savstate.cpp

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#include <../../nrnconf.h>
#undef check
#include <InterViews/resource.h>
#include <stdio.h>
#include <inttypes.h>
#include "ocfile.h"
#include "nrnoc2iv.h"
#include "classreg.h"
#include "ndatclas.h"
#include "nrniv_mf.h"
 
#include "tqueue.h"
#include "netcon.h"
#include "vrecitem.h"
 
typedef void (*ReceiveFunc)(Point_process*, double*, double);
 
#include "membfunc.h"
extern int section_count;
extern "C" void nrn_shape_update();
extern Section** secorder;
extern ReceiveFunc* pnt_receive;
extern NetCvode* net_cvode_instance;
extern TQueue* net_cvode_instance_event_queue(NrnThread*);
extern "C" void clear_event_queue();
extern hoc_Item* net_cvode_instance_psl();
extern PlayRecList* net_cvode_instance_prl();
extern double t;
extern short* nrn_is_artificial_;
static void tqcallback(const TQItem* tq, int i);
void (*nrnpy_restore_savestate)(int64_t, char*) = NULL;
void (*nrnpy_store_savestate)(char** save_data, uint64_t* save_data_size) = NULL;
 
#define ASSERTfgets(a, b, c)     nrn_assert(fgets(a, b, c) != 0)
#define ASSERTfread(a, b, c, d)  nrn_assert(fread(a, b, c, d) == c)
#define ASSERTfwrite(a, b, c, d) nrn_assert(fwrite(a, b, c, d) == c)
 
class SaveState: public Resource {
  public:
    SaveState();
    ~SaveState();
    virtual void save();
    virtual void restore(int type);
    virtual void read(OcFile*, bool close);
    virtual void write(OcFile*, bool close);
    struct NodeState {
        double v;
        int nmemb;
        int* type;
        int nstate;
        double* state;
    };
    struct SecState {
        Section* sec;
        int nnode;
        struct NodeState* ns;
        struct NodeState* root;  // non-zero for rootnode
    };
    struct StateStructInfo {
        int offset;
        int size;
    };
    struct ACellState {
        int type;
        int ncell;
        double* state;
    };
    struct NetConState {
        int object_index;  // for checking
        int nstate;
        double* state;
    };
    struct PreSynState {
        bool flag;  // is it firing?
        double valthresh, valold, told;
    };
    struct TQState {
        int nstate;
        double* tdeliver;
        DiscreteEvent** items;
    };
 
  private:
    bool check(bool warn);
    void alloc();
    void ssfree();
    void ssi_def();
 
  private:
    void fread_NodeState(NodeState*, int, FILE*);
    void fwrite_NodeState(NodeState*, int, FILE*);
    void fread_SecState(SecState*, int, FILE*);
    void fwrite_SecState(SecState*, int, FILE*);
 
  private:
    double t_;
    int nroot_;
    int nsec_;
    SecState* ss_;
    int nacell_;  // number of types
    ACellState* acell_;
    int nncs_;
    NetConState* ncs_;
    int npss_;
    PreSynState* pss_;
    TQState* tqs_;
    int tqcnt_;  // volatile for index of forall_callback
    int nprs_;
    PlayRecordSave** prs_;
    StateStructInfo* ssi;
    cTemplate* nct;
    char* plugin_data_;
    uint64_t plugin_size_;
 
  private:
    void savenode(NodeState&, Node*);
    void restorenode(NodeState&, Node*);
    bool checknode(NodeState&, Node*, bool);
    void allocnode(NodeState&, Node*);
 
    void saveacell(ACellState&, int type);
    void restoreacell(ACellState&, int type);
    bool checkacell(ACellState&, int type, bool);
    void allocacell(ACellState&, int type);
 
    void savenet();
    void restorenet();
    void readnet(FILE*);
    void writenet(FILE*);
    bool checknet(bool);
    void allocnet();
    void free_tq();
    void alloc_tq();
 
  public:
    void tqcount(const TQItem*, int);
    void tqsave(const TQItem*, int);
};
 
static SaveState* this_savestate;
static int callback_mode;
 
void tqcallback(const TQItem* tq, int i) {
    if (callback_mode == 0) {
        this_savestate->tqcount(tq, i);
    } else {
        this_savestate->tqsave(tq, i);
    }
}
 
SaveState::SaveState() {
    int i, j;
    nct = NULL;
    ssi_def();
    nroot_ = 0;
    ss_ = NULL;
    nsec_ = 0;
    nncs_ = 0;
    ncs_ = NULL;
    npss_ = 0;
    pss_ = NULL;
    tqs_ = new TQState();
    tqs_->nstate = 0;
    nprs_ = 0;
    prs_ = NULL;
    nacell_ = 0;
    plugin_data_ = NULL;
    plugin_size_ = 0;
    for (i = 0; i < n_memb_func; ++i)
        if (nrn_is_artificial_[i]) {
            ++nacell_;
        }
    acell_ = new ACellState[nacell_];
    for (i = 0; i < nacell_; ++i) {
        acell_[i].ncell = 0;
        acell_[i].state = 0;
    }
    for (i = 0, j = 0; i < n_memb_func; ++i)
        if (nrn_is_artificial_[i]) {
            acell_[j].type = i;
            ++j;
        }
}
 
