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meflib.h
1589 lines (1414 loc) · 76.9 KB
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meflib.h
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#ifndef MEFLIB_IN
#define MEFLIB_IN
/************************************************************************************/
/******************************* MEF 3.0 C Library Header **************************/
/************************************************************************************/
// Specification for Multiscale Electrophysiology Format (MEF) version 3.0
// Copyright 2021, Mayo Foundation, Rochester MN. All rights reserved.
// Written by Matt Stead, Ben Brinkmann, and Dan Crepeau.
// Usage and modification of this source code is governed by the Apache 2.0 license.
// You may not use this file except in compliance with this License.
// A copy of the Apache 2.0 License may be obtained at http://www.apache.org/licenses/LICENSE-2.0
// Unless required by applicable law or agreed to in writing, software
// distributed under this License is distributed on an "as is" basis,
// WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either expressed or implied.
// See the License for the specific language governing permissions and
// limitations under the License.
// Thanks to all who acknowledge the Mayo Systems Electrophysiology Laboratory, Rochester, MN
// in academic publications of their work facilitated by this software.
// The encryption / decryption algorithm is the 128-bit AES standard ( http://www.csrc.nist.gov/publications/fips/fips197/fips-197.pdf ).
// AES routines (128 bit only) are included in the library, with attribution, for convenience.
// The hash algorithm is the SHA-256 standard ( http://csrc.nist.gov/publications/fips/fips180-4/fips-180-4.pdf ).
// Basic SHA-256 routines are included in the library, with attribution, for convenience.
// Strings in MEF 3.0 are encoded in the Universal Character Set standard, ISO/IEC 10646:2012 otherwise known as UTF-8.
// ( http://standards.iso.org/ittf/PubliclyAvailableStandards/c056921_ISO_IEC_10646_2012.zip )
// Basic UTF-8 manipulation routines are also included in the library, with attribution, for convenience.
// written with tab width = indent width = 8 spaces and a monospaced font
// set editor prefernces to these for intended alignment
/************************************************************************************/
/********************************** Library Includes ******************************/
/************************************************************************************/
#ifdef _WIN32
#define _USE_MATH_DEFINES
#include <stdlib.h>
#include <stdio.h>
#include <string.h>
#include <time.h>
#include <math.h>
#include <float.h>
#include <sys/stat.h>
#include <stdarg.h>
#include <errno.h>
#include <fcntl.h>
#include <limits.h>
#include <malloc.h> // for alloca()
#include <stdint.h>
#include <windows.h>
#else
#include <stdlib.h>
#include <unistd.h>
#include <stdio.h>
#include <string.h>
#include <time.h>
#include <sys/time.h>
#include <math.h>
#include <float.h>
#include <sys/stat.h>
#include <stdarg.h>
#include <errno.h>
#include <fcntl.h>
#include <limits.h>
#include <dirent.h>
//#include <pthread.h>
#endif
/************************************************************************************/
/******************************** Elemental Typedefs ******************************/
/************************************************************************************/
#ifndef SIZE_TYPES_IN
#define SIZE_TYPES_IN
#ifdef _WIN32
typedef char si1;
typedef unsigned char ui1;
typedef short si2;
typedef unsigned short ui2;
typedef int si4;
typedef unsigned int ui4;
typedef long long int si8;
typedef long long unsigned int ui8;
typedef float sf4;
typedef double sf8;
typedef long double sf16; // NOTE: it often requires an explicit compiler instruction to implement true long floating point math
// in gcc and icc: "-Qoption,cpp,--extended_float_type"
typedef uint8_t u_int8_t;
typedef uint16_t u_int16_t;
typedef uint32_t u_int32_t;
#else
typedef char si1;
typedef unsigned char ui1;
typedef short si2;
typedef unsigned short ui2;
typedef int si4;
typedef unsigned int ui4;
typedef long int si8;
typedef long unsigned int ui8;
typedef float sf4;
typedef double sf8;
typedef long double sf16; // NOTE: it often requires an explicit compiler instruction to implement true long floating point math
// in gcc and icc: "-Qoption,cpp,--extended_float_type"
#endif
#endif
/************************************************************************************/
/************************************ MEF Globals *********************************/
/************************************************************************************/
typedef struct {
// time constants
si8 recording_time_offset;
ui4 recording_time_offset_mode;
si4 GMT_offset;
si8 DST_start_time;
si8 DST_end_time;
// alignment fields
si4 universal_header_aligned;
si4 metadata_section_1_aligned;
si4 time_series_metadata_section_2_aligned;
si4 video_metadata_section_2_aligned;
si4 metadata_section_3_aligned;
si4 all_metadata_structures_aligned;
si4 time_series_indices_aligned;
si4 video_indices_aligned;
si4 RED_block_header_aligned;
si4 record_header_aligned;
si4 record_indices_aligned;
si4 all_record_structures_aligned;
si4 all_structures_aligned;
// RED
sf8 *RED_normal_CDF_table;
