├── loop_02--GrFN.json │ │ ├── loop_02_gcc_ast.json │ │ ├── loop_03--AnnCast.pickled │ │ ├── loop_03--CAST.json │ │ ├── loop_03--GrFN.json │ │ ├── loop_03--legGrFN.json │ │ ├── loop_03_gcc_ast.json │ │ ├── loop_04--AnnCast.pickled │ │ ├── loop_04--CAST.json │ │ ├── loop_04--GrFN.json │ │ ├── loop_04_gcc_ast.json │ │ ├── loop_05--AnnCast.pickled │ │ ├── loop_05--CAST.json │ │ ├── loop_05--GrFN.json │ │ ├── loop_05_gcc_ast.json │ │ ├── loop_ex--AnnCast.pickled │ │ ├── loop_ex--CAST.json │ │ ├── loop_ex--GrFN.json │ │ ├── loop_ex_gcc_ast.json │ │ ├── loops--AnnCast.pickled │ │ ├── loops--CAST.json │ │ ├── loops--GrFN.json │ │ ├── loops_gcc_ast.json │ │ ├── nested_ifs--AnnCast.pickled │ │ ├── nested_ifs--CAST.json │ │ ├── nested_ifs--GrFN.json │ │ ├── nested_ifs_gcc_ast.json │ │ ├── scope-vars--AnnCast.pickled │ │ ├── scope-vars--CAST.json │ │ ├── scope-vars--GrFN.json │ │ ├── scope-vars_gcc_ast.json │ │ ├── simple_call--AnnCast.pickled │ │ ├── simple_call--CAST.json │ │ ├── simple_call--GrFN.json │ │ ├── simple_call_gcc_ast.json │ │ ├── simple_if--AnnCast.pickled │ │ ├── simple_if--CAST.json │ │ ├── simple_if--GrFN.json │ │ ├── simple_if2--AnnCast.pickled │ │ ├── simple_if2--CAST.json │ │ ├── simple_if2--GrFN.json │ │ ├── simple_if2_gcc_ast.json │ │ ├── simple_if_gcc_ast.json │ │ ├── simple_ifelif--AnnCast.pickled │ │ ├── simple_ifelif--CAST.json │ │ ├── simple_ifelif--GrFN.json │ │ ├── simple_ifelif2--AnnCast.pickled │ │ ├── simple_ifelif2--CAST.json │ │ ├── simple_ifelif2--GrFN.json │ │ ├── simple_ifelif2_gcc_ast.json │ │ ├── simple_ifelif_gcc_ast.json │ │ ├── simple_loop--AnnCast.pickled │ │ ├── simple_loop--CAST.json │ │ ├── simple_loop--GrFN.json │ │ ├── simple_loop_gcc_ast.json │ │ ├── simple_main--AnnCast.pickled │ │ ├── simple_main--CAST.json │ │ ├── simple_main--GrFN.json │ │ ├── simple_main_gcc_ast.json │ │ ├── vsimple0--AnnCast.pickled │ │ ├── vsimple0--CAST.json │ │ ├── vsimple0--GrFN.json │ │ ├── vsimple0_gcc_ast.json │ │ ├── vsimple1--AnnCast.pickled │ │ ├── vsimple1--CAST.json │ │ ├── vsimple1--GrFN.json │ │ ├── vsimple1_gcc_ast.json │ │ ├── vsimple2--AnnCast.pickled │ │ ├── vsimple2--CAST.json │ │ ├── vsimple2--GrFN.json │ │ ├── vsimple2_gcc_ast.json │ │ ├── while1--AnnCast.pickled │ │ ├── while1--CAST.json │ │ ├── while1--GrFN.json │ │ ├── while1_gcc_ast.json │ │ ├── while2--AnnCast.pickled │ │ ├── while2--CAST.json │ │ ├── while2--GrFN.json │ │ ├── while2_gcc_ast.json │ │ ├── wiki--AnnCast.pickled │ │ ├── wiki--CAST.json │ │ ├── wiki--GrFN.json │ │ └── wiki_gcc_ast.json │ ├── basic_function_def_and_assignment_grfn.json │ ├── cast_all_nodes.json │ ├── cast_with_no_node_type.json │ └── cast_with_unknown_node_type.json │ ├── CAST2PDF │ └── cast_all_nodes.json │ ├── CHIME-SIR-model.for │ ├── CHIME-SIR.for │ ├── CHIME-SIR.py │ ├── DSSAT │ ├── CSM │ │ ├── ASMDM.for │ │ ├── AUTHAR.for │ │ ├── AUTPLT.for │ │ ├── Aloha_GROSUB.for │ │ ├── Aloha_NFACTO.for │ │ ├── Aloha_NUPTAK.for │ │ ├── Aloha_OPGROW.f90 │ │ ├── Aloha_OPHARV.for │ │ ├── Aloha_PHENOL.for │ │ ├── Aloha_PINE.for │ │ ├── Aloha_ROOTGR.for │ │ ├── Aloha_mod.f90 │ │ ├── BS_CERES.for │ │ ├── BS_GROSUB.for │ │ ├── BS_NFACTO.for │ │ ├── BS_NUPTAK.for │ │ ├── BS_OPGROW.for │ │ ├── BS_OPHARV.for │ │ ├── BS_OPNIT.for │ │ ├── BS_PHENOL.for │ │ ├── BS_ROOTS.for │ │ ├── CANOPY.for │ │ ├── CENTURY.for │ │ ├── CE_RATIO_C.for │ │ ├── CHEMICAL.for │ │ ├── CO2VAL.for │ │ ├── COMGEN.blk │ │ ├── COMIBS.blk │ │ ├── COMSOI.blk │ │ ├── COMSWI.blk │ │ ├── CROPGRO.for │ │ ├── CSCAS.for │ │ ├── CSCAS_Interface.for │ │ ├── CSCER.for │ │ ├── CSCERES_Interface.for │ │ ├── CSCRP.for │ │ ├── CSCRP_Interface.for │ │ ├── CSDISEASE.for │ │ ├── CSM.for │ │ ├── CSMVersion.for │ │ ├── CSP_CANOPY.for │ │ ├── CSP_CASUPRO.for │ │ ├── CSP_GROW_CANE.for │ │ ├── CSP_HRes.for │ │ ├── CSP_INCOMP.for │ │ ├── CSP_INCOMP_OUT.for │ │ ├── CSP_INPHENOL.for │ │ ├── CSP_IPPHENOL.for │ │ ├── CSP_IPPLNT.for │ │ ├── CSP_NUPTAK.for │ │ ├── CSP_OPGROW.for │ │ ├── CSP_OPHARV.for │ │ ├── CSP_PHENOL.for │ │ ├── CSP_PHOTO.for │ │ ├── CSP_RESPIR.for │ │ ├── CSP_ROOTS.for │ │ ├── CSP_SENES.for │ │ ├── CSREADS.for │ │ ├── CSUTS.for │ │ ├── CSYCA.f90 │ │ ├── CSYCA_Interface.for │ │ ├── DATES.for │ │ ├── DECRAT_C.for │ │ ├── DEMAND.for │ │ ├── DS1900.f90 │ │ ├── DSSATPRO.L47 │ │ ├── Denit_Ceres.for │ │ ├── Denit_DayCent.for │ │ ├── EFLOW_C.for │ │ ├── EQUIL2.for │ │ ├── ERROR.OUT │ │ ├── ERROR.for │ │ ├── ESR_SoilEvap.for │ │ ├── ETPHOT.for │ │ ├── ETPHR.for │ │ ├── FCHEM.for │ │ ├── FLOODI.for │ │ ├── FREEZE.for │ │ ├── Fert_Place.for │ │ ├── Flood_Chem.for │ │ ├── Flood_Irrig.for │ │ ├── FreshWt.for │ │ ├── GETOBS.f90 │ │ ├── GPPARGET.f90 │ │ ├── GPPARSET.f90 │ │ ├── GROW.for │ │ ├── G_Exper.f90 │ │ ├── G_Soil.f90 │ │ ├── HMET.for │ │ ├── HResCeres.for │ │ ├── HRes_CGRO.for │ │ ├── IMMOBLIMIT_C.for │ │ ├── INCOMP.for │ │ ├── INCORPOR_C.for │ │ ├── INFIL.for │ │ ├── INQOBS.f90 │ │ ├── INSOIL.for │ │ ├── INSTGE.for │ │ ├── INSW.for │ │ ├── INTGR2.f90 │ │ ├── INTGRL.for │ │ ├── INTRO.for │ │ ├── INVAR.for │ │ ├── IPCHEM.for │ │ ├── IPECO.for │ │ ├── IPENV.for │ │ ├── IPHedley_C.for │ │ ├── IPHedley_inorg.for │ │ ├── IPIBS.for │ │ ├── IPMAN.for │ │ ├── IPPARM.for │ │ ├── IPPEST.for │ │ ├── IPPLNT.for │ │ ├── IPPROG.for │ │ ├── IPSIM.for │ │ ├── IPSLIN.for │ │ ├── IPSOIL.for │ │ ├── IPSOIL_Inp.for │ │ ├── IPTILL.for │ │ ├── IPVAR.for │ │ ├── IPWTH_alt.for │ │ ├── IRRIG.for │ │ ├── Info.for │ │ ├── Ipphenol.for │ │ ├── LAND.for │ │ ├── LIMIT.for │ │ ├── LINDM.for │ │ ├── LINT2.for │ │ ├── LITDEC_C.for │ │ ├── LMATCH.for │ │ ├── LUN.LST │ │ ├── ML_CERES.for │ │ ├── ML_GROSUB.for │ │ ├── ML_NFACT.for │ │ ├── ML_NUPTAK.for │ │ ├── ML_OPGROW.for │ │ ├── ML_PHASEI.for │ │ ├── ML_PHENOL.for │ │ ├── ML_TILLSUB.for │ │ ├── ML_opharv.for │ │ ├── ML_rootgr.for │ │ ├── MOBIL.for │ │ ├── MODEL.ERR │ │ ├── MULCHEVAP.for │ │ ├── MULCHLAYER.for │ │ ├── MULCHWAT.for │ │ ├── MZ_CERES.for │ │ ├── MZ_GROSUB.for │ │ ├── MZ_IX_GROSUB.for │ │ ├── MZ_IX_KNUMBER.for │ │ ├── MZ_IX_LEAFAREA.for │ │ ├── MZ_IX_NUPTAK.for │ │ ├── MZ_IX_PHENOL.for │ │ ├── MZ_IX_PHOTSYNT.for │ │ ├── MZ_IX_PLANTG.for │ │ ├── MZ_IX_RADABS.for │ │ ├── MZ_IX_RESPIR.for │ │ ├── MZ_KUPTAK.for │ │ ├── MZ_NFACTO.for │ │ ├── MZ_NUPTAK.for │ │ ├── MZ_OPGROW.for │ │ ├── MZ_OPHARV.for │ │ ├── MZ_OPNIT.for │ │ ├── MZ_PHENOL.for │ │ ├── MZ_ROOTS.for │ │ ├── Makefile │ │ ├── MgmtOps.for │ │ ├── ModuleDefs.for │ │ ├── N2O_mod.for │ │ ├── NCHECK_C.for │ │ ├── NCHECK_inorg.for │ │ ├── NCHECK_organic.for │ │ ├── NFIX.for │ │ ├── NFLUX.for │ │ ├── NUPTAK.for │ │ ├── Ncrop3.f90 │ │ ├── NightT.f90 │ │ ├── Nnostress2.f90 │ │ ├── OBSINI.f90 │ │ ├── OBSSYS.f90 │ │ ├── OM_Place.for │ │ ├── OPETPHOT.for │ │ ├── OPFLOODN.for │ │ ├── OPGEN.for │ │ ├── OPHARV.for │ │ ├── OPHEAD.for │ │ ├── OPMULCH.for │ │ ├── OPPEST.for │ │ ├── OPSOILNI.for │ │ ├── OPSOMLIT_C.for │ │ ├── OPSTOR.f90 │ │ ├── OPSTRESS.for │ │ ├── OPSUM.for │ │ ├── OPSYS.f90 │ │ ├── OPTEMPXY2K.for │ │ ├── OPVIEW.for │ │ ├── OPWBAL.for │ │ ├── OPWEATH.for │ │ ├── ORYZA1.f90 │ │ ├── ORYZA_Interface.f90 │ │ ├── OR_Opgrow.f90 │ │ ├── OR_Opharv.for │ │ ├── OR_PHENOL.f90 │ │ ├── OR_ROOTG.f90 │ │ ├── OSDefinitions.for │ │ ├── OXLAYER.for │ │ ├── OpFlood.for │ │ ├── OpPlantP.for │ │ ├── OpSoilKi.for │ │ ├── OpSoilOrg.for │ │ ├── OpSoilPi.for │ │ ├── OpStemp.for │ │ ├── Opgrow.for │ │ ├── PARTITION.f90 │ │ ├── PARTIT_C.for │ │ ├── PATH.for │ │ ├── PEST.for │ │ ├── PESTCP.for │ │ ├── PET.for │ │ ├── PHENOL.for │ │ ├── PHOTO.for │ │ ├── PODDET.for │ │ ├── PODS.for │ │ ├── PPlantSubs.for │ │ ├── PT_GROSUB.for │ │ ├── PT_NFACTO.for │ │ ├── PT_NUPTAK.for │ │ ├── PT_OPGROW.for │ │ ├── PT_OPHARV.for │ │ ├── PT_PHASEI.for │ │ ├── PT_PHENOL.for │ │ ├── PT_ROOTGR.for │ │ ├── PT_SUBSTOR.for │ │ ├── PT_THTIME.for │ │ ├── P_CASUPRO.for │ │ ├── P_CERES.for │ │ ├── P_CGRO.for │ │ ├── P_IPPLNT.for │ │ ├── P_Plant.for │ │ ├── P_Uptake.for │ │ ├── Paddy_Mgmt.for │ │ ├── PlantNBal.for │ │ ├── README.md │ │ ├── READS.for │ │ ├── RESPIR.for │ │ ├── RETC_VG.for │ │ ├── RICE.for │ │ ├── RI_Calcshk.for │ │ ├── RI_GNURSE.for │ │ ├── RI_Grosub.for │ │ ├── RI_Ipcrop.for │ │ ├── RI_KUPTAK.for │ │ ├── RI_Nfacto.for │ │ ├── RI_Nuptak.for │ │ ├── RI_Opgrow.for │ │ ├── RI_Opharv.for │ │ ├── RI_Phenol.for │ │ ├── RI_Rootgr.for │ │ ├── RI_Tillsub.for │ │ ├── RI_Transpl_g.for │ │ ├── RI_Transpl_p.for │ │ ├── RNOFF.for │ │ ├── ROOTDM.for │ │ ├── ROOTS.for │ │ ├── ROOTWU.for │ │ ├── RPLACE_C.for │ │ ├── RStages.for │ │ ├── RootSoilVol.for │ │ ├── RunList.for │ │ ├── SASTRO.f90 │ │ ├── SATFLO.for │ │ ├── SC_CCOUT.for │ │ ├── SC_CNGRO.for │ │ ├── SC_CNG_mods.for │ │ ├── SC_COEFFS.for │ │ ├── SC_Canop3.for │ │ ├── SC_ETOUT.for │ │ ├── SC_GTP_SHOOTS.for │ │ ├── SC_OPHARV.for │ │ ├── SC_OUTPUT.for │ │ ├── SC_PARTIT.for │ │ ├── SC_PHENOL.for │ │ ├── SC_PHOTOS.for │ │ ├── SC_Poplt3.for │ │ ├── SC_ROOTG.for │ │ ├── SDCOMP.for │ │ ├── SECLI.for │ │ ├── SECROP.for │ │ ├── SEEDDM.for │ │ ├── SEFERT.for │ │ ├── SEFLD.for │ │ ├── SEFREQ.for │ │ ├── SEHARV.for │ │ ├── SEINIT.for │ │ ├── SEIRR.for │ │ ├── SENES.for │ │ ├── SENESADD_C.for │ │ ├── SENS.for │ │ ├── SEPEST.for │ │ ├── SEPLT.for │ │ ├── SERES.for │ │ ├── SESIM.for │ │ ├── SESOIL.for │ │ ├── SETIME.for │ │ ├── SEVAR.for │ │ ├── SEWTH.for │ │ ├── SGPC1.f90 │ │ ├── SGPC2.f90 │ │ ├── SGPCDT.f90 │ │ ├── SGPL.f90 │ │ ├── SG_CERES.for │ │ ├── SG_GROSUB.for │ │ ├── SG_NFACT.for │ │ ├── SG_NUPTAK.for │ │ ├── SG_OPHARV.for │ │ ├── SG_PHASEI.for │ │ ├── SG_PHENOL.for │ │ ├── SG_ROOTGR.for │ │ ├── SLigCeres.for │ │ ├── SOIL.for │ │ ├── SOILDYN.for │ │ ├── SOILEV.for │ │ ├── SOILNI.for │ │ ├── SOLAR.for │ │ ├── SOMDEC_C.for │ │ ├── SOMFIX_C.for │ │ ├── SOMINIT_c.for │ │ ├── SOMLITPRINT_C.for │ │ ├── SPAM.for │ │ ├── SPSUBS.for │ │ ├── SRDPRF.f90 │ │ ├── SSKYC.f90 │ │ ├── STEMP.for │ │ ├── STEMP_EPIC.for │ │ ├── SUBCBC.f90 │ │ ├── SUBCD2.f90 │ │ ├── SUBDD.f90 │ │ ├── SUBGRN.f90 │ │ ├── SUBLAI3.f90 │ │ ├── SVPS1.f90 │ │ ├── SW_FreshWt.for │ │ ├── SW_GROSUB.for │ │ ├── SoilCBal_C.for │ │ ├── SoilCNPinit_C.for │ │ ├── SoilK_init.for │ │ ├── SoilKi.for │ │ ├── SoilMixing.for │ │ ├── SoilNBalSum.for │ │ ├── SoilNiBal.for │ │ ├── SoilNi_init.for │ │ ├── SoilNoBal.for │ │ ├── SoilNoBal_C.for │ │ ├── SoilNoPoBal.for │ │ ├── SoilOrg.for │ │ ├── SoilOrg_init.for │ │ ├── SoilPBalSum.for │ │ ├── SoilPi.for │ │ ├── SoilPiBal.for │ │ ├── SoilPi_init.for │ │ ├── SoilPoBal.for │ │ ├── SoilPoBal_C.for │ │ ├── TILEDRAIN.for │ │ ├── TRANS.for │ │ ├── TR_Calcshk.for │ │ ├── TR_Grosub.for │ │ ├── TR_Ipcrop.for │ │ ├── TR_Nfacto.for │ │ ├── TR_Nuptak.for │ │ ├── TR_OPGROW.for │ │ ├── TR_Opharv.for │ │ ├── TR_Phenol.for │ │ ├── TR_Rootgr.for │ │ ├── TR_SUBSTOR.for │ │ ├── TR_Tillsub.for │ │ ├── TR_Transpl_g.for │ │ ├── TR_Transpl_p.for │ │ ├── TSOMLIT_C.for │ │ ├── TTHEAD.f90 │ │ ├── TextureClass.for │ │ ├── TillEvent.for │ │ ├── Tillage.for │ │ ├── UTILS.for │ │ ├── VARIABLE.f90 │ │ ├── VEGDM.for │ │ ├── VEGGR.for │ │ ├── WARNING.OUT │ │ ├── WATBAL.for │ │ ├── WBAL.for │ │ ├── WBSUBS.for │ │ ├── WEATHR_Inp.for │ │ ├── WGEN.for │ │ ├── WH_APSIM.for │ │ ├── WH_COLD.for │ │ ├── WH_GROSUB.for │ │ ├── WH_NFACTO.for │ │ ├── WH_NUPTAK.for │ │ ├── WH_OPGROW.for │ │ ├── WH_OPHARV.for │ │ ├── WH_OPNIT.for │ │ ├── WH_PHENOL.for │ │ ├── WH_ROOTS.for │ │ ├── WH_SW_SUBS.for │ │ ├── WH_module.f90 │ │ ├── WH_temp.for │ │ ├── WStress2.f90 │ │ ├── WTHMOD.for │ │ ├── WTHSET.for │ │ ├── Warning.for │ │ ├── YCA_Albedo_Check_m.f90 │ │ ├── YCA_Control_Environment.f90 │ │ ├── YCA_Control_Leaf.f90 │ │ ├── YCA_Control_Photosynthesis.f90 │ │ ├── YCA_Control_Plant.f90 │ │ ├── YCA_Control_VPDEffect.f90 │ │ ├── YCA_First_Trans_m.f90 │ │ ├── YCA_Formats_m.f90 │ │ ├── YCA_Growth.f90 │ │ ├── YCA_Growth_Distribute.f90 │ │ ├── YCA_Growth_Evapo.f90 │ │ ├── YCA_Growth_Init.f90 │ │ ├── YCA_Growth_NUptake.f90 │ │ ├── YCA_Growth_Part.f90 │ │ ├── YCA_Growth_Photo.f90 │ │ ├── YCA_Growth_Rates.f90 │ │ ├── YCA_Growth_Senesce.f90 │ │ ├── YCA_Integ_AgesWts.f90 │ │ ├── YCA_Integ_EndCrop.f90 │ │ ├── YCA_Integ_HstFail.f90 │ │ ├── YCA_Integ_LA.f90 │ │ ├── YCA_Integ_N.f90 │ │ ├── YCA_Integ_Nconc.f90 │ │ ├── YCA_Integ_SeasEnd.f90 │ │ ├── YCA_Integ_Stages.f90 │ │ ├── YCA_Integ_WthrSum.f90 │ │ ├── YCA_Integrate.f90 │ │ ├── YCA_Node.f90 │ │ ├── YCA_Out_CrpSim.f90 │ │ ├── YCA_Out_Error.f90 │ │ ├── YCA_Out_Eval.f90 │ │ ├── YCA_Out_LfTier.f90 │ │ ├── YCA_Out_ModFail.f90 │ │ ├── YCA_Out_PlGrow.f90 │ │ ├── YCA_Out_PlantSum.f90 │ │ ├── YCA_Out_ReInit.f90 │ │ ├── YCA_Out_Sens.f90 │ │ ├── YCA_Out_StoreVars.f90 │ │ ├── YCA_Out_Work.f90 │ │ ├── YCA_Out_WrkPhenRes.f90 │ │ ├── YCA_Output.f90 │ │ ├── YCA_PrePlant.f90 │ │ ├── YCA_RunInit.f90 │ │ ├── YCA_SeasInit.f90 │ │ ├── YCA_SeasInit_Final.f90 │ │ ├── YCA_SeasInit_PlHarvDat.f90 │ │ ├── YCA_SeasInit_ReadGeno.f90 │ │ ├── YCA_SeasInit_ReadXfile.f90 │ │ ├── YCA_SeasInit_SetStage.f90 │ │ ├── YCA_SeasInit_VarInit.f90 │ │ ├── addinf.for │ │ ├── addint.for │ │ ├── addrea.for │ │ ├── addref.for │ │ ├── addstf.for │ │ ├── addstr.for │ │ ├── ambusy.for │ │ ├── csvlinklist.f90 │ │ ├── csvoutput.f90 │ │ ├── decrea.for │ │ ├── decrec.for │ │ ├── diffusiv.for │ │ ├── dtleap.for │ │ ├── dtsys.for │ │ ├── entcha.for │ │ ├── entdch.for │ │ ├── enthlp.for │ │ ├── extens.for │ │ ├── fatalerr.f90 │ │ ├── flexist.for │ │ ├── flname.for │ │ ├── fopengstandard.f90 │ │ ├── fopens.for │ │ ├── for_asmdm.for │ │ ├── for_canopy.for │ │ ├── for_ch2oref.for │ │ ├── for_demand.for │ │ ├── for_dormancy.for │ │ ├── for_freeze.for │ │ ├── for_grow.for │ │ ├── for_harv.for │ │ ├── for_hres_cgro.for │ │ ├── for_incomp.for │ │ ├── for_ipparm.for │ │ ├── for_ippest.for │ │ ├── for_ipphenol.for │ │ ├── for_ipplnt.for │ │ ├── for_ipprog.for │ │ ├── for_lindm.for │ │ ├── for_mobil.for │ │ ├── for_nfix.for │ │ ├── for_nuptak.for │ │ ├── for_opgrow.for │ │ ├── for_opmob.for │ │ ├── for_oppest.for │ │ ├── for_pest.for │ │ ├── for_pestcp.for │ │ ├── for_phenol.for │ │ ├── for_photo.for │ │ ├── for_plantnbal.for │ │ ├── for_poddet.for │ │ ├── for_pods.for │ │ ├── for_respir.for │ │ ├── for_rootdm.for │ │ ├── for_roots.for │ │ ├── for_rstages.for │ │ ├── for_sdcomp.for │ │ ├── for_seeddm.for │ │ ├── for_senmob.for │ │ ├── for_vegdm.for │ │ ├── for_veggr.for │ │ ├── forage.for │ │ ├── fort.503 │ │ ├── getrec.for │ │ ├── getun.for │ │ ├── ifindc.f90 │ │ ├── input_sub.for │ │ ├── ipexp.for │ │ ├── istart.for │ │ ├── lextokin.inc │ │ ├── lowerc.for │ │ ├── messinq.f90 │ │ ├── messwrt.for │ │ ├── notnul.for │ │ ├── nox_pulse.f90 │ │ ├── optempy2k.for │ │ ├── outcom.for │ │ ├── outdat.f90 │ │ ├── parsword.for │ │ ├── plant.for │ │ ├── quadpack.f90 │ │ ├── rdarea.for │ │ ├── rddata.for │ │ ├── rddata.inc │ │ ├── rddecinf.inc │ │ ├── rddtmp.for │ │ ├── rderr.for │ │ ├── rderri.for │ │ ├── rderrinf.inc │ │ ├── rdfilinf.inc │ │ ├── rdindx.for │ │ ├── rdinit.for │ │ ├── rdinlv.for │ │ ├── rdinqr.for │ │ ├── rdjdat.gin │ │ ├── rdjdec.gin │ │ ├── rdlex.for │ │ ├── rdmachin.inc │ │ ├── rdndat.gin │ │ ├── rdndec.gin │ │ ├── rdrecinf.inc │ │ ├── rdscha.for │ │ ├── rdsctb.for │ │ ├── rdsint.for │ │ ├── rdsrea.for │ │ ├── rdstainf.inc │ │ ├── rdtblinf.inc │ │ ├── rdtmp1.for │ │ ├── rdtmp2.for │ │ ├── recread.f90 │ │ ├── recread.inc │ │ ├── recreadi.f90 │ │ ├── recreadt.f90 │ │ ├── str_copy.for │ │ ├── swpi4.for │ │ ├── ttutilprefs.f90 │ │ ├── upperc.f90 │ │ ├── warning_OR.for │ │ ├── weathr.for │ │ ├── wnostress.f90 │ │ └── words.for │ └── README.md │ ├── GCC2GrFN │ ├── gcc_to_cast_pipeline │ │ ├── GE_PrevVal2.c │ │ ├── GE_PrevVal2_gcc_ast.json │ │ ├── GE_PrevVal3.c │ │ ├── GE_PrevVal3_gcc_ast.json │ │ ├── GE_simple_PID_controller-V2.c │ │ ├── GE_simple_PID_controller-V2_gcc_ast.json │ │ ├── GE_simple_PI_controller-antiwindup.c │ │ ├── GE_simple_PI_controller-antiwindup_gcc_ast.json │ │ ├── GE_simple_PI_controller_saturation.c │ │ ├── GE_simple_PI_controller_saturation_gcc_ast.json │ │ ├── GE_temp.c │ │ ├── GE_temp2.c │ │ ├── GE_temp2_gcc_ast.json │ │ ├── GE_temp_gcc_ast.json │ │ ├── args_for_main--CAST.json │ │ ├── args_for_main.c │ │ ├── args_for_main_gcc_ast.json │ │ ├── complex_operator1--CAST.json │ │ ├── complex_operator1.c │ │ ├── complex_operator1_gcc_ast.json │ │ ├── conditional_loop_01--CAST.json │ │ ├── conditional_loop_01.c │ │ ├── conditional_loop_01_gcc_ast.json │ │ ├── conditional_loop_02--CAST.json │ │ ├── conditional_loop_02.c │ │ ├── conditional_loop_02_gcc_ast.json │ │ ├── conditional_loop_07--CAST.json │ │ ├── conditional_loop_07.c │ │ ├── conditional_loop_07_gcc_ast.json │ │ ├── conditional_loop_08--CAST.json │ │ ├── conditional_loop_08.c │ │ ├── conditional_loop_08_gcc_ast.json │ │ ├── cscope--CAST.json │ │ ├── cscope.c │ │ ├── cscope_gcc_ast.json │ │ ├── empty_interf.c │ │ ├── empty_interf_gcc_ast.json │ │ ├── func_call_in_op--CAST.json │ │ ├── func_call_in_op.c │ │ ├── func_call_in_op2--CAST.json │ │ ├── func_call_in_op2.c │ │ ├── func_call_in_op2_gcc_ast.json │ │ ├── func_call_in_op3--CAST.json │ │ ├── func_call_in_op3.c │ │ ├── func_call_in_op3_gcc_ast.json │ │ ├── func_call_in_op4--CAST.json │ │ ├── func_call_in_op4.c │ │ ├── func_call_in_op4_gcc_ast.json │ │ ├── func_call_in_op5--CAST.json │ │ ├── func_call_in_op5.c │ │ ├── func_call_in_op5_gcc_ast.json │ │ ├── func_call_in_op_gcc_ast.json │ │ ├── funccall--CAST.json │ │ ├── funccall.c │ │ ├── funccall_gcc_ast.json │ │ ├── global_ex_1--CAST.json │ │ ├── global_ex_1.c │ │ ├── global_ex_1_gcc_ast.json │ │ ├── global_modified_if_else_branch--CAST.json │ │ ├── global_modified_if_else_branch.c │ │ ├── global_modified_if_else_branch_gcc_ast.json │ │ ├── global_simple_1--CAST.json │ │ ├── global_simple_1.c │ │ ├── global_simple_1_gcc_ast.json │ │ ├── global_simple_2--CAST.json │ │ ├── global_simple_2.c │ │ ├── global_simple_2_gcc_ast.json │ │ ├── global_simple_3--CAST.json │ │ ├── global_simple_3.c │ │ ├── global_simple_3_gcc_ast.json │ │ ├── global_simple_4--CAST.json │ │ ├── global_simple_4.c │ │ ├── global_simple_4_gcc_ast.json │ │ ├── global_to_inner_con--CAST.json │ │ ├── global_to_inner_con.c │ │ ├── global_to_inner_con_gcc_ast.json │ │ ├── global_vars_01--CAST.json │ │ ├── global_vars_01.c │ │ ├── global_vars_01_gcc_ast.json │ │ ├── if_else_basic_01--CAST.json │ │ ├── if_else_basic_01.c │ │ ├── if_else_basic_01_gcc_ast.json │ │ ├── if_else_if_01--CAST.json │ │ ├── if_else_if_01.c │ │ ├── if_else_if_01_gcc_ast.json │ │ ├── if_else_if_02--CAST.json │ │ ├── if_else_if_02.c │ │ ├── if_else_if_02_gcc_ast.json │ │ ├── if_else_if_03--CAST.json │ │ ├── if_else_if_03.c │ │ ├── if_else_if_03_gcc_ast.json │ │ ├── if_else_if_04--CAST.json │ │ ├── if_else_if_04.c │ │ ├── if_else_if_04_gcc_ast.json │ │ ├── if_else_if_05--CAST.json │ │ ├── if_else_if_05.c │ │ ├── if_else_if_05_gcc_ast.json │ │ ├── if_else_if_06--CAST.json │ │ ├── if_else_if_06.c │ │ ├── if_else_if_06_gcc_ast.json │ │ ├── if_else_if_08--CAST.json │ │ ├── if_else_if_08.c │ │ ├── if_else_if_08_gcc_ast.json │ │ ├── if_else_implicit_access1--CAST.json │ │ ├── if_else_implicit_access1.c │ │ ├── if_else_implicit_access1_gcc_ast.json │ │ ├── if_with_declaration1--CAST.json │ │ ├── if_with_declaration1.c │ │ ├── if_with_declaration1_gcc_ast.json │ │ ├── libcalls.c │ │ ├── libcalls_gcc_ast.json │ │ ├── loop_01.c │ │ ├── loop_01_gcc_ast.json │ │ ├── loop_02--CAST.json │ │ ├── loop_02.c │ │ ├── loop_02_gcc_ast.json │ │ ├── loop_03--CAST.json │ │ ├── loop_03.c │ │ ├── loop_03_gcc_ast.json │ │ ├── nested_if_01.c │ │ ├── nested_if_01_gcc_ast.json │ │ ├── nested_if_02--CAST.json │ │ ├── nested_if_02.c │ │ ├── nested_if_02_gcc_ast.json │ │ ├── scope_vars--CAST.json │ │ ├── scope_vars.c │ │ ├── scope_vars_gcc_ast.json │ │ ├── simple_func_call--CAST.json │ │ ├── simple_func_call.c │ │ ├── simple_func_call2--CAST.json │ │ ├── simple_func_call2.c │ │ ├── simple_func_call2_gcc_ast.json │ │ ├── simple_func_call3--CAST.json │ │ ├── simple_func_call3.c │ │ ├── simple_func_call3_gcc_ast.json │ │ ├── simple_func_call4--CAST.json │ │ ├── simple_func_call4.c │ │ ├── simple_func_call4_gcc_ast.json │ │ └── simple_func_call_gcc_ast.json │ ├── legacy_gcc_to_grfn │ │ ├── all_binary_ops--CAST.json │ │ ├── all_binary_ops--GrFN.json │ │ ├── all_binary_ops.c │ │ ├── all_unary_ops--CAST.json │ │ ├── all_unary_ops--GrFN.json │ │ ├── all_unary_ops.c │ │ ├── array_iterating_length--CAST.json │ │ ├── array_iterating_length--GrFN.json │ │ ├── array_iterating_length.c │ │ ├── array_updated_in_lower_scopes--CAST.json │ │ ├── array_updated_in_lower_scopes--GrFN.json │ │ ├── array_updated_in_lower_scopes.c │ │ ├── array_updated_through_funcs--CAST.json │ │ ├── array_updated_through_funcs.c │ │ ├── function_call--CAST.json │ │ ├── function_call--GrFN.json │ │ ├── function_call.c │ │ ├── function_call_expression_args--CAST.json │ │ ├── function_call_expression_args--GrFN.json │ │ ├── function_call_expression_args.c │ │ ├── function_call_literal_args--CAST.json │ │ ├── function_call_literal_args--GrFN.json │ │ ├── function_call_literal_args.c │ │ ├── function_call_nested--CAST.json │ │ ├── function_call_nested--GrFN.json │ │ ├── function_call_nested.c │ │ ├── function_call_no_args--CAST.json │ │ ├── function_call_no_args--GrFN.json │ │ ├── function_call_no_args.c │ │ ├── function_call_one_variable_for_multiple_args--CAST.json │ │ ├── function_call_one_variable_for_multiple_args--GrFN.json │ │ ├── function_call_one_variable_for_multiple_args.c │ │ ├── function_call_with_complex_return--CAST.json │ │ ├── function_call_with_complex_return--GrFN.json │ │ ├── function_call_with_complex_return.c │ │ ├── function_call_with_literal_return--CAST.json │ │ ├── function_call_with_literal_return--GrFN.json │ │ ├── function_call_with_literal_return.c │ │ ├── function_same_func_multiple_times--CAST.json │ │ ├── function_same_func_multiple_times--GrFN.json │ │ ├── function_same_func_multiple_times.c │ │ ├── if_elif_statement--CAST.json │ │ ├── if_elif_statement.c │ │ ├── if_else_statement--CAST.json │ │ ├── if_else_statement--GrFN.json │ │ ├── if_else_statement.c │ │ ├── if_statement--CAST.json │ │ ├── if_statement--GrFN.json │ │ ├── if_statement.c │ │ ├── simple_function_and_assignments--CAST.json │ │ ├── simple_function_and_assignments--GrFN.json │ │ └── simple_function_and_assignments.c │ └── model_examples │ │ ├── GE_simple_PI_controller │ │ ├── GE_simple_PI_controller--GrFN.json │ │ ├── GE_simple_PI_controller.c │ │ ├── GE_simple_PI_controller_dynamics--GrFN.json │ │ └── GE_simple_PI_controller_dynamics.c │ │ ├── simple_controller_bhpm │ │ ├── generator.c │ │ ├── generator.h │ │ ├── main.c │ │ ├── single_file--GrFN.json │ │ └── single_file.c │ │ ├── simple_controller_gas_turbine_v1 │ │ └── Simple_controler_simplified.c │ │ ├── simple_controller_pid │ │ └── PID.c │ │ ├── stemp_epic_soilt │ │ ├── original │ │ │ ├── ASKEE.for │ │ │ ├── CMakeLists.txt │ │ │ ├── DATES.for │ │ │ ├── ModuleDefs.for │ │ │ ├── README.md │ │ │ ├── STEMP_EPIC.for │ │ │ ├── moduledefs.mod │ │ │ └── soilt.for │ │ └── stemp_epic_soilt.for │ │ └── stemp_soilt │ │ ├── a.out │ │ ├── moduledefs.mod │ │ ├── original │ │ ├── ASKEE.for │ │ ├── CMakeLists.txt │ │ ├── DATES.for │ │ ├── ModuleDefs.for │ │ ├── OPSTEMP.for │ │ ├── README.md │ │ ├── STEMP.for │ │ ├── a.out │ │ ├── cmake │ │ │ └── Modules │ │ │ │ ├── SetCompileFlag.cmake │ │ │ │ └── SetFortranFlags.cmake │ │ ├── moduledefs.mod │ │ └── soilt.for │ │ ├── run_stemp.for │ │ └── stemp_soilt.for │ ├── Gillespie-SIR.for │ ├── ORIG-PETASCE.for │ ├── PETASCE_markedup.for │ ├── PETASCE_markedup.py │ ├── PETASCE_simple.for │ ├── PETASCE_single.for │ ├── PETASCE_single.py │ ├── PETDYN.for │ ├── PETPEN.for │ ├── PETPNO.for │ ├── PETPT.for │ ├── PETPT.py │ ├── PyAST2CAST │ ├── class │ │ ├── test_class_1.py │ │ └── test_class_2.py │ ├── expected_output │ │ ├── test_add_1--CAST.json │ │ ├── test_add_2--CAST.json │ │ ├── test_assign_1--CAST.json │ │ ├── test_assign_2--CAST.json │ │ ├── test_assign_3--CAST.json │ │ ├── test_assign_4--CAST.json │ │ ├── test_assign_5--CAST.json │ │ ├── test_assign_6--CAST.json │ │ ├── test_bool_1--CAST.json │ │ ├── test_call_1--CAST.json │ │ ├── test_class_1--CAST.json │ │ ├── test_class_2--CAST.json │ │ ├── test_ext_slice_1--CAST.json │ │ ├── test_for_1--CAST.json │ │ ├── test_for_2--CAST.json │ │ ├── test_function_1--CAST.json │ │ ├── test_if_1--CAST.json │ │ ├── test_if_2--CAST.json │ │ ├── test_if_3--CAST.json │ │ ├── test_if_4--CAST.json │ │ ├── test_if_5--CAST.json │ │ ├── test_import_1--CAST.json │ │ ├── test_import_2--CAST.json │ │ ├── test_import_3--CAST.json │ │ ├── test_increment_1--CAST.json │ │ ├── test_lambda_1--CAST.json │ │ ├── test_list_1--CAST.json │ │ ├── test_list_2--CAST.json │ │ ├── test_name_1--CAST.json │ │ └── test_while_1--CAST.json │ ├── expression │ │ ├── test_bool_1.py │ │ ├── test_call_1.py │ │ ├── test_ext_slice_1.py │ │ ├── test_increment_1.py │ │ ├── test_list_1.py │ │ ├── test_list_2.py │ │ └── test_name_1.py │ ├── function_def │ │ ├── test_add_1.py │ │ ├── test_add_2.py │ │ ├── test_assign_1.py │ │ ├── test_assign_2.py │ │ ├── test_assign_3.py │ │ ├── test_assign_4.py │ │ ├── test_assign_5.py │ │ ├── test_assign_6.py │ │ ├── test_function_1.py │ │ └── test_lambda_1.py │ ├── if │ │ ├── test_if_1.py │ │ ├── test_if_2.py │ │ ├── test_if_3.py │ │ ├── test_if_4.py │ │ └── test_if_5.py │ ├── import │ │ ├── test_import_1.py │ │ └── test_import_2.py │ └── loop │ │ ├── test_for_1.py │ │ ├── test_for_2.py │ │ └── test_while_1.py │ ├── SIR-Gillespie-MS.f │ ├── SIR-Gillespie-SD.f │ ├── SIR-Gillespie-SD_GrFN_with_groundings.json │ ├── SIR-Gillespie-SD_inline.f │ ├── SIR-Gillespie-SD_inline.py │ ├── SIR-Gillespie-SD_module.f │ ├── SIR-Gillespie-SD_multi_module.f │ ├── SIR-Gillespie-SD_multi_module_AIR.json │ ├── SIR-Gillespie-SD_multi_module_lambdas.py │ ├── SIR-simple.f │ ├── SIR-simple_with_groundings.json │ ├── SimpleModular │ ├── IRRIG.INP │ ├── PLANT.INP │ ├── SIMCTRL.INP │ ├── SOIL.INP │ ├── SimpleModular-1file.for │ └── WEATHER.INP │ ├── array_func_loop │ ├── SIR-Gillespie-SD.f │ ├── array-loop_01.f │ ├── array-to-func_01.f │ ├── array-to-func_01a.f │ ├── array-to-func_02.f │ ├── array-to-func_03.f │ ├── array-to-func_04.f │ ├── array-to-func_05.f │ ├── array-to-func_06.f │ └── array-to-func_06.py │ ├── arrays │ ├── INFILE-GAUSSIAN │ ├── Makefile │ ├── Translation │ │ ├── .