SaveState::~SaveState() {
    ssfree();
    delete tqs_;
    delete[] acell_;
    delete[] ssi;
}
 
void SaveState::fread_NodeState(NodeState* ns, int cnt, FILE* f) {
    for (int i = 0; i < cnt; ++i) {
        ASSERTfread(&ns[i].v, sizeof(double), 1, f);
        ASSERTfread(&ns[i].nmemb, sizeof(int), 1, f);
        ASSERTfread(&ns[i].nstate, sizeof(int), 1, f);
    }
}
void SaveState::fwrite_NodeState(NodeState* ns, int cnt, FILE* f) {
    for (int i = 0; i < cnt; ++i) {
        ASSERTfwrite(&ns[i].v, sizeof(double), 1, f);
        ASSERTfwrite(&ns[i].nmemb, sizeof(int), 1, f);
        ASSERTfwrite(&ns[i].nstate, sizeof(int), 1, f);
    }
}
void SaveState::fread_SecState(SecState* ss, int cnt, FILE* f) {
    int b;
    for (int i = 0; i < cnt; ++i) {
        ASSERTfread(&ss[i].nnode, sizeof(int), 1, f);
        ASSERTfread(&b, sizeof(int), 1, f);
        if (b) {
            ss[i].root = new NodeState;
        } else {
            ss[i].root = 0;
        }
    }
}
void SaveState::fwrite_SecState(SecState* ss, int cnt, FILE* f) {
    int b;
    for (int i = 0; i < cnt; ++i) {
        ASSERTfwrite(&ss[i].nnode, sizeof(int), 1, f);
        b = ss[i].root ? 1 : 0;
        ASSERTfwrite(&b, sizeof(int), 1, f);
    }
}
 
void SaveState::ssi_def() {
    if (nct) {
        return;
    }
    Symbol* s = hoc_lookup("NetCon");
    nct = s->u.ctemplate;
    ssi = new StateStructInfo[n_memb_func];
    int sav = v_structure_change;
    for (int im = 0; im < n_memb_func; ++im) {
        ssi[im].offset = -1;
        ssi[im].size = 0;
        if (!memb_func[im].sym) {
            continue;
        }
        NrnProperty* np = new NrnProperty(memb_func[im].sym->name);
        // generally we only save STATE variables. However for
        // models containing a NET_RECEIVE block, we also need to
        // save everything except the parameters
        // because they often contain
        // logic and analytic state values. Unfortunately, it is often
        // the case that the ASSIGNED variables are not declared as
        // RANGE variables so to avoid missing state, save the whole
        // param array including PARAMETERs.
        if (pnt_receive[im]) {
            ssi[im].offset = 0;
            ssi[im].size = np->prop()->param_size;
        } else {
            int type = STATE;
            for (Symbol* sym = np->first_var(); np->more_var(); sym = np->next_var()) {
                if (np->var_type(sym) == type || np->var_type(sym) == STATE ||
                    sym->subtype == _AMBIGUOUS) {
                    if (ssi[im].offset < 0) {
                        ssi[im].offset = np->prop_index(sym);
                    }
                    ssi[im].size += hoc_total_array_data(sym, 0);
                }
            }
        }
        delete np;
    }
    // Following set to 1 when NrnProperty constructor calls prop_alloc.
    // so change back to original value.
    v_structure_change = sav;
}
 
bool SaveState::check(bool warn) {
    hoc_Item* qsec;
    int isec;
    if (nsec_ != section_count) {
        if (warn) {
            fprintf(stderr,
                    "SaveState warning: %d sections exist but saved %d\n",
                    section_count,
                    nsec_);
        }
        return false;
    }
    if (nroot_ != nrn_global_ncell) {
        if (warn) {
            fprintf(stderr,
                    "SaveState warning: %d cells exist but saved %d\n",
                    nrn_global_ncell,
                    nroot_);
        }
        return false;
    }
    if (nsec_ && ss_[0].sec == NULL) {  // got the data from a read
        isec = 0;
        // ForAllSections(sec)
        ITERATE(qsec, section_list) {
            Section* sec = hocSEC(qsec);
            ss_[isec].sec = sec;
            section_ref(ss_[isec].sec);
            ++isec;
        }
    }
    for (int i = 0, j = 0; i < n_memb_func; ++i)
        if (nrn_is_artificial_[i]) {
            if (!checkacell(acell_[j], i, warn)) {
                return false;
            }
            ++j;
        }
    for (int isec = 0; isec < nsec_; ++isec) {
        SecState& ss = ss_[isec];
        Section* sec = ss.sec;
        if (!sec->prop || sec->nnode != ss.nnode) {
            if (warn) {
                if (!sec->prop) {
                    fprintf(stderr, "SaveState warning: saved section no longer exists\n");
                } else {
                    fprintf(stderr,
                            "SaveState warning: %s has %d nodes but saved %d\n",
                            secname(sec),
                            sec->nnode,
                            ss.nnode);
                }
            }
            return false;
        }
        for (int inode = 0; inode < ss.nnode; ++inode) {
            NodeState& ns = ss.ns[inode];
            Node* nd = sec->pnode[inode];
            int i = 0;
            Prop* p;
            for (p = nd->prop; p; p = p->next) {
                if (ssi[p->type].size == 0) {
                    continue;
                }
                if (i >= ns.nmemb) {
                    if (warn) {
                        fprintf(stderr,
                                "SaveState warning: \
fewer mechanisms saved than exist at node %d of %s\n",
                                inode,
                                secname(sec));
                    }
                    return false;
                }
                if (p->type != ns.type[i]) {
                    if (warn) {
                        fprintf(stderr,
                                "SaveState warning: mechanisms out of order at node %d of %s\n\
saved %s but need %s\n",
                                inode,
                                secname(sec),
                                memb_func[i].sym->name,
                                memb_func[p->type].sym->name);
                    }
                    return false;
                }
                ++i;
            }
            if (i != ns.nmemb) {
                if (warn) {
                    fprintf(
                        stderr,
                        "SaveState warning: more mechanisms saved than exist at node %d of %s\n",
                        inode,
                        secname(sec));
                }
                return false;
            }
        }
        if (!sec->parentsec || ss.root) {
            if (sec->parentsec || !ss.root) {
                if (warn) {
                    fprintf(stderr,
                            "SaveState warning: Saved section and %s are not both root sections.\n",
                            secname(sec));
                }
            }
            if (!checknode(*ss.root, sec->parentnode, warn)) {
                return false;
            }
        }
    }
    if (!checknet(warn)) {
        return false;
    }
    return true;
}
 