// CRC
ui4 *CRC_table;
ui4 CRC_mode;
// AES tables
si4 *AES_sbox_table;
si4 *AES_rcon_table;
si4 *AES_rsbox_table;
// SHA256 tables
ui4 *SHA256_h0_table;
ui4 *SHA256_k_table;
// UTF8 tables
ui4 *UTF8_offsets_from_UTF8_table;
si1 *UTF8_trailing_bytes_for_UTF8_table;
// miscellaneous
si4 verbose;
ui4 behavior_on_fail;
ui4 file_creation_umask;
si1 read_time_series_indices;
si1 read_video_indices;
si1 read_record_indices;
} MEF_GLOBALS;
/************************************************************************************/
/************************ Error Checking Standard Functions ***********************/
/************************************************************************************/
// Constants
#define USE_GLOBAL_BEHAVIOR 0
#define RESTORE_BEHAVIOR 1
#define EXIT_ON_FAIL 2
#define RETURN_ON_FAIL 4
#define SUPPRESS_ERROR_OUTPUT 8
// Function Prototypes
si4 e_system(const char *command, const si1 *function, si4 line, ui4 behavior_on_fail);
void *e_calloc(size_t n_members, size_t size, const si1 *function, si4 line, ui4 behavior_on_fail);
FILE *e_fopen(si1 *path, si1 *mode, const si1 *function, si4 line, ui4 behavior_on_fail);
size_t e_fread(void *ptr, size_t size, size_t n_members, FILE *stream, si1 *path, const si1 *function, si4 line, ui4 behavior_on_fail);
si4 e_fseek(FILE *stream, si8 offset, si4 whence, si1 *path, const si1 *function, si4 line, ui4 behavior_on_fail);
long e_ftell(FILE *stream, const si1 *function, si4 line, ui4 behavior_on_fail);
size_t e_fwrite(void *ptr, size_t size, size_t n_members, FILE *stream, si1 *path, const si1 *function, si4 line, ui4 behavior_on_fail);
void *e_malloc(size_t n_bytes, const si1 *function, si4 line, ui4 behavior_on_fail);
void *e_realloc(void *ptr, size_t n_bytes, const si1 *function, si4 line, ui4 behavior_on_fail);
/************************************************************************************/
/********************************** MEF Constants *********************************/
/************************************************************************************/
// Miscellaneous Constants
#define MEF_TRUE 1
#define MEF_UNKNOWN 0
#define MEF_FALSE -1
#define MEF_BIG_ENDIAN 0
#define MEF_LITTLE_ENDIAN 1
#define MEF_VERSION_MAJOR 3
#define MEF_VERSION_MINOR 0
#define TYPE_BYTES 5
#define UUID_BYTES 16
#define NO_UUID 0
#define TIME_STRING_BYTES 32
#define MEF_BASE_FILE_NAME_BYTES 256 // utf8[63]
#define MEF_SEGMENT_BASE_FILE_NAME_BYTES (MEF_BASE_FILE_NAME_BYTES + 8)
#ifdef _WIN32
#define MEF_FULL_FILE_NAME_BYTES (_MAX_PATH * 4)
#else
#define MEF_FULL_FILE_NAME_BYTES (PATH_MAX * 4)
#endif
#define PAD_BYTE_VALUE 0x7e // ascii tilde ("~")
#define FILE_NUMBERING_DIGITS 6
#define NO_TYPE_CODE 0
#define MAXIMUM_GMT_OFFSET 86400
#define MINIMUM_GMT_OFFSET -86400
#define UNKNOWN_NUMBER_OF_ENTRIES -1
#define UUTC_NO_ENTRY 0x8000000000000000
#define CRC_NO_ENTRY 0
// CRC Modes
#define CRC_IGNORE 0
#define CRC_VALIDATE 1
#define CRC_VALIDATE_ON_INPUT 2
#define CRC_VALIDATE_ON_OUTPUT 4
#define CRC_CALCULATE 8
#define CRC_CALCULATE_ON_INPUT 16
#define CRC_CALCULATE_ON_OUTPUT 32
// Encryption & Password Constants
#define ENCRYPTION_LEVEL_NO_ENTRY -128
#define NO_ENCRYPTION 0
#define LEVEL_0_ENCRYPTION NO_ENCRYPTION
#define LEVEL_1_ENCRYPTION 1
#define LEVEL_2_ENCRYPTION 2
#define LEVEL_0_ACCESS LEVEL_0_ENCRYPTION
#define LEVEL_1_ACCESS LEVEL_1_ENCRYPTION
#define LEVEL_2_ACCESS LEVEL_2_ENCRYPTION
#define LEVEL_1_ENCRYPTION_DECRYPTED -LEVEL_1_ENCRYPTION
#define LEVEL_2_ENCRYPTION_DECRYPTED -LEVEL_2_ENCRYPTION
#define ENCRYPTION_BLOCK_BYTES 16 // AES-128
#define ENCRYPTION_KEY_BYTES 176 // AES-128 = ((AES_NR + 1) * AES_NK * AES_NB)
#define PASSWORD_BYTES ENCRYPTION_BLOCK_BYTES
#define UTF8_PASSWORD_BYTES (PASSWORD_BYTES * 4)
#define MAX_PASSWORD_CHARACTERS (PASSWORD_BYTES - 1)
#define PASSWORD_VALIDATION_FIELD_BYTES PASSWORD_BYTES
// Recording Time Offset Modes & Constants
#define RTO_USE_SYSTEM_TIME -1
#define RTO_IGNORE 0
#define RTO_APPLY 1
#define RTO_REMOVE 2
#define RTO_APPLY_ON_OUTPUT 4
#define RTO_APPLY_ON_INPUT 8
#define RTO_REMOVE_ON_OUTPUT 16
#define RTO_REMOVE_ON_INPUT 32
#define RTO_INPUT_ACTION 1
#define RTO_OUTPUT_ACTION 2
// Global Defaults
#define MEF_GLOBALS_VERBOSE_DEFAULT MEF_FALSE
#define MEF_GLOBALS_RECORDING_TIME_OFFSET_DEFAULT 0
#define MEF_GLOBALS_RECORDING_TIME_OFFSET_MODE_DEFAULT (RTO_APPLY_ON_OUTPUT | RTO_REMOVE_ON_INPUT)
#define MEF_GLOBALS_GMT_OFFSET_DEFAULT 0
#define MEF_GLOBALS_DST_START_TIME_DEFAULT UUTC_NO_ENTRY
#define MEF_GLOBALS_DST_END_TIME_DEFAULT UUTC_NO_ENTRY
#define MEF_GLOBALS_FILE_CREATION_UMASK_DEFAULT S_IWOTH // defined in <sys/stat.h>
#define MEF_GLOBALS_BEHAVIOR_ON_FAIL_DEFAULT EXIT_ON_FAIL
#define MEF_GLOBALS_CRC_MODE_DEFAULT (CRC_CALCULATE_ON_OUTPUT)
// File Type Constants
#define NO_FILE_TYPE_STRING "" // ascii[4]
#define NO_FILE_TYPE_CODE (ui4) 0x00000000 // ui4 (big & little endian)
#define SESSION_DIRECTORY_TYPE_STRING "mefd" // ascii[4]
#define SESSION_DIRECTORY_TYPE_CODE (ui4) 0x6466656d // ui4 (little endian)
// #define SESSION_DIRECTORY_TYPE_CODE (ui4) 0x6d656664 // ui4 (big endian)
#define SEGMENT_DIRECTORY_TYPE_STRING "segd" // ascii[4]
#define SEGMENT_DIRECTORY_TYPE_CODE (ui4) 0x64676573 // ui4 (little endian)
// #define SEGMENT_DIRECTORY_TYPE_CODE (ui4) 0x73656764 // ui4 (big endian)
#define RECORD_DATA_FILE_TYPE_STRING "rdat" // ascii[4]
