source: src/Actions/pyMoleCuilder.cpp@ 55f299

Action_Thermostats Add_AtomRandomPerturbation Add_FitFragmentPartialChargesAction Add_RotateAroundBondAction Add_SelectAtomByNameAction Added_ParseSaveFragmentResults AddingActions_SaveParseParticleParameters Adding_Graph_to_ChangeBondActions Adding_MD_integration_tests Adding_ParticleName_to_Atom Adding_StructOpt_integration_tests AtomFragments Automaking_mpqc_open AutomationFragmentation_failures Candidate_v1.5.4 Candidate_v1.6.0 Candidate_v1.6.1 ChangeBugEmailaddress ChangingTestPorts ChemicalSpaceEvaluator CombiningParticlePotentialParsing Combining_Subpackages Debian_Package_split Debian_package_split_molecuildergui_only Disabling_MemDebug Docu_Python_wait EmpiricalPotential_contain_HomologyGraph EmpiricalPotential_contain_HomologyGraph_documentation Enable_parallel_make_install Enhance_userguide Enhanced_StructuralOptimization Enhanced_StructuralOptimization_continued Example_ManyWaysToTranslateAtom Exclude_Hydrogens_annealWithBondGraph FitPartialCharges_GlobalError Fix_BoundInBox_CenterInBox_MoleculeActions Fix_ChargeSampling_PBC Fix_ChronosMutex Fix_FitPartialCharges Fix_FitPotential_needs_atomicnumbers Fix_ForceAnnealing Fix_IndependentFragmentGrids Fix_ParseParticles Fix_ParseParticles_split_forward_backward_Actions Fix_PopActions Fix_QtFragmentList_sorted_selection Fix_Restrictedkeyset_FragmentMolecule Fix_StatusMsg Fix_StepWorldTime_single_argument Fix_Verbose_Codepatterns Fix_fitting_potentials Fixes ForceAnnealing_goodresults ForceAnnealing_oldresults ForceAnnealing_tocheck ForceAnnealing_with_BondGraph ForceAnnealing_with_BondGraph_continued ForceAnnealing_with_BondGraph_continued_betteresults ForceAnnealing_with_BondGraph_contraction-expansion FragmentAction_writes_AtomFragments FragmentMolecule_checks_bonddegrees GeometryObjects Gui_Fixes Gui_displays_atomic_force_velocity ImplicitCharges IndependentFragmentGrids IndependentFragmentGrids_IndividualZeroInstances IndependentFragmentGrids_IntegrationTest IndependentFragmentGrids_Sole_NN_Calculation JobMarket_RobustOnKillsSegFaults JobMarket_StableWorkerPool JobMarket_unresolvable_hostname_fix MoreRobust_FragmentAutomation ODR_violation_mpqc_open PartialCharges_OrthogonalSummation PdbParser_setsAtomName PythonUI_with_named_parameters QtGui_reactivate_TimeChanged_changes Recreated_GuiChecks Rewrite_FitPartialCharges RotateToPrincipalAxisSystem_UndoRedo SaturateAtoms_findBestMatching SaturateAtoms_singleDegree StoppableMakroAction Subpackage_CodePatterns Subpackage_JobMarket Subpackage_LinearAlgebra Subpackage_levmar Subpackage_mpqc_open Subpackage_vmg Switchable_LogView ThirdParty_MPQC_rebuilt_buildsystem TrajectoryDependenant_MaxOrder TremoloParser_IncreasedPrecision TremoloParser_MultipleTimesteps TremoloParser_setsAtomName Ubuntu_1604_changes stable
Last change on this file since 55f299 was 567357, checked in by Frederik Heber <heber@…>, 13 years ago

FIX: cleanUp() replaced by module_reinit() and .._exit() in pyMoleCuilder.

  • this causes ostream to be set with FormatParserStorage and hence files to be correctly written.
  • module_reinit() is python exported as "reinit". This allows for reuse of the module.
  • both module_... reside in namespace MoleCuilder::detail.
  • ..._reinit() does not use cleanUp() but only purgeStaticInstances().
  • Property mode set to 100644
File size: 2.5 KB
Line 
1/*
2 * Project: MoleCuilder
3 * Description: creates and alters molecular systems
4 * Copyright (C) 2010 University of Bonn. All rights reserved.
5 * Please see the LICENSE file or "Copyright notice" in builder.cpp for details.
6 */
7
8/*
9 * pyMoleCuilder.cpp
10 *
11 * Created on: Sep 21, 2011
12 * Author: heber
13 */
14
15// include config.h
16#ifdef HAVE_CONFIG_H
17#include <config.h>
18#endif
19
20#include <boost/python.hpp>
21#include <boost/python/module.hpp>
22#include <boost/python/args.hpp>
23
24#include "CodePatterns/MemDebug.hpp"
25
26//!> define all present actions
27#include "GlobalListOfActions.hpp"
28
29//!> python wrapping for all of these actions
30#include "AllActionPython.hpp"
31
32#include "cleanUp.hpp"
33#include "Actions/ActionHistory.hpp"
34#include "cleanUp.hpp"
35
36namespace MoleCuilder {
37
38namespace detail {
39
40void module_exit()
41{
42 // save everything
43 std::cout << "Saving." << std::endl;
44 saveAll();
45 // purge everything
46 std::cout << "Cleaning memory." << std::endl;
47 cleanUp();
48}
49
50void module_reinit()
51{
52 // save everything
53 std::cout << "Saving." << std::endl;
54 saveAll();
55 // purge everything
56 std::cout << "Cleaning static instances from memory." << std::endl;
57 purgeStaticInstances();
58 // need to init the history before any action is created
59 std::cout << "Reinitializing." << std::endl;
60 MoleCuilder::ActionHistory::init();
61}
62
63} /* namespace MoleCuilder */
64} /* namespace detail */
65
66BOOST_PYTHON_MODULE(pyMoleCuilder)
67{
68 // need to init the history before any action is created
69 MoleCuilder::ActionHistory::init();
70
71 // from this moment on, we need to be sure to deeinitialize in the correct order
72 // this is handled by the cleanup function
73 atexit(MoleCuilder::detail::module_exit);
74
75 // set the docstring of the current module scope
76 boost::python::scope().attr("__doc__") = "pyMolecuilder are the python bindings to all Actions of the program suite MoleCuilder.\n\nMoleCuilder is a program to build molecular (dynamics) worlds, allowing you indefinite manipulation, control and analysis over the atoms and molecules within a simulation domain.";
77
78 boost::python::def("reinit", MoleCuilder::detail::module_reinit, "Reinitializes the internal state of the python module as if it had been freshly imported, saves all input files beforehand.");
79#define export_print(z,n,list) \
80 BOOST_PP_CAT(export_, BOOST_PP_SEQ_ELEM(n, list))();
81#define BOOST_PP_LOCAL_MACRO(n) export_print(~, n, GLOBALLISTOFACTIONS)
82#define BOOST_PP_LOCAL_LIMITS (0, BOOST_PP_DEC(BOOST_PP_SEQ_SIZE(GLOBALLISTOFACTIONS)))
83#include BOOST_PP_LOCAL_ITERATE()
84#undef instance_print
85}
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