bool SaveState::checknode(NodeState& ns, Node* nd, bool warn) {
    int i = 0;
    Prop* p;
    for (p = nd->prop; p; p = p->next) {
        if (ssi[p->type].size == 0) {
            continue;
        }
        if (i >= ns.nmemb) {
            if (warn) {
                fprintf(stderr,
                        "SaveState warning: \
fewer mechanisms saved than exist at a root node\n");
            }
            return false;
        }
        if (p->type != ns.type[i]) {
            if (warn) {
                fprintf(stderr,
                        "SaveState warning: mechanisms out of order at a rootnode\n\
saved %s but need %s\n",
                        memb_func[i].sym->name,
                        memb_func[p->type].sym->name);
            }
            return false;
        }
        ++i;
    }
    if (i != ns.nmemb) {
        if (warn) {
            fprintf(stderr, "SaveState warning: more mechanisms saved than exist at a rootnode\n");
        }
        return false;
    }
    return true;
}
 
bool SaveState::checkacell(ACellState& ac, int type, bool warn) {
    if (memb_list[type].nodecount != ac.ncell) {
        if (warn) {
            fprintf(stderr,
                    "SaveState warning: different number of %s saved than exist.\n",
                    memb_func[type].sym->name);
        }
        return false;
    }
    return true;
}
 
void SaveState::alloc() {
    ssfree();
    int inode, isec;
    hoc_Item* qsec;
    nsec_ = section_count;
    if (nsec_) {
        ss_ = new SecState[nsec_];
    }
    nroot_ = 0;
    isec = 0;
    // ForAllSections(sec)
    ITERATE(qsec, section_list) {
        Section* sec = hocSEC(qsec);
        SecState& ss = ss_[isec];
        ss.sec = sec;
        section_ref(ss.sec);
        ss.nnode = ss.sec->nnode;
        ss.ns = new NodeState[ss.nnode];
        for (inode = 0; inode < ss.nnode; ++inode) {
            Node* nd = ss.sec->pnode[inode];
            NodeState& ns = ss.ns[inode];
            allocnode(ns, nd);
        }
        if (!sec->parentsec) {
            assert(sec->parentnode);
            ss.root = new NodeState;
            allocnode(*ss.root, sec->parentnode);
            ++nroot_;
        } else {
            ss.root = 0;
        }
        ++isec;
    }
    assert(isec == section_count);
    assert(nroot_ == nrn_global_ncell);
    for (int i = 0, j = 0; i < n_memb_func; ++i)
        if (nrn_is_artificial_[i]) {
            allocacell(acell_[j], i);
            ++j;
        }
    PlayRecList* prl = net_cvode_instance_prl();
    nprs_ = prl->count();
    if (nprs_) {
        prs_ = new PlayRecordSave*[nprs_];
    }
    allocnet();
}
 
void SaveState::allocnode(NodeState& ns, Node* nd) {
    ns.nmemb = 0;
    ns.type = NULL;
    ns.state = NULL;
    ns.nstate = 0;
    Prop* p;
    for (p = nd->prop; p; p = p->next) {
        if (ssi[p->type].size == 0) {
            continue;
        }
        ++ns.nmemb;
        ns.nstate += ssi[p->type].size;
    }
    if (ns.nmemb) {
        ns.type = new int[ns.nmemb];
    }
    if (ns.nstate) {
        ns.state = new double[ns.nstate];
    }
    int i = 0;
    for (p = nd->prop; p; p = p->next) {
        if (ssi[p->type].size == 0) {
            continue;
        }
        ns.type[i] = p->type;
        ++i;
    }
}
 