#define RECORD_DATA_FILE_TYPE_CODE (ui4) 0x74616472 // ui4 (little endian)
// #define RECORD_DATA_FILE_TYPE_CODE (ui4) 0x72646174 // ui4 (big endian)
#define RECORD_INDICES_FILE_TYPE_STRING "ridx" // ascii[4]
#define RECORD_INDICES_FILE_TYPE_CODE (ui4) 0x78646972 // ui4 (little endian)
// #define RECORD_INDICES_FILE_TYPE_CODE (ui4) 0x72696478 // ui4 (big endian)
#define VIDEO_CHANNEL_DIRECTORY_TYPE_STRING "vidd" // ascii[4]
#define VIDEO_CHANNEL_DIRECTORY_TYPE_CODE (ui4) 0x64646976 // ui4 (little endian)
// #define VIDEO_CHANNEL_DIRECTORY_TYPE_CODE (ui4) 0x76696464 // ui4 (big endian)
#define VIDEO_METADATA_FILE_TYPE_STRING "vmet" // ascii[4]
#define VIDEO_METADATA_FILE_TYPE_CODE (ui4) 0x74656d76 // ui4 (little endian)
// #define VIDEO_METADATA_FILE_TYPE_CODE (ui4) 0x766d6574 // ui4 (big endian)
#define VIDEO_INDICES_FILE_TYPE_STRING "vidx" // ascii[4]
#define VIDEO_INDICES_FILE_TYPE_CODE (ui4) 0x78646976 // ui4 (little endian)
// #define VIDEO_INDICES_FILE_TYPE_CODE (ui4) 0x76696478 // ui4 (big endian)
#define TIME_SERIES_CHANNEL_DIRECTORY_TYPE_STRING "timd" // ascii[4]
#define TIME_SERIES_CHANNEL_DIRECTORY_TYPE_CODE (ui4) 0x646d6974 // ui4 (little endian)
// #define TIME_SERIES_CHANNEL_DIRECTORY_TYPE_CODE (ui4) 0x74696d64 // ui4 (big endian)
#define TIME_SERIES_METADATA_FILE_TYPE_STRING "tmet" // ascii[4]
#define TIME_SERIES_METADATA_FILE_TYPE_CODE (ui4) 0x74656d74 // ui4 (little endian)
// #define TIME_SERIES_METADATA_FILE_TYPE_CODE (ui4) 0x746d6574 // ui4 (big endian)
#define TIME_SERIES_DATA_FILE_TYPE_STRING "tdat" // ascii[4]
#define TIME_SERIES_DATA_FILE_TYPE_CODE (ui4) 0x74616474 // ui4 (little endian)
// #define TIME_SERIES_DATA_FILE_TYPE_CODE (ui4) 0x74646174 // ui4 (big endian)
#define TIME_SERIES_INDICES_FILE_TYPE_STRING "tidx" // ascii[4]
#define TIME_SERIES_INDICES_FILE_TYPE_CODE (ui4) 0x78646974 // ui4 (little endian)
// #define TIME_SERIES_INDICES_FILE_TYPE_CODE (ui4) 0x74696478 // ui4 (big endian)
// Channel Types
#define UNKNOWN_CHANNEL_TYPE -1
#define TIME_SERIES_CHANNEL_TYPE 1
#define VIDEO_CHANNEL_TYPE 2
// File Processing constants
#define FPS_FILE_LENGTH_UNKNOWN -1
#define FPS_FULL_FILE -1
#define FPS_NO_LOCK_TYPE ~(F_RDLCK | F_WRLCK | F_UNLCK) // from <fcntl.h>
#define FPS_NO_LOCK_MODE 0
#define FPS_READ_LOCK_ON_READ_OPEN 1
#define FPS_WRITE_LOCK_ON_READ_OPEN 2
#define FPS_WRITE_LOCK_ON_WRITE_OPEN 4
#define FPS_WRITE_LOCK_ON_READ_WRITE_OPEN 8
#define FPS_READ_LOCK_ON_READ 16
#define FPS_WRITE_LOCK_ON_WRITE 32
#define FPS_NO_OPEN_MODE 0
#define FPS_R_OPEN_MODE 1
#define FPS_R_PLUS_OPEN_MODE 2
#define FPS_W_OPEN_MODE 4
#define FPS_W_PLUS_OPEN_MODE 8
#define FPS_A_OPEN_MODE 16
#define FPS_A_PLUS_OPEN_MODE 32
#define FPS_GENERIC_READ_OPEN_MODE (FPS_R_OPEN_MODE | FPS_R_PLUS_OPEN_MODE | FPS_W_PLUS_OPEN_MODE | FPS_A_PLUS_OPEN_MODE)
#define FPS_GENERIC_WRITE_OPEN_MODE (FPS_R_PLUS_OPEN_MODE | FPS_W_OPEN_MODE | FPS_W_PLUS_OPEN_MODE | FPS_A_OPEN_MODE | FPS_A_PLUS_OPEN_MODE)
// File Processing Directives defaults
#define FPS_DIRECTIVE_CLOSE_FILE_DEFAULT MEF_TRUE
#define FPS_DIRECTIVE_FREE_PASSWORD_DATA_DEFAULT MEF_FALSE
#define FPS_DIRECTIVE_LOCK_MODE_DEFAULT (FPS_READ_LOCK_ON_READ_OPEN | FPS_WRITE_LOCK_ON_WRITE_OPEN | FPS_WRITE_LOCK_ON_READ_WRITE_OPEN)
#define FPS_DIRECTIVE_OPEN_MODE_DEFAULT FPS_NO_OPEN_MODE
#define FPS_DIRECTIVE_IO_BYTES_DEFAULT FPS_FULL_FILE // bytes to read or write
// Universal Header: File Format Constants
#define UNIVERSAL_HEADER_OFFSET 0
#define UNIVERSAL_HEADER_BYTES 1024 // 1 kb
#define UNIVERSAL_HEADER_HEADER_CRC_OFFSET 0 // ui4
#define UNIVERSAL_HEADER_HEADER_CRC_NO_ENTRY CRC_NO_ENTRY
#define UNIVERSAL_HEADER_BODY_CRC_OFFSET 4 // ui4
#define UNIVERSAL_HEADER_BODY_CRC_NO_ENTRY CRC_NO_ENTRY
#define UNIVERSAL_HEADER_FILE_TYPE_OFFSET 8 // ascii[4] or ui4
#define UNIVERSAL_HEADER_FILE_TYPE_NO_ENTRY 0 // zero as ui4 or zero-length string as ascii[4]
#define UNIVERSAL_HEADER_MEF_VERSION_MAJOR_OFFSET 13 // ui1
#define UNIVERSAL_HEADER_MEF_VERSION_MAJOR_NO_ENTRY 0xff
#define UNIVERSAL_HEADER_MEF_VERSION_MINOR_OFFSET 14 // ui1
#define UNIVERSAL_HEADER_MEF_VERSION_MINOR_NO_ENTRY 0xff
#define UNIVERSAL_HEADER_BYTE_ORDER_CODE_OFFSET 15 // ui1
#define UNIVERSAL_HEADER_BYTE_ORDER_CODE_NO_ENTRY 0xff
#define UNIVERSAL_HEADER_START_TIME_OFFSET 16 // si8
#define UNIVERSAL_HEADER_START_TIME_NO_ENTRY UUTC_NO_ENTRY
#define UNIVERSAL_HEADER_END_TIME_OFFSET 24 // si8
#define UNIVERSAL_HEADER_END_TIME_NO_ENTRY UUTC_NO_ENTRY
#define UNIVERSAL_HEADER_NUMBER_OF_ENTRIES_OFFSET 32 // si8
#define UNIVERSAL_HEADER_NUMBER_OF_ENTRIES_NO_ENTRY -1
#define UNIVERSAL_HEADER_MAXIMUM_ENTRY_SIZE_OFFSET 40 // si8
#define UNIVERSAL_HEADER_MAXIMUM_ENTRY_SIZE_NO_ENTRY -1
#define UNIVERSAL_HEADER_SEGMENT_NUMBER_OFFSET 48 // si4
#define UNIVERSAL_HEADER_SEGMENT_NUMBER_NO_ENTRY -1
#define UNIVERSAL_HEADER_CHANNEL_LEVEL_CODE -2
#define UNIVERSAL_HEADER_SESSION_LEVEL_CODE -3
#define UNIVERSAL_HEADER_CHANNEL_NAME_OFFSET 52 // utf8[63]
#define UNIVERSAL_HEADER_SESSION_NAME_OFFSET 308 // utf8[63]
#define UNIVERSAL_HEADER_ANONYMIZED_NAME_OFFSET 564 // utf8[63]
#define UNIVERSAL_HEADER_ANONYMIZED_NAME_BYTES 256 // utf8[63]
#define UNIVERSAL_HEADER_LEVEL_UUID_OFFSET 820 // ui1
#define UNIVERSAL_HEADER_FILE_UUID_OFFSET 836 // ui1
#define UNIVERSAL_HEADER_PROVENANCE_UUID_OFFSET 852 // ui1
#define UNIVERSAL_HEADER_LEVEL_1_PASSWORD_VALIDATION_FIELD_OFFSET 868 // ui1
#define UNIVERSAL_HEADER_LEVEL_2_PASSWORD_VALIDATION_FIELD_OFFSET 884 // ui1