#foo.py │ │ ├── arrays-basic-01.py │ │ ├── arrays-basic-02.py │ │ ├── arrays-basic-03.py │ │ ├── arrays-basic-04.py │ │ ├── arrays-basic-05.py │ │ ├── arrays-basic-06.py │ │ ├── arrays-constr-01.py │ │ ├── arrays-constr-02.py │ │ ├── arrays-constr-03.py │ │ ├── arrays-constr-04.py │ │ ├── arrays-constr-05.py │ │ ├── arrays-constr-06.py │ │ ├── arrays-constr-07.py │ │ ├── arrays-sect-01.py │ │ ├── arrays-sect-02.py │ │ ├── arrays-sect-03.py │ │ ├── arrays-sect-04.py │ │ ├── arrays-sect-05.py │ │ ├── arrays-sect-06.py │ │ ├── arrays-sect-07.py │ │ ├── arrays-sect-08.py │ │ ├── arrays-sect-09.py │ │ ├── arrays-sect-10.py │ │ ├── arrays-sect-11.py │ │ ├── arrays-sect-12.py │ │ ├── arrays-sect-13.py │ │ ├── arrays-sect-14.py │ │ ├── arrays-sect-15.py │ │ ├── arrays-sect-16.py │ │ ├── arrays-sect-17.py │ │ ├── arrays-sect-18.py │ │ ├── arrays-sect-19.py │ │ ├── arrays-sect-20.py │ │ ├── arrays-sect-21.py │ │ └── arrays-sect-22.py │ ├── array2d-slice-01.f │ ├── array2d-slice-02.f │ ├── array2d-slice-03.f │ ├── array2d-slice-04.f │ ├── array2d-slice-05.f │ ├── array2d-slice-06.f │ ├── array2d-slice-07.f │ ├── arrays-basic-01.f │ ├── arrays-basic-01.json │ ├── arrays-basic-01a.f │ ├── arrays-basic-02.f │ ├── arrays-basic-03.f │ ├── arrays-basic-04.f │ ├── arrays-basic-04a.f │ ├── arrays-basic-05.f │ ├── arrays-basic-06.f │ ├── arrays-basic-06.py │ ├── arrays-basic-06_AIR.json │ ├── arrays-basic-06_lambdas.py │ ├── arrays-basic-07.f │ ├── arrays-basic-08.f │ ├── arrays-constr-01.f │ ├── arrays-constr-02.f │ ├── arrays-constr-03.f │ ├── arrays-constr-04.f │ ├── arrays-constr-05.f │ ├── arrays-constr-06.f │ ├── arrays-constr-07.f │ ├── arrays-sect-01.f │ ├── arrays-sect-02.f │ ├── arrays-sect-03.f │ ├── arrays-sect-04.f │ ├── arrays-sect-05.f │ ├── arrays-sect-06.f │ ├── arrays-sect-07.f │ ├── arrays-sect-08.f │ ├── arrays-sect-09.f │ ├── arrays-sect-10.f │ ├── arrays-sect-11.f │ ├── arrays-sect-12.f │ ├── arrays-sect-13.f │ ├── arrays-sect-14.f │ ├── arrays-sect-15.f │ ├── arrays-sect-16.f │ ├── arrays-sect-17.f │ ├── arrays-sect-18.f │ ├── arrays-sect-19.f │ ├── arrays-sect-20.f │ ├── arrays-sect-21.f │ └── arrays-sect-22.f │ ├── continuation_line │ ├── continuation-lines-01.for │ ├── continuation-lines-01.py │ ├── continuation-lines-02.f90 │ └── continuation-lines-02.py │ ├── crop_yield.f │ ├── crop_yield.py │ ├── cycle │ ├── cycle_01.f │ ├── cycle_02.f │ ├── cycle_03.f │ └── cycle_03.py │ ├── data_statement │ ├── data01.f │ ├── data02.f │ ├── data03.f │ ├── data04.f │ ├── data05.f │ ├── data06.f │ ├── data07.f │ ├── data08.f │ ├── data09.f │ ├── data_test.f │ ├── data_test.py │ └── future.f │ ├── derived-types │ ├── Translation │ │ ├── M_mymod.py │ │ ├── derived-types-01.py │ │ ├── derived-types-02.py │ │ └── interface-01.py │ ├── derived-types-01.f │ ├── derived-types-02.f │ ├── derived-types-02_AIR.json │ ├── derived-types-02_lambdas.py │ ├── derived-types-03.f │ ├── derived-types-03.py │ ├── derived-types-04.f │ ├── derived-types-04.py │ ├── derived-types-04_AIR.json │ ├── derived-types-04_GrFN.json │ ├── derived-types-04_lambdas.py │ ├── derived-types-07.f │ ├── derived-types-07.py │ └── interface-01.f │ ├── do-while │ ├── do_while_01.f │ ├── do_while_02.f │ ├── do_while_03.f │ ├── do_while_04.f │ └── do_while_04.py │ ├── floating_precision │ ├── array_basic.f │ └── precisionFix.f │ ├── goto │ ├── eliminated_gotos │ │ ├── goto_01_eliminated.f │ │ ├── goto_02_eliminated.f │ │ ├── goto_03_eliminated.f │ │ ├── goto_04_eliminated.f │ │ ├── goto_05_eliminated.f │ │ ├── goto_06_eliminated.f │ │ ├── goto_07_eliminated.f │ │ ├── goto_08_eliminated.f │ │ └── goto_09_eliminated.f │ ├── goto_01.f │ ├── goto_02.f │ ├── goto_02.py │ ├── goto_03.f │ ├── goto_04.f │ ├── goto_05.f │ ├── goto_06.f │ ├── goto_07.f │ ├── goto_08.f │ ├── goto_08.py │ ├── goto_09.f │ └── goto_09.py │ ├── grfn_execution │ ├── basic_assignment_grfn.json │ ├── grfn_with_types.json │ └── loop_grfn.json │ ├── if_PETPT.for │ ├── if_containers │ ├── PETPT.for │ └── test_01.for │ ├── initial_values.f │ ├── interface │ ├── interface_01.f │ ├── interface_02.f │ ├── interface_03.f │ ├── interface_03.py │ ├── m_interface03_mod.py │ └── m_mymod.py │ ├── intrinsics │ ├── nint-01.for │ └── nint-02.for │ ├── io-tests │ ├── DEMAND.for │ ├── character_read.for │ ├── infile1 │ ├── infile2 │ ├── infile3 │ ├── iotest_01.for │ ├── iotest_02.for │ ├── iotest_03.for │ ├── iotest_04.for │ ├── iotest_05.for │ ├── iotest_05.json │ ├── iotest_05.py │ ├── iotest_05_GrFN.json │ ├── iotest_06.for │ ├── iotest_06.py │ ├── iotest_07.for │ ├── iotest_07.py │ ├── iotest_08.for │ ├── outfile1 │ ├── outfile2 │ ├── testfile │ └── testout │ ├── io-xlat-test01.for │ ├── io-xlat-test02.for │ ├── iotest_05_GrFN.json │ ├── loop_breaks │ ├── break_01.f │ ├── break_01.py │ ├── break_02.f │ ├── break_02.py │ ├── break_03.py │ ├── break_04.py │ ├── break_05.py │ ├── break_06.py │ └── break_07.py │ ├── modules │ ├── .test_module_08.py │ ├── Makefile │ ├── PETASCE_01.for │ ├── PETASCE_02.for │ ├── m_mymod8.py │ ├── nested_module.f │ ├── test_module_01-OUT.txt │ ├── test_module_01.f │ ├── test_module_02-OUT.txt │ ├── test_module_02.f │ ├── test_module_03-OUT.txt │ ├── test_module_03.f │ ├── test_module_04-OUT.txt │ ├── test_module_04.f │ ├── test_module_05-OUT.txt │ ├── test_module_05.f │ ├── test_module_06-OUT.txt │ ├── test_module_06.f │ ├── test_module_07-OUT.txt │ ├── test_module_07.f │ ├── test_module_08-OUT.txt │ ├── test_module_08.f │ ├── test_module_09-OUT.txt │ ├── test_module_09.f │ ├── test_module_10-OUT.txt │ ├── test_module_10.f │ ├── test_module_11-OUT.txt │ ├── test_module_11.f │ └── test_module_12.f │ ├── multifile_multimod │ ├── dssat-PET-01 │ │ ├── CO2047.WDA │ │ ├── COMIBS.blk │ │ ├── COMSOI.blk │ │ ├── COMSWI.blk │ │ ├── CSM.for │ │ ├── CSMVersion.for │ │ ├── DATA.CDE │ │ ├── DATES.for │ │ ├── DETAIL.CDE │ │ ├── DSSATPRO.L47 │ │ ├── DSSBatch.v47 │ │ ├── ERROR.for │ │ ├── IPIBS.for │ │ ├── LAND.for │ │ ├── Makefile │ │ ├── ModuleDefs.for │ │ ├── OSDefinitions.for │ │ ├── OUTPUT.CDE │ │ ├── PATH.for │ │ ├── README.md │ │ ├── READS.for │ │ ├── RESCH047.SDA │ │ ├── RUN-CMD │ │ ├── SBGRO047.CUL │ │ ├── SBGRO047.ECO │ │ ├── SBGRO047.SPE │ │ ├── SIMULATION.CDE │ │ ├── SOIL.for │ │ ├── UFGA7801.SBA │ │ ├── UFGA7801.SBT │ │ ├── UFGA7801.SBX │ │ ├── UFGA7801.WTH │ │ ├── UTILS.for │ │ └── input_sub.for │ ├── dssat-PET-02 │ │ ├── CO2047.WDA │ │ ├── CO2VAL.for │ │ ├── COMGEN.blk │ │ ├── COMIBS.blk │ │ ├── COMSOI.blk │ │ ├── COMSWI.blk │ │ ├── CSM.for │ │ ├── CSMVersion.for │ │ ├── DATA.CDE │ │ ├── DATES.for │ │ ├── DETAIL.CDE │ │ ├── DSSAT47.INP │ │ ├── DSSATPRO.L47 │ │ ├── DSSBatch.v47 │ │ ├── ERROR.for │ │ ├── ETPHOT.for │ │ ├── ETPHR.for │ │ ├── HMET.for │ │ ├── IPIBS.for │ │ ├── IPWTH_alt.for │ │ ├── Info.for │ │ ├── LAND.for │ │ ├── Makefile │ │ ├── ModuleDefs.for │ │ ├── OPETPHOT.for │ │ ├── OPHEAD.for │ │ ├── OPWEATH.for │ │ ├── OSDefinitions.for │ │ ├── OUTPUT.CDE │ │ ├── OpStemp.for │ │ ├── PATH.for │ │ ├── README.md │ │ ├── READS.for │ │ ├── RESCH047.SDA │ │ ├── RUN-CMD │ │ ├── SBGRO047.CUL │ │ ├── SBGRO047.ECO │ │ ├── SBGRO047.SPE │ │ ├── SIMULATION.CDE │ │ ├── SOIL.for │ │ ├── SOLAR.for │ │ ├── SPAM.for │ │ ├── UFGA7801.SBA │ │ ├── UFGA7801.SBT │ │ ├── UFGA7801.SBX │ │ ├── UFGA7801.WTH │ │ ├── UTILS.for │ │ ├── WTHMOD.for │ │ ├── Warning.for │ │ ├── input_sub.for │ │ └── weathr.for │ ├── dssat-PET │ │ ├── ASMDM.for │ │ ├── AUTHAR.for │ │ ├── AUTPLT.for │ │ ├── CANOPY.for │ │ ├── CHEMICAL.for │ │ ├── CO2047.WDA │ │ ├── CO2VAL.for │ │ ├── COMGEN.blk │ │ ├── COMIBS.blk │ │ ├── COMSOI.blk │ │ ├── COMSWI.blk │ │ ├── CROPGRO.for │ │ ├── CSM.for │ │ ├── CSMVersion.for │ │ ├── CSUTS.for │ │ ├── DATA.CDE │ │ ├── DATA_STMT_HACK.for │ │ ├── DATES.for │ │ ├── DEMAND.for │ │ ├── DETAIL.CDE │ │ ├── DSSAT47.INH │ │ ├── DSSAT47.INP │ │ ├── DSSATPRO.L47 │ │ ├── DSSBatch.v47 │ │ ├── Denit_Ceres.for │ │ ├── ERROR.for │ │ ├── ESR_SoilEvap.for │ │ ├── ETPHOT.for │ │ ├── ETPHR.for │ │ ├── Fert_Place.for │ │ ├── Flood_Chem.for │ │ ├── Flood_Irrig.for │ │ ├── FreshWt.for │ │ ├── GROW.for │ │ ├── HMET.for │ │ ├── HRes_CGRO.for │ │ ├── INCOMP.for │ │ ├── INFIL.for │ │ ├── INFO.OUT │ │ ├── INSOIL.for │ │ ├── INTRO.for │ │ ├── IPCHEM.for │ │ ├── IPENV.for │ │ ├── IPIBS.for │ │ ├── IPMAN.for │ │ ├── IPPARM.for │ │ ├── IPPEST.for │ │ ├── IPPLNT.for │ │ ├── IPPROG.for │ │ ├── IPSIM.for │ │ ├── IPSLIN.for │ │ ├── IPSOIL.for │ │ ├── IPSOIL_Inp.for │ │ ├── IPTILL.for │ │ ├── IPVAR.for │ │ ├── IPWTH_alt.for │ │ ├── IRRIG.for │ │ ├── Info.for │ │ ├── Ipphenol.for │ │ ├── LAND.for │ │ ├── LINDM.for │ │ ├── LMATCH.for │ │ ├── MOBIL.for │ │ ├── MODEL.ERR │ │ ├── MULCHEVAP.for │ │ ├── MULCHLAYER.for │ │ ├── MULCHWAT.for │ │ ├── Makefile │ │ ├── MgmtOps.for │ │ ├── ModuleDefs.for │ │ ├── N2O_mod.for │ │ ├── NCHECK_inorg.for │ │ ├── NCHECK_organic.for │ │ ├── NFIX.for │ │ ├── NFLUX.for │ │ ├── NUPTAK.for │ │ ├── OM_Place.for │ │ ├── OPETPHOT.for │ │ ├── OPGEN.for │ │ ├── OPHARV.for │ │ ├── OPHEAD.for │ │ ├── OPMULCH.for │ │ ├── OPPEST.for │ │ ├── OPSOILNI.for │ │ ├── OPSTRESS.for │ │ ├── OPSUM.for │ │ ├── OPTEMPXY2K.for │ │ ├── OPVIEW.for │ │ ├── OPWBAL.for │ │ ├── OPWEATH.for │ │ ├── OSDefinitions.for │ │ ├── OUTPUT.CDE │ │ ├── OUTPUT.LST │ │ ├── OVERVIEW.OUT │ │ ├── OXLAYER.for │ │ ├── OpFlood.for │ │ ├── OpPlantP.for │ │ ├── OpSoilKi.for │ │ ├── OpSoilOrg.for │ │ ├── OpStemp.for │ │ ├── Opgrow.for │ │ ├── PATH.for │ │ ├── PEST.for │ │ ├── PESTCP.for │ │ ├── PET.for │ │ ├── PHENOL.for │ │ ├── PHOTO.for │ │ ├── PODS.for │ │ ├── PPlantSubs.for │ │ ├── P_CGRO.for │ │ ├── P_IPPLNT.for │ │ ├── P_Plant.for │ │ ├── P_Uptake.for │ │ ├── Paddy_Mgmt.for │ │ ├── PlantNBal.OUT │ │ ├── PlantNBal.for │ │ ├── README.md │ │ ├── READS.for │ │ ├── RESCH047.SDA │ │ ├── RESPIR.for │ │ ├── RETC_VG.for │ │ ├── RNOFF.for │ │ ├── ROOTDM.for │ │ ├── ROOTS.for │ │ ├── ROOTWU.for │ │ ├── RStages.for │ │ ├── RUN-CMD │ │ ├── RootSoilVol.for │ │ ├── RunList.OUT │ │ ├── RunList.for │ │ ├── SATFLO.for │ │ ├── SAVE-DSSBatch.v47 │ │ ├── SBGRO047.CUL │ │ ├── SBGRO047.ECO │ │ ├── SBGRO047.SPE │ │ ├── SDCOMP.for │ │ ├── SEEDDM.for │ │ ├── SENES.for │ │ ├── SIMULATION.CDE │ │ ├── SOIL.SOL │ │ ├── SOIL.for │ │ ├── SOILDYN.for │ │ ├── SOILNI.for │ │ ├── SOLAR.for │ │ ├── SPAM.for │ │ ├── SPSUBS.for │ │ ├── STEMP.for │ │ ├── SoilK_init.for │ │ ├── SoilKi.for │ │ ├── SoilMixing.for │ │ ├── SoilNBalSum.for │ │ ├── SoilNiBal.OUT │ │ ├── SoilNiBal.for │ │ ├── SoilNi_init.for │ │ ├── SoilNoBal.OUT │ │ ├── SoilNoPoBal.for │ │ ├── SoilOrg.for │ │ ├── SoilOrg_init.for │ │ ├── SoilPi.for │ │ ├── SoilWatBal.OUT │ │ ├── SolNBalSum.OUT │ │ ├── TILEDRAIN.for │ │ ├── TRANS.for │ │ ├── TextureClass.for │ │ ├── TillEvent.for │ │ ├── Tillage.for │ │ ├── UFGA7801.SBA │ │ ├── UFGA7801.SBT │ │ ├── UFGA7801.SBX │ │ ├── UFGA7801.WTH │ │ ├── UTILS.for │ │ ├── VEGDM.for │ │ ├── VEGGR.for │ │ ├── WATBAL.for │ │ ├── WBAL.for │ │ ├── WBSUBS.for │ │ ├── WEATHR_Inp.for │ │ ├── WTHMOD.for │ │ ├── WTHSET.for │ │ ├── Warning.for │ │ ├── diffusiv.for │ │ ├── fort.12 │ │ ├── fort.777 │ │ ├── input_sub.for │ │ ├── ipexp.for │ │ ├── mini_ModuleDefs.for │ │ ├── mini_PET.for │ │ ├── nox_pulse.f90 │ │ ├── optempy2k.for │ │ ├── plant.for │ │ ├── save-IPMAN.for │ │ ├── save-ModuleDefs.for │ │ ├── save-OPVIEW.for │ │ ├── save-RunList.for │ │ └── weathr.for │ ├── mfmm_01 │ │ ├── CSMVersion.for │ │ ├── Makefile │ │ ├── ModuleDefs.for │ │ ├── OSDefinitions.for │ │ ├── README.md │ │ └── main.for │ └── mfmm_02 │ │ ├── Makefile │ │ ├── README.md │ │ ├── REF-basin_aqu_aa.txt │ │ ├── REF-basin_crop_yld_aa.txt │ │ ├── REF-basin_crop_yld_yr.txt │ │ ├── REF-basin_pw_yr.txt │ │ ├── REF-basin_wb_aa.txt │ │ ├── REF-basin_wb_yr.txt │ │ ├── REF-channel_sd_yr.txt │ │ ├── REF-channel_sdmorph_yr.txt │ │ ├── REF-crop_yld_aa.txt │ │ ├── REF-files_out.out │ │ ├── REF-hru_pw_aa.txt │ │ ├── REF-hru_wb_aa.txt │ │ ├── actions.f90 │ │ ├── albedo.f90 │ │ ├── allocate_parms.f90 │ │ ├── aqu2d_init.f90 │ │ ├── aqu2d_read.f90 │ │ ├── aqu_1d_control.f90 │ │ ├── aqu_catunit.ele │ │ ├── aqu_cha.lin │ │ ├── aqu_initial.f90 │ │ ├── aqu_pesticide_module.f90 │ │ ├── aqu_pesticide_output.f90 │ │ ├── aqu_read.f90 │ │ ├── aqu_read_elements.f90 │ │ ├── aqu_read_init.f90 │ │ ├── aqu_unit.ele │ │ ├── aquifer.aqu │ │ ├── aquifer.con │ │ ├── aquifer_module.f90 │ │ ├── aquifer_output.f90 │ │ ├── ascrv.f90 │ │ ├── atri.f90 │ │ ├── aunif.f90 │ │ ├── basin_aqu_pest_output.f90 │ │ ├── basin_aquifer_output.f90 │ │ ├── basin_ch_pest_output.f90 │ │ ├── basin_chanmorph_output.f90 │ │ ├── basin_channel_output.f90 │ │ ├── basin_ls_pest_output.f90 │ │ ├── basin_module.f90 │ │ ├── basin_output.f90 │ │ ├── basin_print_codes_read.f90 │ │ ├── basin_prm_default.f90 │ │ ├── basin_read_cc.f90 │ │ ├── basin_read_objs.f90 │ │ ├── basin_read_prm.f90 │ │ ├── basin_recall_output.f90 │ │ ├── basin_res_pest_output.f90 │ │ ├── basin_reservoir_output.f90 │ │ ├── basin_sdchannel_output.f90 │ │ ├── cal_allo_init.f90 │ │ ├── cal_cond_read.f90 │ │ ├── cal_conditions.f90 │ │ ├── cal_parm_read.f90 │ │ ├── cal_parm_select.f90 │ │ ├── cal_parmchg_read.f90 │ │ ├── calhard_control.f90 │ │ ├── calibration_data_module.f90 │ │ ├── calsoft_ave_output.f90 │ │ ├── calsoft_chsed.f90 │ │ ├── calsoft_control.f90 │ │ ├── calsoft_hyd.f90 │ │ ├── calsoft_plant.f90 │ │ ├── calsoft_read_codes.f90 │ │ ├── calsoft_sed.f90 │ │ ├── calsoft_sum_output.f90 │ │ ├── caltsoft_hyd.f90 │ │ ├── carbon_module.f90 │ │ ├── cbn_zhang2.f90 │ │ ├── ccw01.pcp │ │ ├── ccw01.tmp │ │ ├── ch_initial.f90 │ │ ├── ch_pesticide_module.f90 │ │ ├── ch_rchinit.f90 │ │ ├── ch_rchuse.f90 │ │ ├── ch_read.f90 │ │ ├── ch_read_elements.f90 │ │ ├── ch_read_hyd.f90 │ │ ├── ch_read_init.f90 │ │ ├── ch_read_nut.f90 │ │ ├── ch_read_orders_cal.f90 │ │ ├── ch_read_parms_cal.f90 │ │ ├── ch_read_sed.f90 │ │ ├── ch_rtday.f90 │ │ ├── ch_rthsed.f90 │ │ ├── ch_rtmusk.f90 │ │ ├── ch_rtout.f90 │ │ ├── ch_rtpath.f90 │ │ ├── ch_rtpest.f90 │ │ ├── ch_rtsed.f90 │ │ ├── ch_rtsed_Molinas_Wu.f90 │ │ ├── ch_rtsed_bagnold.f90 │ │ ├── ch_rtsed_kodatie.f90 │ │ ├── ch_rtsed_yangsand.f90 │ │ ├── ch_ttcoef.f90 │ │ ├── ch_watqual3.f90 │ │ ├── ch_watqual4.f90 │ │ ├── ch_watqual_semi_analitical_function.f90 │ │ ├── cha_pesticide_output.f90 │ │ ├── chan-surf.lin │ │ ├── chan_surf.lin │ │ ├── chandeg.con │ │ ├── channel-lte.cha │ │ ├── channel.cha │ │ ├── channel_allo.f90 │ │ ├── channel_control.f90 │ │ ├── channel_data_module.f90 │ │ ├── channel_module.f90 │ │ ├── channel_output.f90 │ │ ├── channel_surf_link.f90 │ │ ├── channel_velocity_module.f90 │ │ ├── chem_app.ops │ │ ├── chg_par.f90 │ │ ├── cli_atmodep_time_control.f90 │ │ ├── cli_bounds_check.f90 │ │ ├── cli_clgen.f90 │ │ ├── cli_dstn1.f90 │ │ ├── cli_hmeas.f90 │ │ ├── cli_initwgn.f90 │ │ ├── cli_pgen.f90 │ │ ├── cli_pgenhr.f90 │ │ ├── cli_pmeas.f90 │ │ ├── cli_precip_control.f90 │ │ ├── cli_read_atmodep.f90 │ │ ├── cli_rhgen.f90 │ │ ├── cli_slrgen.f90 │ │ ├── cli_smeas.f90 │ │ ├── cli_staread.f90 │ │ ├── cli_tgen.f90 │ │ ├── cli_tmeas.f90 │ │ ├── cli_weatgn.f90 │ │ ├── cli_wgnread.f90 │ │ ├── cli_wmeas.f90 │ │ ├── cli_wndgen.f90 │ │ ├── climate_control.f90 │ │ ├── climate_module.f90 │ │ ├── cntable.lum │ │ ├── cntbl_read.f90 │ │ ├── codes.bsn │ │ ├── command.f90 │ │ ├── conditional_module.f90 │ │ ├── conditions.f90 │ │ ├── cons_prac_read.f90 │ │ ├── cons_practice.lum │ │ ├── constit_db_read.f90 │ │ ├── constit_hyd_mult.f90 │ │ ├── constituent_mass_module.f90 │ │ ├── curno.f90 │ │ ├── define_unit_elements.f90 │ │ ├── diagnostics.out │ │ ├── dr_db_read.f90 │ │ ├── dr_module.f90 │ │ ├── dr_read_hmet.f90 │ │ ├── dr_read_om.f90 │ │ ├── dr_read_path.f90 │ │ ├── dr_read_pest.f90 │ │ ├── dr_read_salt.f90 │ │ ├── dr_ru.f90 │ │ ├── dtbl_flocon_read.f90 │ │ ├── dtbl_lum_read.f90 │ │ ├── dtbl_res_read.f90 │ │ ├── dtbl_scen_read.f90 │ │ ├── ee.f90 │ │ ├── ero_cfactor.f90 │ │ ├── ero_eiusle.f90 │ │ ├── ero_ovrsed.f90 │ │ ├── ero_pkq.f90 │ │ ├── ero_ysed.f90 │ │ ├── et_act.f90 │ │ ├── et_pot.f90 │ │ ├── exco_db_read.f90 │ │ ├── exco_module.f90 │ │ ├── exco_read_hmet.f90 │ │ ├── exco_read_om.f90 │ │ ├── exco_read_path.f90 │ │ ├── exco_read_pest.f90 │ │ ├── exco_read_salt.f90 │ │ ├── expo.f90 │ │ ├── fcgd.f90 │ │ ├── fert_parm_read.f90 │ │ ├── fertilizer.frt │ │ ├── fertilizer_data_module.f90 │ │ ├── field.fld │ │ ├── field_read.f90 │ │ ├── file.cio │ │ ├── files_out.out │ │ ├── flo_con.dtl │ │ ├── flow_dur_curve.f90 │ │ ├── gcycl.f90 │ │ ├── graze.ops │ │ ├── harv.ops │ │ ├── header_aquifer.f90 │ │ ├── header_channel.f90 │ │ ├── header_hyd.f90 │ │ ├── header_mgt.f90 │ │ ├── header_path.f90 │ │ ├── header_pest.f90 │ │ ├── header_reservoir.f90 │ │ ├── header_sd_channel.f90 │ │ ├── header_snutc.f90 │ │ ├── header_wetland.f90 │ │ ├── header_write.f90 │ │ ├── header_yield.f90 │ │ ├── hmet_hru_aqu_read.f90 │ │ ├── hru-data.hru │ │ ├── hru.con │ │ ├── hru_allo.f90 │ │ ├── hru_control.f90 │ │ ├── hru_dtbl_actions_init.f90 │ │ ├── hru_hyds.f90 │ │ ├── hru_lte_control.f90 │ │ ├── hru_lte_module.f90 │ │ ├── hru_lte_output.f90 │ │ ├── hru_lte_read.f90 │ │ ├── hru_module.f90 │ │ ├── hru_output.f90 │ │ ├── hru_output_allo.f90 │ │ ├── hru_pathogen_output.f90 │ │ ├── hru_pesticide_output.f90 │ │ ├── hru_read.f90 │ │ ├── hru_sweep.f90 │ │ ├── hru_urb_bmp.f90 │ │ ├── hru_urban.f90 │ │ ├── hru_urbanhr.f90 │ │ ├── hrudb_init.f90 │ │ ├── hyd-sed-lte.cha │ │ ├── hyd_connect.f90 │ │ ├── hyd_connect_out.f90 │ │ ├── hyd_read_connect.f90 │ │ ├── hyddep_output.f90 │ │ ├── hydin_output.f90 │ │ ├── hydout_output.f90 │ │ ├── hydro_init.f90 │ │ ├── hydrograph_module.f90 │ │ ├── hydrol_read.f90 │ │ ├── hydrology.cha │ │ ├── hydrology.hyd │ │ ├── hydrology_data_module.f90 │ │ ├── initial.aqu │ │ ├── initial.cha │ │ ├── input_file_module.f90 │ │ ├── jdt.f90 │ │ ├── landuse.lum │ │ ├── landuse_data_module.f90 │ │ ├── landuse_read.f90 │ │ ├── layersplit.f90 │ │ ├── lcu_read_softcal.f90 │ │ ├── ls_link.f90 │ │ ├── ls_read_parms_cal.f90 │ │ ├── ls_unit.def │ │ ├── ls_unit.ele │ │ ├── lsu_output.f90 │ │ ├── lsu_read_elements.f90 │ │ ├── lum.dtl │ │ ├── main.f90 │ │ ├── management.sch │ │ ├── maximum_data_module.f90 │ │ ├── mgt_harvbiomass.f90 │ │ ├── mgt_harvgrain.f90 │ │ ├── mgt_harvtuber.f90 │ │ ├── mgt_killop.f90 │ │ ├── mgt_newtillmix.f90 │ │ ├── mgt_operations_module.f90 │ │ ├── mgt_operatn.f90 │ │ ├── mgt_read_chemapp.f90 │ │ ├── mgt_read_fireops.f90 │ │ ├── mgt_read_grazeops.f90 │ │ ├── mgt_read_harvops.f90 │ │ ├── mgt_read_irrops.f90 │ │ ├── mgt_read_mgtops.f90 │ │ ├── mgt_read_sweepops.f90 │ │ ├── mgt_sched.f90 │ │ ├── mgt_tillfactor.f90 │ │ ├── nut_denit.f90 │ │ ├── nut_nitvol.f90 │ │ ├── nut_nlch.f90 │ │ ├── nut_nminrl.f90 │ │ ├── nut_np_flow.f90 │ │ ├── nut_nrain.f90 │ │ ├── nut_orgn.f90 │ │ ├── nut_orgnc.f90 │ │ ├── nut_orgnc2.f90 │ │ ├── nut_pminrl.f90 │ │ ├── nut_pminrl2.f90 │ │ ├── nut_psed.f90 │ │ ├── nut_solp.f90 │ │ ├── nutbal.bsn │ │ ├── nutrients.cha │ │ ├── nutrients.sol │ │ ├── nuts.f90 │ │ ├── obj_output.f90 │ │ ├── object.cnt │ │ ├── object.prt │ │ ├── object_read_output.f90 │ │ ├── om_water.ini │ │ ├── om_water_init.f90 │ │ ├── organic_mineral_mass_module.f90 │ │ ├── output_landscape_init.f90 │ │ ├── output_landscape_module.f90 │ │ ├── output_ls_pathogen_module.f90 │ │ ├── output_ls_pesticide_module.f90 │ │ ├── output_ls_salt_module.f90 │ │ ├── overbank_read.f90 │ │ ├── overland_n_read.f90 │ │ ├── ovn_table.lum │ │ ├── parameters.bsn │ │ ├── path_cha_res_read.f90 │ │ ├── path_hru_aqu_read.f90 │ │ ├── path_ls_process.f90 │ │ ├── path_ls_runoff.f90 │ │ ├── path_ls_swrouting.f90 │ │ ├── path_parm_read.f90 │ │ ├── pathogen_data_module.f90 │ │ ├── pathogen_init.f90 │ │ ├── pathogens.pth │ │ ├── pcp.cli │ │ ├── pest_apply.f90 │ │ ├── pest_cha_res_read.f90 │ │ ├── pest_decay.f90 │ │ ├── pest_enrsb.f90 │ │ ├── pest_hru_aqu_read.f90 │ │ ├── pest_lch.f90 │ │ ├── pest_parm_read.f90 │ │ ├── pest_pesty.f90 │ │ ├── pest_soil_tot.f90 │ │ ├── pest_washp.f90 │ │ ├── pesticide.pst │ │ ├── pesticide_data_module.f90 │ │ ├── pesticide_init.f90 │ │ ├── pl_biomass_gro.f90 │ │ ├── pl_burnop.f90 │ │ ├── pl_community.f90 │ │ ├── pl_dormant.f90 │ │ ├── pl_fert.f90 │ │ ├── pl_graze.f90 │ │ ├── pl_grow.f90 │ │ ├── pl_leaf_gro.f90 │ │ ├── pl_leaf_senes.f90 │ │ ├── pl_moisture_gro_init.f90 │ │ ├── pl_moisture_senes_init.f90 │ │ ├── pl_mortality.f90 │ │ ├── pl_nfix.f90 │ │ ├── pl_nup.f90 │ │ ├── pl_nupd.f90 │ │ ├── pl_nut_demand.f90 │ │ ├── pl_partition.f90 │ │ ├── pl_pup.f90 │ │ ├── pl_pupd.f90 │ │ ├── pl_read_parms_cal.f90 │ │ ├── pl_read_regions_cal.f90 │ │ ├── pl_root_gro.f90 │ │ ├── pl_rootfr.f90 │ │ ├── pl_seed_gro.f90 │ │ ├── pl_tstr.f90 │ │ ├── pl_waterup.f90 │ │ ├── plant.ini │ │ ├── plant_all_init.f90 │ │ ├── plant_data_module.f90 │ │ ├── plant_init.f90 │ │ ├── plant_module.f90 │ │ ├── plant_parm_read.f90 │ │ ├── plantparm_init.f90 │ │ ├── plants.plt │ │ ├── plantwx.bsn │ │ ├── print.prt │ │ ├── proc_allo.f90 │ │ ├── proc_bsn.f90 │ │ ├── proc_cal.f90 │ │ ├── proc_cha.f90 │ │ ├── proc_cond.f90 │ │ ├── proc_date_time.f90 │ │ ├── proc_db.f90 │ │ ├── proc_hru.f90 │ │ ├── proc_open.f90 │ │ ├── proc_read.f90 │ │ ├── proc_res.f90 │ │ ├── qman.f90 │ │ ├── re_initialize.f90 │ │ ├── read_mgtops.f90 │ │ ├── readcio_read.f90 │ │ ├── readpcom.f90 │ │ ├── readtime_read.f90 │ │ ├── rec_read_elements.f90 │ │ ├── recall_module.f90 │ │ ├── recall_output.f90 │ │ ├── recall_read.f90 │ │ ├── regres.f90 │ │ ├── res_allo.f90 │ │ ├── res_control.f90 │ │ ├── res_hydro.f90 │ │ ├── res_initial.f90 │ │ ├── res_nutrient.f90 │ │ ├── res_objects.f90 │ │ ├── res_pest.f90 │ │ ├── res_pesticide_module.f90 │ │ ├── res_pesticide_output.f90 │ │ ├── res_read.f90 │ │ ├── res_read_elements.f90 │ │ ├── res_read_hyd.f90 │ │ ├── res_read_init.f90 │ │ ├── res_read_nut.f90 │ │ ├── res_read_sed.f90 │ │ ├── res_read_weir.f90 │ │ ├── res_rel.dtl │ │ ├── res_sediment.f90 │ │ ├── reservoir_data_module.f90 │ │ ├── reservoir_module.f90 │ │ ├── reservoir_output.f90 │ │ ├── rls_routesoil.f90 │ │ ├── rls_routesurf.f90 │ │ ├── rls_routetile.f90 │ │ ├── rout_unit.con │ │ ├── rout_unit.def │ │ ├── rout_unit.ele │ │ ├── rout_unit.rtu │ │ ├── rte_read_nut.f90 │ │ ├── ru_allo.f90 │ │ ├── ru_control.f90 │ │ ├── ru_module.f90 │ │ ├── ru_output.f90 │ │ ├── ru_read.f90 │ │ ├── ru_read_elements.f90 │ │ ├── salt_cha_res_read.f90 │ │ ├── salt_hru_aqu_read.f90 │ │ ├── salt_hru_init.f90 │ │ ├── scen_lu.dtl │ │ ├── scen_read_bmpuser.f90 │ │ ├── scen_read_filtstrip.f90 │ │ ├── scen_read_grwway.f90 │ │ ├── sd_chanmorph_output.f90 │ │ ├── sd_channel_control.f90 │ │ ├── sd_channel_module.f90 │ │ ├── sd_channel_output.f90 │ │ ├── sd_channel_read.f90 │ │ ├── sd_channel_surf_link.f90 │ │ ├── sd_hydsed_init.f90 │ │ ├── sd_hydsed_read.f90 │ │ ├── sdr_read.f90 │ │ ├── search.f90 │ │ ├── sediment.cha │ │ ├── sep_biozone.f90 │ │ ├── sep_read.f90 │ │ ├── septic.sep │ │ ├── septic.str │ │ ├── septic_data_module.f90 │ │ ├── septic_parm_read.f90 │ │ ├── sim_initday.f90 │ │ ├── sim_inityr.f90 │ │ ├── smp_bmpfixed.f90 │ │ ├── smp_buffer.f90 │ │ ├── smp_filter.f90 │ │ ├── smp_grass_wway.f90 │ │ ├── snow.sno │ │ ├── snowdb_read.f90 │ │ ├── soil_data_module.f90 │ │ ├── soil_db_read.f90 │ │ ├── soil_lte_db_read.f90 │ │ ├── soil_module.f90 │ │ ├── soil_nutcarb_init.f90 │ │ ├── soil_nutcarb_output.f90 │ │ ├── soil_nutcarb_write.f90 │ │ ├── soil_phys_init.f90 │ │ ├── soil_plant.ini │ │ ├── soil_plant_init.f90 │ │ ├── soils.sol │ │ ├── soils_init.f90 │ │ ├── soils_lte.sol │ │ ├── soiltest_all_init.f90 │ │ ├── soiltest_init.f90 │ │ ├── solt_db_read.f90 │ │ ├── sq_canopyint.f90 │ │ ├── sq_crackflow.f90 │ │ ├── sq_crackvol.f90 │ │ ├── sq_dailycn.f90 │ │ ├── sq_daycn.f90 │ │ ├── sq_greenampt.f90 │ │ ├── sq_snom.f90 │ │ ├── sq_surfst.f90 │ │ ├── sq_volq.f90 │ │ ├── stmp_solt.f90 │ │ ├── stor_surfstor.f90 │ │ ├── structure_set_parms.f90 │ │ ├── surface.f90 │ │ ├── sweep.ops │ │ ├── swr_depstor.f90 │ │ ├── swr_drains.f90 │ │ ├── swr_latsed.f90 │ │ ├── swr_origtile.f90 │ │ ├── swr_percmacro.f90 │ │ ├── swr_percmain.f90 │ │ ├── swr_percmicro.f90 │ │ ├── swr_satexcess.f90 │ │ ├── swr_substor.f90 │ │ ├── swr_subwq.f90 │ │ ├── temperature.cha │ │ ├── terrace.str │ │ ├── theta.f90 │ │ ├── tiles_data_module.f90 │ │ ├── till_parm_read.f90 │ │ ├── tillage.til │ │ ├── tillage_data_module.f90 │ │ ├── time.sim │ │ ├── time_conc_init.f90 │ │ ├── time_control.f90 │ │ ├── time_module.f90 │ │ ├── tmp.cli │ │ ├── topo_read.f90 │ │ ├── topography.hyd │ │ ├── topography_data_module.f90 │ │ ├── topohyd_init.f90 │ │ ├── ttcoef_wway.f90 │ │ ├── unit_hyd.f90 │ │ ├── urban.urb │ │ ├── urban_data_module.f90 │ │ ├── urban_parm_read.f90 │ │ ├── varinit.f90 │ │ ├── water_body_module.f90 │ │ ├── weather-sta.cli │ │ ├── weather-wgn.cli │ │ ├── wet_initial.f90 │ │ ├── wet_read.f90 │ │ ├── wet_read_hyd.f90 │ │ ├── wetland_control.f90 │ │ ├── wetland_output.f90 │ │ ├── xmon.f90 │ │ ├── zero0.f90 │ │ ├── zero1.f90 │ │ ├── zero2.f90 │ │ └── zeroini.f90 │ ├── pa_graph_examples │ ├── asce-graph.dot │ ├── master_variable_list.csv │ └── priestley-taylor-graph.dot │ ├── pet_files │ ├── NESTED_TEST.for │ ├── PETDYN.for │ ├── PETPEN.for │ └── PETPNO.for │ ├── save │ ├── arrays │ │ ├── arrays-basic-01.f │ │ ├── arrays-basic-06.f │ │ └── save-arrays.f │ ├── derived_types │ │ ├── derived_save.f │ │ └── derived_save.py │ ├── file_handles │ │ ├── INPUT-FILE.txt │ │ └── save-03.f │ └── simple_variables │ │ ├── save-01.f │ │ ├── save-02.f │ │ └── save-02.py │ ├── select_case │ ├── select01.f │ ├── select02.f │ ├── select02.py │ ├── select02_AIR.json │ ├── select02_GrFN.json │ ├── select02_lambdas_numpy.py │ ├── select03.f │ ├── select04.f │ ├── select05.f │ ├── select06.f │ ├── select07.f │ ├── select08.f │ └── select09.f │ ├── stop │ └── test_stop.f │ └── strings │ ├── Translation │ ├── str01.py │ ├── str02.py │ ├── str03.py │ ├── str04.py │ ├── str05.py │ ├── str06.py │ └── str07.py │ ├── str01.f │ ├── str02.f │ ├── str03.f │ ├── str04.f │ ├── str05.f │ ├── str06.f │ ├── str06.py │ ├── str07.f │ ├── str08.f │ ├── str09.f │ └── str10.f ├── equation_reading └── test_tex2py.py ├── model_analysis ├── test_id_algorithm.py ├── test_linking.py ├── test_sensitivity.py └── test_visualization.py ├── model_assembly ├── 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