void SaveState::allocacell(ACellState& ac, int type) {
    Memb_list& ml = memb_list[type];
    ac.type = type;
    ac.ncell = ml.nodecount;
    if (ac.ncell) {
        ac.state = new double[ac.ncell * ssi[type].size];
    }
}
 
void SaveState::ssfree() {
    int i, isec, inode;
    for (isec = 0; isec < nsec_; ++isec) {
        SecState& ss = ss_[isec];
        for (inode = 0; inode < ss.nnode; ++inode) {
            NodeState& ns = ss.ns[inode];
            if (ns.nmemb) {
                delete[] ns.type;
            }
            if (ns.nstate) {
                delete[] ns.state;
            }
        }
        if (ss.root) {
            NodeState& ns = *ss.root;
            if (ns.nmemb) {
                delete[] ns.type;
            }
            if (ns.nstate) {
                delete[] ns.state;
            }
            delete ss.root;
        }
        if (ss.nnode) {
            delete[] ss.ns;
        }
        if (ss.sec) {  // got info from an fread but never checked it
            section_unref(ss.sec);
        }
    }
    if (nsec_) {
        delete[] ss_;
    }
    nsec_ = 0;
    ss_ = NULL;
    for (i = 0; i < nacell_; ++i) {
        if (acell_[i].ncell) {
            delete[] acell_[i].state;
            acell_[i].state = 0;
            acell_[i].ncell = 0;
        }
    }  // note we do not destroy the acell_.
    if (nncs_) {
        for (i = 0; i < nncs_; ++i) {
            if (ncs_[i].nstate) {
                delete[] ncs_[i].state;
            }
        }
        delete[] ncs_;
    }
    nncs_ = 0;
    ncs_ = NULL;
    if (npss_) {
        delete[] pss_;
    }
    npss_ = 0;
    pss_ = NULL;
    free_tq();
    if (nprs_) {
        for (i = 0; i < nprs_; ++i) {
            delete prs_[i];
        }
        delete[] prs_;
    }
    nprs_ = 0;
    if (plugin_data_) {
        delete[] plugin_data_;
        plugin_data_ = NULL;
        plugin_size_ = 0;
    }
}
 
void SaveState::save() {
    NrnThread* nt;
    if (!check(false)) {
        alloc();
    }
    FOR_THREADS(nt) {
        assert(t == nt->_t);
    }
    t_ = t;
    int inode;
    for (int isec = 0; isec < nsec_; ++isec) {
        SecState& ss = ss_[isec];
        Section* sec = ss.sec;
        for (inode = 0; inode < ss.nnode; ++inode) {
            NodeState& ns = ss.ns[inode];
            Node* nd = sec->pnode[inode];
            savenode(ns, nd);
        }
        if (ss.root) {
            NodeState& ns = *ss.root;
            Node* nd = sec->parentnode;
            savenode(ns, nd);
        }
    }
    for (int i = 0, j = 0; i < n_memb_func; ++i)
        if (nrn_is_artificial_[i]) {
            saveacell(acell_[j], i);
            ++j;
        }
    if (nprs_) {
        PlayRecList* prl = net_cvode_instance_prl();
        int i;
        assert(nprs_ == prl->count());
        for (i = 0; i < nprs_; ++i) {
            prs_[i] = prl->item(i)->savestate_save();
        }
    }
    savenet();
    if (nrnpy_store_savestate) {
        nrnpy_store_savestate(&plugin_data_, &plugin_size_);
    } else {
        plugin_size_ = 0;
        plugin_data_ = NULL;
    }
}
 
void SaveState::savenode(NodeState& ns, Node* nd) {
    ns.v = NODEV(nd);
    int istate = 0;
    Prop* p;
    for (p = nd->prop; p; p = p->next) {
        if (ssi[p->type].size == 0) {
            continue;
        }
        int type = p->type;
        int max = ssi[type].offset + ssi[type].size;
#if EXTRACELLULAR
        if (type == EXTRACELL) {
            for (int i = 0; i < nlayer; ++i) {
                ns.state[istate++] = nd->extnode->v[i];
            }
        } else
#endif
        {
            for (int ip = ssi[type].offset; ip < max; ++ip) {
                ns.state[istate++] = p->param[ip];
            }
        }
    }
}
 
void SaveState::saveacell(ACellState& ac, int type) {
    Memb_list& ml = memb_list[type];
    int sz = ssi[type].size;
    double* p = ac.state;
    for (int i = 0; i < ml.nodecount; ++i) {
        double* d = ml.data[i];
        for (int j = 0; j < sz; ++j) {
            (*p++) = d[j];
        }
    }
}
 