#define UNIVERSAL_HEADER_PROTECTED_REGION_OFFSET 900
#define UNIVERSAL_HEADER_PROTECTED_REGION_BYTES 60
#define UNIVERSAL_HEADER_DISCRETIONARY_REGION_OFFSET 960
#define UNIVERSAL_HEADER_DISCRETIONARY_REGION_BYTES 64
// Metadata: File Format Constants
#define METADATA_FILE_BYTES 16384 // 16 kb
// Metadata: File Format Constants - Section 1 Fields
#define METADATA_SECTION_1_BYTES 1536
#define METADATA_SECTION_2_ENCRYPTION_OFFSET 1024 // si1
#define METADATA_SECTION_2_ENCRYPTION_DEFAULT LEVEL_1_ENCRYPTION
#define METADATA_SECTION_3_ENCRYPTION_OFFSET 1025 // si1
#define METADATA_SECTION_3_ENCRYPTION_DEFAULT LEVEL_2_ENCRYPTION
#define METADATA_SECTION_1_PROTECTED_REGION_OFFSET 1026
#define METADATA_SECTION_1_PROTECTED_REGION_BYTES 766
#define METADATA_SECTION_1_DISCRETIONARY_REGION_OFFSET 1792
#define METADATA_SECTION_1_DISCRETIONARY_REGION_BYTES 768
// Metadata: File Format Constants - Section 2 Fields
#define METADATA_SECTION_2_OFFSET 2560
#define METADATA_SECTION_2_BYTES 10752
// Metadata: File Format Constants - Generic Section 2 Fields
#define METADATA_CHANNEL_DESCRIPTION_OFFSET 2560 // utf8[511]
#define METADATA_CHANNEL_DESCRIPTION_BYTES 2048
#define METADATA_SESSION_DESCRIPTION_OFFSET 4608 // utf8[511]
#define METADATA_SESSION_DESCRIPTION_BYTES 2048
#define METADATA_RECORDING_DURATION_OFFSET 6656 // si8
#define METADATA_RECORDING_DURATION_NO_ENTRY -1
// Metadata: File Format Constants - Time Series Section 2 Fields
#define TIME_SERIES_METADATA_REFERENCE_DESCRIPTION_OFFSET 6664 // utf8[511]
#define TIME_SERIES_METADATA_REFERENCE_DESCRIPTION_BYTES METADATA_CHANNEL_DESCRIPTION_BYTES
#define TIME_SERIES_METADATA_ACQUISITION_CHANNEL_NUMBER_OFFSET 8712 // si8
#define TIME_SERIES_METADATA_ACQUISITION_CHANNEL_NUMBER_NO_ENTRY -1
#define TIME_SERIES_METADATA_SAMPLING_FREQUENCY_OFFSET 8720 // sf8
#define TIME_SERIES_METADATA_SAMPLING_FREQUENCY_NO_ENTRY -1.0
#define TIME_SERIES_METADATA_LOW_FREQUENCY_FILTER_SETTING_OFFSET 8728 // sf8
#define TIME_SERIES_METADATA_LOW_FREQUENCY_FILTER_SETTING_NO_ENTRY -1.0
#define TIME_SERIES_METADATA_HIGH_FREQUENCY_FILTER_SETTING_OFFSET 8736 // sf8
#define TIME_SERIES_METADATA_HIGH_FREQUENCY_FILTER_SETTING_NO_ENTRY -1.0
#define TIME_SERIES_METADATA_NOTCH_FILTER_FREQUENCY_SETTING_OFFSET 8744 // sf8
#define TIME_SERIES_METADATA_NOTCH_FILTER_FREQUENCY_SETTING_NO_ENTRY -1.0
#define TIME_SERIES_METADATA_AC_LINE_FREQUENCY_OFFSET 8752 // sf8
#define TIME_SERIES_METADATA_AC_LINE_FREQUENCY_NO_ENTRY -1.0
#define TIME_SERIES_METADATA_UNITS_CONVERSION_FACTOR_OFFSET 8760 // sf8
#define TIME_SERIES_METADATA_UNITS_CONVERSION_FACTOR_NO_ENTRY 0.0
#define TIME_SERIES_METADATA_UNITS_DESCRIPTION_OFFSET 8768 // utf8[31]
#define TIME_SERIES_METADATA_UNITS_DESCRIPTION_BYTES 128 // utf8[31]
#define TIME_SERIES_METADATA_MAXIMUM_NATIVE_SAMPLE_VALUE_OFFSET 8896 // ssf8
#define TIME_SERIES_METADATA_MAXIMUM_NATIVE_SAMPLE_VALUE_NO_ENTRY NAN // (nan(NULL)) // NOTE this value must be tested with isnan(), or an equivalent function, rather than ==
#define TIME_SERIES_METADATA_MINIMUM_NATIVE_SAMPLE_VALUE_OFFSET 8904 // sf8
#define TIME_SERIES_METADATA_MINIMUM_NATIVE_SAMPLE_VALUE_NO_ENTRY NAN //(nan(NULL)) // NOTE this value must be tested with isnan(), or an equivalent function, rather than ==
#define TIME_SERIES_METADATA_START_SAMPLE_OFFSET 8912
#define TIME_SERIES_METADATA_START_SAMPLE_NO_ENTRY -1
#define TIME_SERIES_METADATA_NUMBER_OF_SAMPLES_OFFSET 8920 // si8
#define TIME_SERIES_METADATA_NUMBER_OF_SAMPLES_NO_ENTRY -1
#define TIME_SERIES_METADATA_NUMBER_OF_BLOCKS_OFFSET 8928 // si8
#define TIME_SERIES_METADATA_NUMBER_OF_BLOCKS_NO_ENTRY -1
#define TIME_SERIES_METADATA_MAXIMUM_BLOCK_BYTES_OFFSET 8936 // si8
#define TIME_SERIES_METADATA_MAXIMUM_BLOCK_BYTES_NO_ENTRY -1
#define TIME_SERIES_METADATA_MAXIMUM_BLOCK_SAMPLES_OFFSET 8944 // ui4
#define TIME_SERIES_METADATA_MAXIMUM_BLOCK_SAMPLES_NO_ENTRY 0xFFFFFFFF
#define TIME_SERIES_METADATA_MAXIMUM_DIFFERENCE_BYTES_OFFSET 8948 // ui4
#define TIME_SERIES_METADATA_MAXIMUM_DIFFERENCE_BYTES_NO_ENTRY 0xFFFFFFFF
#define TIME_SERIES_METADATA_BLOCK_INTERVAL_OFFSET 8952 // si8
#define TIME_SERIES_METADATA_BLOCK_INTERVAL_NO_ENTRY -1
#define TIME_SERIES_METADATA_NUMBER_OF_DISCONTINUITIES_OFFSET 8960 // ui4
#define TIME_SERIES_METADATA_NUMBER_OF_DISCONTINUITIES_NO_ENTRY -1
#define TIME_SERIES_METADATA_MAXIMUM_CONTIGUOUS_BLOCKS_OFFSET 8968 // si8
#define TIME_SERIES_METADATA_MAXIMUM_CONTIGUOUS_BLOCKS_NO_ENTRY -1
#define TIME_SERIES_METADATA_MAXIMUM_CONTIGUOUS_BLOCK_BYTES_OFFSET 8976 // si8
#define TIME_SERIES_METADATA_MAXIMUM_CONTIGUOUS_BLOCK_BYTES_NO_ENTRY -1
#define TIME_SERIES_METADATA_MAXIMUM_CONTIGUOUS_SAMPLES_OFFSET 8984 // si8
#define TIME_SERIES_METADATA_MAXIMUM_CONTIGUOUS_SAMPLES_NO_ENTRY -1
#define TIME_SERIES_METADATA_SECTION_2_PROTECTED_REGION_OFFSET 8992
#define TIME_SERIES_METADATA_SECTION_2_PROTECTED_REGION_BYTES 2160
#define TIME_SERIES_METADATA_SECTION_2_DISCRETIONARY_REGION_OFFSET 11152
#define TIME_SERIES_METADATA_SECTION_2_DISCRETIONARY_REGION_BYTES 2160
// Metadata: File Format Constants - Video Section 2 Fields
#define VIDEO_METADATA_HORIZONTAL_RESOLUTION_OFFSET 6664 // si8
#define VIDEO_METADATA_HORIZONTAL_RESOLUTION_NO_ENTRY -1
#define VIDEO_METADATA_VERTICAL_RESOLUTION_OFFSET 6672 // si8
#define VIDEO_METADATA_VERTICAL_RESOLUTION_NO_ENTRY -1
#define VIDEO_METADATA_FRAME_RATE_OFFSET 6680 // sf8
