NEURON interfaces to MySQL and the SPUD feature extraction algorithm (Neymotin et al. 2008)

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Accession:97868
See the readme.txt for information on setting up this interface to a MySQL server from the NEURON simulator. Note the SPUD feature extraction algorithm includes its own readme in the spud directory.
Reference:
1 . Neymotin S, Uhlrich DJ, Manning KA, Lytton WW (2008) Data mining of time-domain features from neural extracellular field data Applic. of Comput. Intel. in Bioinf. and Biomed.: Current Trends and Open Problems 151:119-140
Model Information (Click on a link to find other models with that property)
Model Type:
Brain Region(s)/Organism:
Cell Type(s):
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: NEURON;
Model Concept(s): Methods;
Implementer(s): Lytton, William [bill.lytton at downstate.edu]; Neymotin, Sam [Samuel.Neymotin at nki.rfmh.org];
Files displayed below are from the implementation
/* Copyright (C) 2000 MySQL AB

   This program 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; version 2 of the License.

   This program 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 this program; if not, write to the Free Software
   Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA  02111-1307  USA */

/* Prototypes when using thr_alarm library functions */

#ifndef _thr_alarm_h
#define _thr_alarm_h
#ifdef	__cplusplus
extern "C" {
#endif

#ifndef USE_ALARM_THREAD
#define USE_ONE_SIGNAL_HAND		/* One must call process_alarm */
#endif
#ifdef HAVE_rts_threads
#undef USE_ONE_SIGNAL_HAND
#define USE_ALARM_THREAD
#define THR_SERVER_ALARM SIGUSR1
#else
#define THR_SERVER_ALARM SIGALRM
#endif

typedef struct st_alarm_info
{
  ulong next_alarm_time;
  uint active_alarms;
  uint max_used_alarms;
} ALARM_INFO;

void thr_alarm_info(ALARM_INFO *info);

#if defined(DONT_USE_THR_ALARM) || !defined(THREAD)

#define USE_ALARM_THREAD
#undef USE_ONE_SIGNAL_HAND

typedef my_bool thr_alarm_t;
typedef my_bool ALARM;

#define thr_alarm_init(A) (*(A))=0
#define thr_alarm_in_use(A) (*(A) != 0)
#define thr_end_alarm(A)
#define thr_alarm(A,B,C) ((*(A)=1)-1)
/* The following should maybe be (*(A)) */
#define thr_got_alarm(A) 0
#define init_thr_alarm(A)
#define thr_alarm_kill(A)
#define resize_thr_alarm(N)
#define end_thr_alarm(A)

#else
#if defined(__WIN__)
typedef struct st_thr_alarm_entry
{
  rf_SetTimer crono;
} thr_alarm_entry;

#elif defined(__EMX__) || defined(OS2)

typedef struct st_thr_alarm_entry
{
  uint crono;
  uint event;
} thr_alarm_entry;

#else /* System with posix threads */

typedef int thr_alarm_entry;

#define thr_got_alarm(thr_alarm) (**(thr_alarm))

#endif /* __WIN__ */

typedef thr_alarm_entry* thr_alarm_t;

typedef struct st_alarm {
  ulong expire_time;
  thr_alarm_entry alarmed;		/* set when alarm is due */
  pthread_t thread;
  my_bool malloced;
} ALARM;

extern uint thr_client_alarm;
extern pthread_t alarm_thread;

#define thr_alarm_init(A) (*(A))=0
#define thr_alarm_in_use(A) (*(A)!= 0)
void init_thr_alarm(uint max_alarm);
void resize_thr_alarm(uint max_alarms);
my_bool thr_alarm(thr_alarm_t *alarmed, uint sec, ALARM *buff);
void thr_alarm_kill(pthread_t thread_id);
void thr_end_alarm(thr_alarm_t *alarmed);
void end_thr_alarm(my_bool free_structures);
sig_handler process_alarm(int);
#ifndef thr_got_alarm
bool thr_got_alarm(thr_alarm_t *alrm);
#endif


#endif /* DONT_USE_THR_ALARM */

#ifdef	__cplusplus
}
#endif /* __cplusplus */
#endif /* _thr_alarm_h */

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