void SaveState::restore(int type) {
    NrnThread* nt;
    if (!check(true)) {
        hoc_execerror("SaveState:", "Stored state inconsistent with current neuron structure");
    }
    t = t_;
    FOR_THREADS(nt) {
        nt->_t = t_;
    }
    int inode;
    for (int isec = 0; isec < nsec_; ++isec) {
        SecState& ss = ss_[isec];
        Section* sec = ss.sec;
        for (inode = 0; inode < ss.nnode; ++inode) {
            NodeState& ns = ss.ns[inode];
            Node* nd = sec->pnode[inode];
            restorenode(ns, nd);
        }
        if (ss.root) {
            NodeState& ns = *ss.root;
            Node* nd = sec->parentnode;
            restorenode(ns, nd);
        }
    }
    for (int i = 0, j = 0; i < n_memb_func; ++i)
        if (nrn_is_artificial_[i]) {
            restoreacell(acell_[j], i);
            ++j;
        }
    if (type == 1) {
        return;
    }
    PlayRecList* prl = net_cvode_instance_prl();
    // during a local step the PlayRecList is augmented with GLineRecord
    // assert(nprs_ == prl->count());
    assert(nprs_ <= prl->count());
    int i;
    for (i = 0; i < nprs_; ++i) {
        prs_[i]->savestate_restore();
    }
    restorenet();
    if (plugin_size_) {
        if (!nrnpy_restore_savestate) {
            hoc_execerror("SaveState:", "This state requires Python to unpack.");
        }
        nrnpy_restore_savestate(plugin_size_, plugin_data_);
    }
}
 
void SaveState::restorenode(NodeState& ns, Node* nd) {
    NODEV(nd) = ns.v;
    ;
    int istate = 0;
    Prop* p;
    for (p = nd->prop; p; p = p->next) {
        if (ssi[p->type].size == 0) {
            continue;
        }
        int type = p->type;
        int max = ssi[type].offset + ssi[type].size;
#if EXTRACELLULAR
        if (type == EXTRACELL) {
            for (int i = 0; i < nlayer; ++i) {
                nd->extnode->v[i] = ns.state[istate++];
            }
        } else
#endif
        {
            for (int ip = ssi[type].offset; ip < max; ++ip) {
                p->param[ip] = ns.state[istate++];
            }
        }
    }
}
 
void SaveState::restoreacell(ACellState& ac, int type) {
    Memb_list& ml = memb_list[type];
    int sz = ssi[type].size;
    double* p = ac.state;
    for (int i = 0; i < ml.nodecount; ++i) {
        double* d = ml.data[i];
        for (int j = 0; j < sz; ++j) {
            d[j] = (*p++);
        }
    }
}
 
void SaveState::read(OcFile* ocf, bool close) {
    int version = 6;
    if (!ocf->open(ocf->get_name(), "r")) {
        hoc_execerror("Couldn't open file for reading:", ocf->get_name());
    }
    nrn_shape_update();
    BinaryMode(ocf) FILE* f = ocf->file();
    ssfree();
    char buf[200];
    ASSERTfgets(buf, 200, f);
    if (strcmp(buf, "SaveState binary file version 6.0\n") != 0) {
        if (strcmp(buf, "SaveState binary file version 7.0\n") == 0) {
            version = 7;
        } else {
            ocf->close();
            hoc_execerror("Bad SaveState binary file", " Neither version 6.0 or 7.0");
        }
    }
    ASSERTfread(&t_, sizeof(double), 1, f);
    //  fscanf(f, "%d %d\n", &nsec_, &nrootnode_);
    // on some os's fscanf leaves file pointer at wrong place for next fread
    //  can check it with ftell(f)
    ASSERTfgets(buf, 200, f);
    sscanf(buf, "%d %d\n", &nsec_, &nroot_);
    // to enable comparison of SaveState files, we avoid
    // putting pointers in the files and instead explicitly read/write
    // structure elements.
    if (nsec_) {
        ss_ = new SecState[nsec_];
        fread_SecState(ss_, nsec_, f);
    }
    for (int isec = 0; isec < nsec_; ++isec) {
        SecState& ss = ss_[isec];
        ss.sec = NULL;
        ss.ns = new NodeState[ss.nnode];
        fread_NodeState(ss.ns, ss.nnode, f);
        for (int inode = 0; inode < ss.nnode; ++inode) {
            NodeState& ns = ss.ns[inode];
            if (ns.nmemb) {
                ns.type = new int[ns.nmemb];
                ASSERTfread(ns.type, sizeof(int), ns.nmemb, f);
            }
            if (ns.nstate) {
                ns.state = new double[ns.nstate];
                ASSERTfread(ns.state, sizeof(double), ns.nstate, f);
            }
        }
        if (ss.root) {
            fread_NodeState(ss.root, 1, f);
            NodeState& ns = *ss.root;
            if (ns.nmemb) {
                ns.type = new int[ns.nmemb];
                ASSERTfread(ns.type, sizeof(int), ns.nmemb, f);
            }
            if (ns.nstate) {
                ns.state = new double[ns.nstate];
                ASSERTfread(ns.state, sizeof(double), ns.nstate, f);
            }
        }
    }
    int n = 0;
    ASSERTfgets(buf, 20, f);
    sscanf(buf, "%d\n", &n);
    assert(n == nacell_);
    for (int i = 0, j = 0; i < n_memb_func; ++i)
        if (nrn_is_artificial_[i]) {
            int nt = 0, nc = 0, ns = 0;
            ASSERTfgets(buf, 200, f);
            nrn_assert(sscanf(buf, "%d %d %d\n", &nt, &nc, &ns) == 3);
            assert(nt == i && nc == memb_list[i].nodecount);
            assert(ns == nc * ssi[i].size);
            acell_[j].ncell = nc;
            if (nc) {
                acell_[j].state = new double[ns];
                ASSERTfread(acell_[j].state, sizeof(double), ns, f);
            }
            ++j;
        }
    ASSERTfgets(buf, 20, f);
    sscanf(buf, "%d\n", &nprs_);
    if (nprs_) {
        prs_ = new PlayRecordSave*[nprs_];
        for (int i = 0; i < nprs_; ++i) {
            prs_[i] = PlayRecord::savestate_read(f);
        }
    }
    readnet(f);
    // any old plugin information is no longer relevant regardless of what version
    if (plugin_data_) {
        delete[] plugin_data_;
        plugin_data_ = NULL;
    }
    plugin_size_ = 0;
    // if version 7, load new plugin data
    if (version == 7) {
        ASSERTfread(&plugin_size_, sizeof(int64_t), 1, f);
        try {
            plugin_data_ = new char[plugin_size_];
        } catch (const std::bad_alloc& e) {
            ocf->close();
            hoc_execerror("SaveState:", "Failed to allocate memory.");
        }
        if (plugin_data_ == NULL) {
            ocf->close();
            hoc_execerror("SaveState:", "Failed to allocate memory.");
        }
        ASSERTfread(plugin_data_, sizeof(char), plugin_size_, f);
    }
    if (close) {
        ocf->close();
    }
}
 