#define VIDEO_METADATA_FRAME_RATE_NO_ENTRY -1.0
#define VIDEO_METADATA_NUMBER_OF_CLIPS_OFFSET 6688
#define VIDEO_METADATA_NUMBER_OF_CLIPS_NO_ENTRY -1
#define VIDEO_METADATA_MAXIMUM_CLIP_BYTES_OFFSET 6696
#define VIDEO_METADATA_MAXIMUM_CLIP_BYTES_NO_ENTRY -1
#define VIDEO_METADATA_VIDEO_FORMAT_OFFSET 6704 // utf8[31]
#define VIDEO_METADATA_VIDEO_FORMAT_BYTES 128
#define VIDEO_METADATA_VIDEO_FILE_CRC_OFFSET 6832
#define VIDEO_METADATA_VIDEO_FILE_CRC_NO_ENTRY CRC_NO_ENTRY
#define VIDEO_METADATA_SECTION_2_PROTECTED_REGION_OFFSET 6836
#define VIDEO_METADATA_SECTION_2_PROTECTED_REGION_BYTES 3236
#define VIDEO_METADATA_SECTION_2_DISCRETIONARY_REGION_OFFSET 10072
#define VIDEO_METADATA_SECTION_2_DISCRETIONARY_REGION_BYTES 3240
// Metadata: File Format Constants - Section 3 Fields
#define METADATA_SECTION_3_OFFSET 13312
#define METADATA_SECTION_3_BYTES 3072
#define METADATA_RECORDING_TIME_OFFSET_OFFSET 13312 //si8
#define METADATA_RECORDING_TIME_OFFSET_NO_ENTRY UUTC_NO_ENTRY
#define METADATA_DST_START_TIME_OFFSET 13320 //si8
#define METADATA_DST_START_TIME_NO_ENTRY UUTC_NO_ENTRY
#define METADATA_DST_END_TIME_OFFSET 13328 //si8
#define METADATA_DST_END_TIME_NO_ENTRY UUTC_NO_ENTRY
#define METADATA_GMT_OFFSET_OFFSET 13336 //si4
#define GMT_OFFSET_NO_ENTRY -86401
#define METADATA_SUBJECT_NAME_1_OFFSET 13340 // utf8[31]
#define METADATA_SUBJECT_NAME_BYTES 128 // utf8[31]
#define METADATA_SUBJECT_NAME_2_OFFSET 13468 // utf8[31]
#define METADATA_SUBJECT_ID_OFFSET 13596 // utf8[31]
#define METADATA_SUBJECT_ID_BYTES 128 // utf8[31]
#define METADATA_RECORDING_LOCATION_OFFSET 13724 // utf8[63]
#define METADATA_RECORDING_LOCATION_BYTES 512 // utf8[127]
#define METADATA_SECTION_3_PROTECTED_REGION_OFFSET 14236
#define METADATA_SECTION_3_PROTECTED_REGION_BYTES 1124
#define METADATA_SECTION_3_DISCRETIONARY_REGION_OFFSET 15360
#define METADATA_SECTION_3_DISCRETIONARY_REGION_BYTES 1024
// Records: Header Format Constants
#define RECORD_HEADER_BYTES 24
#define RECORD_HEADER_RECORD_CRC_OFFSET 0 // ui4
#define RECORD_HEADER_RECORD_CRC_NO_ENTRY CRC_NO_ENTRY
#define RECORD_HEADER_TYPE_OFFSET 4 // ascii[4] or ui4
#define RECORD_HEADER_TYPE_NO_ENTRY 0 // as ui4
#define RECORD_HEADER_VERSION_MAJOR_OFFSET 9 // ui1
#define RECORD_HEADER_VERSION_MAJOR_NO_ENTRY 0xff
#define RECORD_HEADER_VERSION_MINOR_OFFSET 10 // ui1
#define RECORD_HEADER_VERSION_MINOR_NO_ENTRY 0xff
#define RECORD_HEADER_ENCRYPTION_OFFSET 11 // si1
#define RECORD_HEADER_BYTES_OFFSET 12 // ui4
#define RECORD_HEADER_BYTES_NO_ENTRY 0
#define RECORD_HEADER_TIME_OFFSET 16 // si8
#define RECORD_HEADER_TIME_NO_ENTRY UUTC_NO_ENTRY // si8
// Record Index: Format Constants
#define RECORD_INDEX_BYTES 24
#define RECORD_INDEX_TYPE_OFFSET 0 // ascii[4] or ui4
#define RECORD_INDEX_TYPE_NO_ENTRY 0 // as ui4
#define RECORD_INDEX_VERSION_MAJOR_OFFSET 5 // ui1
#define RECORD_INDEX_VERSION_MAJOR_NO_ENTRY 0xff
#define RECORD_INDEX_VERSION_MINOR_OFFSET 6 // ui1
#define RECORD_INDEX_VERSION_MINOR_NO_ENTRY 0xff
#define RECORD_INDEX_ENCRYPTION_OFFSET 7 // si1
#define RECORD_INDEX_FILE_OFFSET_OFFSET 8 // si8
#define RECORD_INDEX_FILE_OFFSET_NO_ENTRY -1
#define RECORD_INDEX_TIME_OFFSET 16 // si8
#define RECORD_INDEX_TIME_NO_ENTRY UUTC_NO_ENTRY
// Time Series Index: Format Constants
#define TIME_SERIES_INDEX_BYTES 56
#define TIME_SERIES_INDEX_FILE_OFFSET_OFFSET 0 // si8
#define TIME_SERIES_INDEX_FILE_OFFSET_NO_ENTRY -1
#define TIME_SERIES_INDEX_START_TIME_OFFSET 8 // si8
#define TIME_SERIES_INDEX_START_TIME_NO_ENTRY UUTC_NO_ENTRY
#define TIME_SERIES_INDEX_START_SAMPLE_OFFSET 16 // si8
#define TIME_SERIES_INDEX_START_SAMPLE_NO_ENTRY -1
#define TIME_SERIES_INDEX_NUMBER_OF_SAMPLES_OFFSET 24 // ui4
#define TIME_SERIES_INDEX_NUMBER_OF_SAMPLES_NO_ENTRY 0xFFFFFFFF
#define TIME_SERIES_INDEX_BLOCK_BYTES_OFFSET 28 // ui4
#define TIME_SERIES_INDEX_BLOCK_BYTES_NO_ENTRY 0xFFFFFFFF
#define TIME_SERIES_INDEX_MAXIMUM_SAMPLE_VALUE_OFFSET 32 // si4
#define TIME_SERIES_INDEX_MAXIMUM_SAMPLE_VALUE_NO_ENTRY RED_NAN
#define TIME_SERIES_INDEX_MINIMUM_SAMPLE_VALUE_OFFSET 36 // si4
#define TIME_SERIES_INDEX_MINIMUM_SAMPLE_VALUE_NO_ENTRY RED_NAN
#define TIME_SERIES_INDEX_PROTECTED_REGION_OFFSET 40
#define TIME_SERIES_INDEX_PROTECTED_REGION_BYTES 4
#define TIME_SERIES_INDEX_RED_BLOCK_FLAGS_OFFSET 44 // ui1
#define TIME_SERIES_INDEX_RED_BLOCK_PROTECTED_REGION_OFFSET 45
#define RED_BLOCK_PROTECTED_REGION_BYTES 3
#define TIME_SERIES_INDEX_RED_BLOCK_DISCRETIONARY_REGION_OFFSET 48
#define RED_BLOCK_DISCRETIONARY_REGION_BYTES 8
// Video Index: Format Constants
#define VIDEO_INDEX_BYTES 64
#define VIDEO_INDEX_START_TIME_OFFSET 0 // si8
#define VIDEO_INDEX_START_TIME_NO_ENTRY UUTC_NO_ENTRY
#define VIDEO_INDEX_END_TIME_OFFSET 8 // si8
#define VIDEO_INDEX_END_TIME_NO_ENTRY UUTC_NO_ENTRY
#define VIDEO_INDEX_START_FRAME_OFFSET 16 // ui4
#define VIDEO_INDEX_START_FRAME_NO_ENTRY 0xFFFFFFFF
#define VIDEO_INDEX_END_FRAME_OFFSET 20 // ui4
#define VIDEO_INDEX_END_FRAME_NO_ENTRY 0xFFFFFFFF
#define VIDEO_INDEX_FILE_OFFSET_OFFSET 24 // si8
#define VIDEO_INDEX_FILE_OFFSET_NO_ENTRY -1
#define VIDEO_INDEX_CLIP_BYTES_OFFSET 32 // si8
#define VIDEO_INDEX_CLIP_BYTES_NO_ENTRY -1
#define VIDEO_INDEX_PROTECTED_REGION_OFFSET 40
#define VIDEO_INDEX_PROTECTED_REGION_BYTES 16
#define VIDEO_INDEX_DISCRETIONARY_REGION_OFFSET 56
#define VIDEO_INDEX_DISCRETIONARY_REGION_BYTES 8
/************************************************************************************/
