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dgelessus authored
GitLab (or at least this installation) doesn't have a way of uploading release binaries like GitHub does, so I'm committing the release jar into the repo (using Git LFS).
dgelessus authoredGitLab (or at least this installation) doesn't have a way of uploading release binaries like GitHub does, so I'm committing the release jar into the repo (using Git LFS).
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sybilSBML.h 3.71 KiB
/* sybilSBML.h
Link to libSBML for sybil.
Copyright (C) 2010-2013 Gabriel Gelius-Dietrich, Dpt. for Bioinformatics,
Institute for Informatics, Heinrich-Heine-University, Duesseldorf, Germany.
All right reserved.
Email: geliudie@uni-duesseldorf.de
This file is part of sybilSBML.
SybilSBML is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
SybilSBML is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with sybilSBML. If not, see <http://www.gnu.org/licenses/>.
*/
#include "sbml.h"
/* -------------------------------------------------------------------------- */
/* help functions */
/* -------------------------------------------------------------------------- */
/* check for pointer to sbml document */
SEXP isSBMLdocptr(SEXP ptr);
/* check for pointer to sbml model */
SEXP isSBMLmodptr(SEXP ptr);
/* check for NULL pointer */
SEXP isNULLptr(SEXP ptr);
/* -------------------------------------------------------------------------- */
/* API functions */
/* -------------------------------------------------------------------------- */
/* get libsbml version number (dotted version) */
SEXP getLibSBMLversion();
/* initialize sybilSBML */
SEXP initSBML(void);
/* remove sbml document pointer */
SEXP delDocument(SEXP sbmldoc);
/* remove model pointer */
SEXP delModel(SEXP sbmlmodel);
/* read SBML file */
SEXP readSBMLfile(SEXP fname, SEXP ptrtype);
/* get sbml document level */
SEXP getSBMLlevel(SEXP sbmldoc);
/* get sbml document version */
SEXP getSBMLversion(SEXP sbmldoc);
/* get sbml document FBC version */
SEXP getSBMLFbcversion(SEXP sbmldoc);
/* validate SBML document */
SEXP validateDocument(SEXP sbmldoc);
/* get SBML errors */
SEXP getSBMLerrors(SEXP sbmldoc);
/* get sbml model from sbml document */
SEXP getSBMLmodel(SEXP sbmldoc, SEXP ptrtype);
/* get model id */
SEXP getSBMLmodId(SEXP sbmlmod);
/* get model name */
SEXP getSBMLmodName(SEXP sbmlmod);
/* get model notes */
SEXP getSBMLmodNotes(SEXP sbmlmod);
/* get model annotation */
SEXP getSBMLmodAnnotation(SEXP sbmlmod);
/* get number of compartments */
SEXP getSBMLnumCompart(SEXP sbmlmod);
/* get number of species (metabolites) */
SEXP getSBMLnumSpecies(SEXP sbmlmod);
/* get number of reactions */
SEXP getSBMLnumReactions(SEXP sbmlmod);
/* get list of unit definitions */
SEXP getSBMLunitDefinitionsList(SEXP sbmlmod);
/* get list of compartments */
SEXP getSBMLCompartList(SEXP sbmlmod);
/* get list of species (metabolites) */
SEXP getSBMLSpeciesList(SEXP sbmlmod);
/* get list of reactions */
SEXP getSBMLReactionsList(SEXP sbmlmod);
/* export Modelorg to SBML*/
SEXP exportSBML (SEXP version, SEXP level,SEXP FbcLevel, SEXP filename,SEXP sybil_max, SEXP mod_desc, SEXP mod_name, SEXP mod_compart, SEXP met_id, SEXP met_name, SEXP met_comp, SEXP met_form,SEXP met_charge, SEXP react_id, SEXP react_name, SEXP react_rev, SEXP lowbnd, SEXP uppbnd, SEXP obj_coef, SEXP subSys, SEXP gpr, SEXP SMatrix, SEXP mod_notes, SEXP mod_anno, SEXP com_notes , SEXP com_anno, SEXP met_notes, SEXP met_anno, SEXP met_bnd , SEXP react_notes, SEXP react_anno, SEXP ex_react, SEXP allgenes);