void SaveState::write(OcFile* ocf, bool close) {
    if (!ocf->open(ocf->get_name(), "w")) {
        hoc_execerror("Couldn't open file for writing:", ocf->get_name());
    }
    BinaryMode(ocf) FILE* f = ocf->file();
    int version = plugin_size_ ? 7 : 6;
    fprintf(f, "SaveState binary file version %d.0\n", version);
    ASSERTfwrite(&t_, sizeof(double), 1, f);
    fprintf(f, "%d %d\n", nsec_, nroot_);
    fwrite_SecState(ss_, nsec_, f);
    for (int isec = 0; isec < nsec_; ++isec) {
        SecState& ss = ss_[isec];
        fwrite_NodeState(ss.ns, ss.nnode, f);
        for (int inode = 0; inode < ss.nnode; ++inode) {
            NodeState& ns = ss.ns[inode];
            if (ns.nmemb) {
                ASSERTfwrite(ns.type, sizeof(int), ns.nmemb, f);
            }
            if (ns.nstate) {
                ASSERTfwrite(ns.state, sizeof(double), ns.nstate, f);
            }
        }
        if (ss.root) {
            fwrite_NodeState(ss.root, 1, f);
            NodeState& ns = *ss.root;
            if (ns.nmemb) {
                ASSERTfwrite(ns.type, sizeof(int), ns.nmemb, f);
            }
            if (ns.nstate) {
                ASSERTfwrite(ns.state, sizeof(double), ns.nstate, f);
            }
        }
    }
    fprintf(f, "%d\n", nacell_);
    for (int i = 0, j = 0; i < n_memb_func; ++i)
        if (nrn_is_artificial_[i]) {
            int sz = acell_[j].ncell * ssi[i].size;
            fprintf(f, "%d %d %d\n", acell_[j].type, acell_[j].ncell, sz);
            ASSERTfwrite(acell_[j].state, sizeof(double), sz, f);
            ++j;
        }
    fprintf(f, "%d\n", nprs_);
    for (int i = 0; i < nprs_; ++i) {
        fprintf(f, "%d %d\n", prs_[i]->pr_->type(), i);
        prs_[i]->savestate_write(f);
    }
    writenet(f);
    if (version == 7) {
        ASSERTfwrite(&plugin_size_, sizeof(int64_t), 1, f);
        ASSERTfwrite(plugin_data_, 1, plugin_size_, f);
    }
    if (close) {
        ocf->close();
    }
}
 
void SaveState::savenet() {
    int i, j, n;
    double* w;
    hoc_Item* q;
    Object* ob;
    NetCon* d;
    PreSyn* ps;
    i = 0;
    ITERATE(q, nct->olist) {
        ob = OBJ(q);
        d = (NetCon*) ob->u.this_pointer;
        n = ncs_[i].nstate;
        w = ncs_[i].state;
        for (j = 0; j < n; ++j) {
            w[j] = d->weight_[j];
        }
        ++i;
    }
    i = 0;
    if (net_cvode_instance_psl())
        ITERATE(q, net_cvode_instance_psl()) {
            ps = (PreSyn*) VOIDITM(q);
            ps->hi_index_ = i;
            pss_[i].flag = ps->flag_;
            pss_[i].valthresh = ps->valthresh_;
            pss_[i].valold = ps->valold_;
            pss_[i].told = ps->told_;
            ++i;
        }
    alloc_tq();
    tqcnt_ = 0;
    NrnThread* nt;
    FOR_THREADS(nt) {
        TQueue* tq = net_cvode_instance_event_queue(nt);
        this_savestate = this;
        callback_mode = 1;
        tq->forall_callback(tqcallback);
    }
}
 