/************************************ MEF Macros **********************************/
/************************************************************************************/
#define ABS(x) ( ((x) >= 0) ? (x) : -(x) )
#define HEX_STRING_BYTES(x) ( ((x) + 1) * 3 )
/************************************************************************************/
/********************************** MEF Structures ********************************/
/************************************************************************************/
#pragma pack(1)
// Password Structures
typedef struct {
ui1 level_1_encryption_key[ENCRYPTION_KEY_BYTES];
ui1 level_2_encryption_key[ENCRYPTION_KEY_BYTES];
ui1 access_level;
} PASSWORD_DATA;
// Universal Header Structures
typedef struct {
ui4 header_CRC;
ui4 body_CRC;
si1 file_type_string[TYPE_BYTES];
ui1 mef_version_major;
ui1 mef_version_minor;
ui1 byte_order_code;
si8 start_time;
si8 end_time;
si8 number_of_entries;
si8 maximum_entry_size;
si4 segment_number;
si1 channel_name[MEF_BASE_FILE_NAME_BYTES]; // utf8[63], base name only, no extension
si1 session_name[MEF_BASE_FILE_NAME_BYTES]; // utf8[63], base name only, no extension
si1 anonymized_name[UNIVERSAL_HEADER_ANONYMIZED_NAME_BYTES]; // utf8[63]
ui1 level_UUID[UUID_BYTES];
ui1 file_UUID[UUID_BYTES];
ui1 provenance_UUID[UUID_BYTES];
ui1 level_1_password_validation_field[PASSWORD_VALIDATION_FIELD_BYTES];
ui1 level_2_password_validation_field[PASSWORD_VALIDATION_FIELD_BYTES];
ui1 protected_region[UNIVERSAL_HEADER_PROTECTED_REGION_BYTES];
ui1 discretionary_region[UNIVERSAL_HEADER_DISCRETIONARY_REGION_BYTES];
} UNIVERSAL_HEADER;
// Metadata Structures
typedef struct {
si1 section_2_encryption;
si1 section_3_encryption;
ui1 protected_region[METADATA_SECTION_1_PROTECTED_REGION_BYTES];
ui1 discretionary_region[METADATA_SECTION_1_DISCRETIONARY_REGION_BYTES];
} METADATA_SECTION_1;
typedef struct {
// type-independent fields
si1 channel_description[METADATA_CHANNEL_DESCRIPTION_BYTES]; // utf8[511];
si1 session_description[METADATA_SESSION_DESCRIPTION_BYTES]; // utf8[511];
si8 recording_duration;
// type-specific fields
si1 reference_description[TIME_SERIES_METADATA_REFERENCE_DESCRIPTION_BYTES]; // utf8[511];
si8 acquisition_channel_number;
sf8 sampling_frequency;
sf8 low_frequency_filter_setting;
sf8 high_frequency_filter_setting;
sf8 notch_filter_frequency_setting;
sf8 AC_line_frequency;
sf8 units_conversion_factor;
si1 units_description[TIME_SERIES_METADATA_UNITS_DESCRIPTION_BYTES]; // utf8[31]
sf8 maximum_native_sample_value;
sf8 minimum_native_sample_value;
si8 start_sample;
si8 number_of_samples;
si8 number_of_blocks;
si8 maximum_block_bytes;
ui4 maximum_block_samples;
ui4 maximum_difference_bytes;
si8 block_interval;
si8 number_of_discontinuities;
si8 maximum_contiguous_blocks;
si8 maximum_contiguous_block_bytes;
si8 maximum_contiguous_samples;
ui1 protected_region[TIME_SERIES_METADATA_SECTION_2_PROTECTED_REGION_BYTES];
ui1 discretionary_region[TIME_SERIES_METADATA_SECTION_2_DISCRETIONARY_REGION_BYTES];
} TIME_SERIES_METADATA_SECTION_2;
typedef struct {
// type-independent fields
si1 channel_description[METADATA_CHANNEL_DESCRIPTION_BYTES]; // utf8[511]
si1 session_description[METADATA_SESSION_DESCRIPTION_BYTES];
si8 recording_duration;
// type-specific fields
si8 horizontal_resolution;
si8 vertical_resolution;
sf8 frame_rate;
si8 number_of_clips;
si8 maximum_clip_bytes;
si1 video_format[VIDEO_METADATA_VIDEO_FORMAT_BYTES]; // utf8[31]
ui4 video_file_CRC;
ui1 protected_region[VIDEO_METADATA_SECTION_2_PROTECTED_REGION_BYTES];
ui1 discretionary_region[VIDEO_METADATA_SECTION_2_DISCRETIONARY_REGION_BYTES];
} VIDEO_METADATA_SECTION_2;
typedef struct {
si8 recording_time_offset;
si8 DST_start_time;
si8 DST_end_time;
si4 GMT_offset;
si1 subject_name_1[METADATA_SUBJECT_NAME_BYTES]; // utf8[31]
si1 subject_name_2[METADATA_SUBJECT_NAME_BYTES]; // utf8[31]
si1 subject_ID[METADATA_SUBJECT_ID_BYTES]; // utf8[31]
si1 recording_location[METADATA_RECORDING_LOCATION_BYTES]; // utf8[127]
ui1 protected_region[METADATA_SECTION_3_PROTECTED_REGION_BYTES];
ui1 discretionary_region[METADATA_SECTION_3_DISCRETIONARY_REGION_BYTES];
} METADATA_SECTION_3;
typedef struct {
METADATA_SECTION_1 *section_1;
TIME_SERIES_METADATA_SECTION_2 *time_series_section_2;
VIDEO_METADATA_SECTION_2 *video_section_2;
METADATA_SECTION_3 *section_3;
} METADATA;
// Record Structures
typedef struct {
ui4 record_CRC;
si1 type_string[TYPE_BYTES];
ui1 version_major;
ui1 version_minor;
si1 encryption;
ui4 bytes;
si8 time;
} RECORD_HEADER;
typedef struct {
si1 type_string[TYPE_BYTES];
ui1 version_major;
ui1 version_minor;
si1 encryption;
si8 file_offset;
si8 time;
} RECORD_INDEX;
// Block Indices Structures
typedef struct {
si8 file_offset;
si8 start_time;
si8 start_sample;
ui4 number_of_samples;
ui4 block_bytes;
si4 maximum_sample_value;
si4 minimum_sample_value;
ui1 protected_region[TIME_SERIES_INDEX_PROTECTED_REGION_BYTES];
ui1 RED_block_flags;
ui1 RED_block_protected_region[RED_BLOCK_PROTECTED_REGION_BYTES];
ui1 RED_block_discretionary_region[RED_BLOCK_DISCRETIONARY_REGION_BYTES];
} TIME_SERIES_INDEX;
// Frame Indices Structures
typedef struct {
si8 start_time;
si8 end_time;
ui4 start_frame;
ui4 end_frame;
si8 file_offset;
si8 clip_bytes;
ui1 protected_region[VIDEO_INDEX_PROTECTED_REGION_BYTES];
ui1 discretionary_region[VIDEO_INDEX_DISCRETIONARY_REGION_BYTES];