void SaveState::tqcount(const TQItem*, int) {
    ++tqcnt_;
}
 
void SaveState::tqsave(const TQItem* q, int) {
    DiscreteEvent* de = (DiscreteEvent*) q->data_;
    tqs_->tdeliver[tqcnt_] = q->t_;
    tqs_->items[tqcnt_] = de->savestate_save();
    ++tqcnt_;
}
 
void SaveState::restorenet() {
    int i, j, n;
    double* w;
    hoc_Item* q;
    Object* ob;
    NetCon* d;
    PreSyn* ps;
    // NetCon's
    i = 0;
    ITERATE(q, nct->olist) {
        ob = OBJ(q);
        d = (NetCon*) ob->u.this_pointer;
        n = ncs_[i].nstate;
        w = ncs_[i].state;
        for (j = 0; j < n; ++j) {
            d->weight_[j] = w[j];
        }
        ++i;
    }
    // PreSyn's
    i = 0;
    if (net_cvode_instance_psl())
        ITERATE(q, net_cvode_instance_psl()) {
            ps = (PreSyn*) VOIDITM(q);
            ps->hi_index_ = i;
            ps->flag_ = pss_[i].flag;
            ps->valthresh_ = pss_[i].valthresh;
            ps->valold_ = pss_[i].valold;
            ps->told_ = pss_[i].told;
            ++i;
        }
 
    // event queue
    // clear it
    clear_event_queue();
    // restore it
    n = tqs_->nstate;
    for (i = 0; i < n; ++i) {
        tqs_->items[i]->savestate_restore(tqs_->tdeliver[i], net_cvode_instance);
    }
}
 
void SaveState::readnet(FILE* f) {
    free_tq();
    char buf[200];
    ASSERTfgets(buf, 200, f);
    sscanf(buf, "%d\n", &nncs_);
    if (nncs_ != 0) {
        ncs_ = new NetConState[nncs_];
    }
    int i, n, type;
    for (i = 0; i < nncs_; ++i) {
        ASSERTfgets(buf, 200, f);
        sscanf(buf, "%d %d\n", &ncs_[i].object_index, &ncs_[i].nstate);
        if (ncs_[i].nstate) {
            ncs_[i].state = new double[ncs_[i].nstate];
            ASSERTfread(ncs_[i].state, sizeof(double), ncs_[i].nstate, f);
        }
    }
    // PreSyn's
    ASSERTfgets(buf, 200, f);
    sscanf(buf, "%d\n", &npss_);
    if (npss_ != 0) {
        pss_ = new PreSynState[npss_];
        ASSERTfread(pss_, sizeof(PreSynState), npss_, f);
        PreSyn* ps;
        i = 0;
        hoc_Item* q;
        if (net_cvode_instance_psl())
            ITERATE(q, net_cvode_instance_psl()) {
                ps = (PreSyn*) VOIDITM(q);
                ps->hi_index_ = i;
                ++i;
            }
        assert(npss_ == i);
    }
 
    ASSERTfgets(buf, 200, f);
    sscanf(buf, "%d\n", &n);
    tqs_->nstate = n;
    if (n) {
        tqs_->items = new DiscreteEvent*[n];
        tqs_->tdeliver = new double[n];
        ASSERTfread(tqs_->tdeliver, sizeof(double), n, f);
        for (i = 0; i < n; ++i) {
            DiscreteEvent* de = NULL;
            ASSERTfgets(buf, 200, f);
            sscanf(buf, "%d\n", &type);
            switch (type) {
            case DiscreteEventType:
                de = DiscreteEvent::savestate_read(f);
                break;
            case NetConType:
                de = NetCon::savestate_read(f);
                break;
            case SelfEventType:
                de = SelfEvent::savestate_read(f);
                break;
            case PreSynType:
                de = PreSyn::savestate_read(f);
                break;
            case HocEventType:
                de = HocEvent::savestate_read(f);
                break;
            case PlayRecordEventType:
                de = PlayRecordEvent::savestate_read(f);
                break;
            case NetParEventType:
                de = NetParEvent::savestate_read(f);
                break;
            default:
                hoc_execerror("SaveState::readnet", "Unimplemented DiscreteEvent type");
                break;
            }
            tqs_->items[i] = de;
        }
    }
}
 
void SaveState::writenet(FILE* f) {
    fprintf(f, "%d\n", nncs_);
    int i, n;
    for (i = 0; i < nncs_; ++i) {
        fprintf(f, "%d %d\n", ncs_[i].object_index, ncs_[i].nstate);
        if (ncs_[i].nstate) {
            ASSERTfwrite(ncs_[i].state, sizeof(double), ncs_[i].nstate, f);
        }
    }
    fprintf(f, "%d\n", npss_);
    if (npss_) {
        ASSERTfwrite(pss_, sizeof(PreSynState), npss_, f);
    }
    n = tqs_->nstate;
    fprintf(f, "%d\n", n);
    if (n) {
        ASSERTfwrite(tqs_->tdeliver, sizeof(double), n, f);
        for (i = 0; i < n; ++i) {
            tqs_->items[i]->savestate_write(f);
        }
    }
}
 
bool SaveState::checknet(bool warn) {
    if (nncs_ != nct->count) {
        if (warn) {
            fprintf(stderr,
                    "SaveState warning: There are %d NetCon but %d saved\n",
                    nct->count,
                    nncs_);
        }
        return false;
    }
    int i;
    hoc_Item* q;
    Object* ob;
    NetCon* d;
    i = 0;
    ITERATE(q, nct->olist) {
        ob = OBJ(q);
        d = (NetCon*) ob->u.this_pointer;
        if (ob->index != ncs_[i].object_index) {
            if (warn) {
                fprintf(stderr,
                        "SaveState warning: %s is matched with NetCon[%d]\n",
                        hoc_object_name(ob),
                        ncs_[i].object_index);
            }
            return false;
        }
        if (d->cnt_ != ncs_[i].nstate) {
            if (warn) {
                fprintf(stderr,
                        "SaveState warning: %s has %d weight states but saved %d\n",
                        hoc_object_name(ob),
                        d->cnt_,
                        ncs_[i].nstate);
            }
            return false;
        }
        ++i;
    }
    // PreSyn's
    i = 0;
    if (net_cvode_instance_psl())
        ITERATE(q, net_cvode_instance_psl()) {
            ++i;
        }
    if (npss_ != i) {
        if (warn) {
            fprintf(stderr,
                    "SaveState warning: There are %d internal PreSyn but %d saved\n",
                    i,
                    npss_);
        }
        return false;
    }
    return true;
}
 
void SaveState::allocnet() {
    nncs_ = nct->count;
    if (nncs_ != 0) {
        ncs_ = new NetConState[nncs_];
    }
    int i, n;
    hoc_Item* q;
    Object* ob;
    NetCon* d;
    i = 0;
    ITERATE(q, nct->olist) {
        ob = OBJ(q);
        d = (NetCon*) ob->u.this_pointer;
        ncs_[i].object_index = ob->index;
        ncs_[i].nstate = d->cnt_;
        if (d->cnt_) {
            ncs_[i].state = new double[d->cnt_];
        }
        ++i;
    }
    PreSyn* ps;
    npss_ = 0;
    if (net_cvode_instance_psl())
        ITERATE(q, net_cvode_instance_psl()) {
            ps = (PreSyn*) VOIDITM(q);
            ps->hi_index_ = npss_;
            ++npss_;
        }
    if (npss_ != 0) {
        pss_ = new PreSynState[npss_];
    }
}
 
// The event TQueue is highly volatile so it needs to be freed and allocated
// on every save and fread
void SaveState::free_tq() {
    int i;
    if (tqs_->nstate) {
        for (i = 0; i < tqs_->nstate; ++i) {
            delete tqs_->items[i];
        }
        tqs_->nstate = 0;
        delete[] tqs_->items;
        delete[] tqs_->tdeliver;
    }
}
void SaveState::alloc_tq() {
    int n;
    free_tq();
    tqcnt_ = 0;
    NrnThread* nt;
    FOR_THREADS(nt) {
        TQueue* tq = net_cvode_instance_event_queue(nt);
        this_savestate = this;
        callback_mode = 0;
        tq->forall_callback(tqcallback);
    }
    n = tqcnt_;
    tqs_->nstate = n;
    if (n) {
        tqs_->items = new DiscreteEvent*[n];
        tqs_->tdeliver = new double[n];
    }
}
 
static void* cons(Object*) {
    SaveState* ss = new SaveState();
    ss->ref();
    return (void*) ss;
}
 
static void destruct(void* v) {
    SaveState* ss = (SaveState*) v;
    Resource::unref(ss);
}
 
static double save(void* v) {
    SaveState* ss = (SaveState*) v;
    ss->save();
    return 1.;
}
 
static double restore(void* v) {
    SaveState* ss = (SaveState*) v;
    int type = 0;
    if (ifarg(1)) {
        type = (int) chkarg(1, 0, 1);
    }
    ss->restore(type);
    return 1.;
}
 
static double ssread(void* v) {
    bool close = true;
    SaveState* ss = (SaveState*) v;
    Object* obj = *hoc_objgetarg(1);
    check_obj_type(obj, "File");
    if (ifarg(2)) {
        close = chkarg(2, 0, 1) ? true : false;
    }
    OcFile* f = (OcFile*) obj->u.this_pointer;
    ss->read(f, close);
    return 1.;
}
 
static double sswrite(void* v) {
    bool close = true;
    SaveState* ss = (SaveState*) v;
    Object* obj = *hoc_objgetarg(1);
    check_obj_type(obj, "File");
    if (ifarg(2)) {
        close = chkarg(2, 0, 1) ? true : false;
    }
    OcFile* f = (OcFile*) obj->u.this_pointer;
    ss->write(f, close);
    return 1.;
}
 
static Member_func members[] =
    {"save", save, "restore", restore, "fread", ssread, "fwrite", sswrite, 0, 0};
 
void SaveState_reg() {
    class2oc("SaveState", cons, destruct, members, NULL, NULL, NULL);
}