} VIDEO_INDEX;
// File Processing Structures
typedef struct {
si1 close_file;
si1 free_password_data; // when freeing FPS
si8 io_bytes; // bytes to read or write
ui4 lock_mode;
ui4 open_mode;
} FILE_PROCESSING_DIRECTIVES;
typedef struct {
si1 full_file_name[MEF_FULL_FILE_NAME_BYTES]; // full path including extension
FILE *fp;
si4 fd;
si8 file_length;
ui4 file_type_code;
UNIVERSAL_HEADER *universal_header;
FILE_PROCESSING_DIRECTIVES directives;
PASSWORD_DATA *password_data; // this will often be the same for all files
METADATA metadata;
TIME_SERIES_INDEX *time_series_indices;
VIDEO_INDEX *video_indices;
ui1 *records;
RECORD_INDEX *record_indices;
ui1 *RED_blocks;
si8 raw_data_bytes;
ui1 *raw_data;
} FILE_PROCESSING_STRUCT;
// Session, Channel, Segment Processing Structures
typedef struct {
si4 channel_type;
FILE_PROCESSING_STRUCT *metadata_fps;
FILE_PROCESSING_STRUCT *time_series_data_fps;
FILE_PROCESSING_STRUCT *time_series_indices_fps;
FILE_PROCESSING_STRUCT *video_indices_fps;
FILE_PROCESSING_STRUCT *record_data_fps;
FILE_PROCESSING_STRUCT *record_indices_fps;
si1 name[MEF_SEGMENT_BASE_FILE_NAME_BYTES]; // just base name, no extension
si1 path[MEF_FULL_FILE_NAME_BYTES]; // full path to enclosing directory (channel directory)
si1 channel_name[MEF_BASE_FILE_NAME_BYTES]; // just base name, no extension
si1 session_name[MEF_BASE_FILE_NAME_BYTES]; // just base name, no extension
ui1 level_UUID[UUID_BYTES];
} SEGMENT;
typedef struct {
si4 channel_type;
METADATA metadata;
FILE_PROCESSING_STRUCT *record_data_fps;
FILE_PROCESSING_STRUCT *record_indices_fps;
si8 number_of_segments;
SEGMENT *segments;
si1 path[MEF_FULL_FILE_NAME_BYTES]; // full path to enclosing directory (session directory)
si1 name[MEF_BASE_FILE_NAME_BYTES]; // just base name, no extension
si1 extension[TYPE_BYTES]; // channel directory extension
si1 session_name[MEF_BASE_FILE_NAME_BYTES]; // just base name, no extension
ui1 level_UUID[UUID_BYTES];
si1 anonymized_name[UNIVERSAL_HEADER_ANONYMIZED_NAME_BYTES];
// below variables refer to segments
si8 maximum_number_of_records;
si8 maximum_record_bytes;
si8 earliest_start_time;
si8 latest_end_time;
} CHANNEL;
typedef struct {
METADATA time_series_metadata;
si4 number_of_time_series_channels;
CHANNEL *time_series_channels;
METADATA video_metadata;
si4 number_of_video_channels;
CHANNEL *video_channels;
FILE_PROCESSING_STRUCT *record_data_fps;
FILE_PROCESSING_STRUCT *record_indices_fps;
si1 name[MEF_BASE_FILE_NAME_BYTES]; // just base name, no extension
si1 path[MEF_FULL_FILE_NAME_BYTES]; // full path to enclosing directory
si1 anonymized_name[UNIVERSAL_HEADER_ANONYMIZED_NAME_BYTES];
ui1 level_UUID[UUID_BYTES];
// below variables refer to channels
si8 maximum_number_of_records;
si8 maximum_record_bytes;
si8 earliest_start_time;
si8 latest_end_time;
} SESSION;
// Miscellaneous Structures
typedef struct NODE_STRUCT {
sf8 val;
si4 idx;
struct NODE_STRUCT *prev, *next;
} NODE;
#pragma pack()
/************************************************************************************/
/********************************** MEF Prototypes ********************************/
/************************************************************************************/
// Alignment Function Prototypes
si4 check_all_alignments(const si1 *function, si4 line);
si4 check_metadata_alignment(ui1 *bytes);
si4 check_metadata_section_1_alignment(ui1 *bytes);
si4 check_metadata_section_3_alignment(ui1 *bytes);
si4 check_record_header_alignment(ui1 *bytes);
si4 check_record_indices_alignment(ui1 *bytes);
si1 check_record_structure_alignments(ui1 *bytes);
si4 check_RED_block_header_alignment(ui1 *bytes);
si4 check_time_series_indices_alignment(ui1 *bytes);
si4 check_time_series_metadata_section_2_alignment(ui1 *bytes);
si4 check_universal_header_alignment(ui1 *bytes);
si4 check_video_indices_alignment(ui1 *bytes);
si4 check_video_metadata_section_2_alignment(ui1 *bytes);
// MEF Function Prototypes
si1 all_zeros(ui1 *bytes, si4 field_length);
FILE_PROCESSING_STRUCT *allocate_file_processing_struct(si8 raw_data_bytes, ui4 file_type_code, FILE_PROCESSING_DIRECTIVES *directives, FILE_PROCESSING_STRUCT *proto_fps, si8 bytes_to_copy);
void apply_recording_time_offset(si8 *time);
si4 check_password(si1 *password, const si1 *function, si4 line);
si4 compare_sf8(const void *a, const void * b);
ui1 cpu_endianness(void);
si4 decrypt_metadata(FILE_PROCESSING_STRUCT *fps);
si4 decrypt_records(FILE_PROCESSING_STRUCT *fps);
si4 encrypt_metadata(FILE_PROCESSING_STRUCT *fps);
si4 encrypt_records(FILE_PROCESSING_STRUCT *fps);
si4 extract_path_parts(si1 *full_file_name, si1 *path, si1 *name, si1 *extension);
void extract_terminal_password_bytes(si1 *password, si1 *password_bytes);
void fill_empty_password_bytes(si1 *password_bytes);
si8 *find_discontinuity_indices(TIME_SERIES_INDEX *tsi, si8 num_disconts, si8 number_of_blocks);
si8 *find_discontinuity_samples(TIME_SERIES_INDEX *tsi, si8 num_disconts, si8 number_of_blocks, si1 add_tail);
void force_behavior(ui4 behavior);
void fps_close(FILE_PROCESSING_STRUCT *fps);
si4 fps_lock(FILE_PROCESSING_STRUCT *fps, si4 lock_type, const si1 *function, si4 line, ui4 behavior_on_fail);
si4 fps_open(FILE_PROCESSING_STRUCT *fps, const si1 *function, si4 line, ui4 behavior_on_fail);
si4 fps_read(FILE_PROCESSING_STRUCT *fps, const si1 *function, si4 line, ui4 behavior_on_fail);
si4 fps_unlock(FILE_PROCESSING_STRUCT *fps, const si1 *function, si4 line, ui4 behavior_on_fail);
si4 fps_write(FILE_PROCESSING_STRUCT *fps, const si1 *function, si4 line, ui4 behavior_on_fail);
void free_channel(CHANNEL *channel, si4 free_channel_structure);
void free_file_processing_struct(FILE_PROCESSING_STRUCT *fps);
void free_segment(SEGMENT *segment, si4 free_segment_structure);
void free_session(SESSION *session, si4 free_session_structure);
si1 **generate_file_list(si1 **file_list, si4 *num_files, si1 *enclosing_directory, si1 *extension);
si1 *generate_hex_string(ui1 *bytes, si4 num_bytes, si1 *string);
si8 generate_recording_time_offset(si8 recording_start_time_uutc, si4 GMT_offset);
si1 *generate_segment_name(FILE_PROCESSING_STRUCT *fps, si1 *segment_name);
ui1 *generate_UUID(ui1 *uuid);
FILE_PROCESSING_DIRECTIVES *initialize_file_processing_directives(FILE_PROCESSING_DIRECTIVES *directives);
void initialize_MEF_globals(void);
si4 initialize_meflib(void);
void free_meflib(void);
si4 initialize_metadata(FILE_PROCESSING_STRUCT *fps);
si4 initialize_universal_header(FILE_PROCESSING_STRUCT *fps, si1 generate_level_UUID, si1 generate_file_UUID, si1 originating_file);
si1 *local_date_time_string(si8 uutc_time, si1 *time_str);
si8 MEF_pad(ui1 *buffer, si8 content_len, ui4 alignment);
si4 MEF_sprintf(si1 *target, si1 *format, ...);
void MEF_snprintf(si1 *target, si4 target_field_bytes, si1 *format, ...);
si4 MEF_strcat(si1 *target_string, si1 *source_string);
si4 MEF_strcpy(si1 *target_string, si1 *source_string);
void MEF_strncat(si1 *target_string, si1 *source_string, si4 target_field_bytes);
void MEF_strncpy(si1 *target_string, si1 *source_string, si4 target_field_bytes);
si1 *numerical_fixed_width_string(si1 *string, si4 string_bytes, si4 number);
si4 offset_record_index_times(FILE_PROCESSING_STRUCT *fps, si4 action);
si4 offset_time_series_index_times(FILE_PROCESSING_STRUCT *fps, si4 action);
si4 offset_universal_header_times(FILE_PROCESSING_STRUCT *fps, si4 action);
si4 offset_video_index_times(FILE_PROCESSING_STRUCT *fps, si4 action);
PASSWORD_DATA *process_password_data(si1 *unspecified_password, si1 *level_1_password, si1 *level_2_password, UNIVERSAL_HEADER *universal_header);
void proportion_filt(sf8 *x, sf8 *px, si8 len, sf8 prop, si4 span);
ui1 random_byte(ui4 *m_w, ui4 *m_z);
CHANNEL *read_MEF_channel(CHANNEL *channel, si1 *chan_path, si4 channel_type, si1 *password, PASSWORD_DATA *password_data, si1 read_time_series_data, si1 read_record_data);
FILE_PROCESSING_STRUCT *read_MEF_file(FILE_PROCESSING_STRUCT *fps, si1 *file_name, si1 *password, PASSWORD_DATA *password_data, FILE_PROCESSING_DIRECTIVES *directives, ui4 behavior_on_fail);
SEGMENT *read_MEF_segment(SEGMENT *segment, si1 *seg_path, si4 channel_type, si1 *password, PASSWORD_DATA *password_data, si1 read_time_series_data, si1 read_record_data);
SESSION *read_MEF_session(SESSION *session, si1 *sess_path, si1 *password, PASSWORD_DATA *password_data, si1 read_time_series_data, si1 read_record_data);
si4 reallocate_file_processing_struct(FILE_PROCESSING_STRUCT *fps, si8 raw_data_bytes);
si4 remove_line_noise(si4 *data, si8 n_samps, sf8 sampling_frequency, sf8 line_frequency, sf8 *template_array);
void remove_line_noise_adaptive(si4 *data, si8 n_samps, sf8 sampling_frequency, sf8 line_frequency, si4 n_cycles);
void remove_recording_time_offset(si8 *time);
void show_file_processing_struct(FILE_PROCESSING_STRUCT *fps);
void show_metadata(FILE_PROCESSING_STRUCT *fps);
void show_password_data(FILE_PROCESSING_STRUCT *fps);
void show_record(RECORD_HEADER *record_header, ui4 record_number, PASSWORD_DATA *pwd);
void show_records(FILE_PROCESSING_STRUCT *fps);
void show_universal_header(FILE_PROCESSING_STRUCT *fps);
si4 sort_by_idx(const void *n1, const void *n2);
si4 sort_by_val(const void *n1, const void *n2);
sf8 val_equals_prop(NODE *curr_node, NODE *prop_node);
si4 write_MEF_file(FILE_PROCESSING_STRUCT *fps);
#ifdef _WIN32
void slash_to_backslash(si1*);
#endif
/************************************************************************************/
/************************************** FILTER ************************************/
/************************************************************************************/
// ATTRIBUTION
//
// Some of the filter code was adapted from Matlab functions.
// www.mathworks.com
//
// The c code was written entirely from scratch.
//
// NOTE: This code requres long double (sf16) math.
// It often requires an explicit compiler instruction to implement true long floating point math.
// in icc: "-Qoption,cpp,--extended_float_type"
// Constants
#define FILT_LOWPASS_TYPE 1
#define FILT_BANDPASS_TYPE 2
#define FILT_HIGHPASS_TYPE 3
#define FILT_BANDSTOP_TYPE 4
#define FILT_TYPE_DEFAULT FILT_LOWPASS_TYPE
#define FILT_ORDER_DEFAULT 5
#define FILT_MAX_ORDER 10
#define FILT_BAD_FILTER -1
#define FILT_BAD_DATA -2
#define FILT_EPS_SF8 2.22045e-16
#define FILT_EPS_SF16 1.0842e-19
#define FILT_RADIX 2
#define FILT_ZERO ((sf16) 0.0)
#define FILT_ONE ((sf16) 1.0)
// Macros
#define FILT_ABS(x) ((x) >= FILT_ZERO ? (x) : (-x))
#define FILT_SIGN(x, y) ((y) >= FILT_ZERO ? FILT_ABS(x) : -FILT_ABS(x))
// Typedefs & Structures
typedef struct {
si4 order;
si4 poles;
si4 type;
sf8 sampling_frequency;
si8 data_length;
sf8 cutoffs[2];
sf8 *numerators;
sf8 *denominators;
sf8 *initial_conditions;