diff options
author | Picca Frédéric-Emmanuel <picca@synchrotron-soleil.fr> | 2017-08-18 14:48:52 +0200 |
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committer | Picca Frédéric-Emmanuel <picca@synchrotron-soleil.fr> | 2017-08-18 14:48:52 +0200 |
commit | f7bdc2acff3c13a6d632c28c4569690ab106eed7 (patch) | |
tree | 9d67cdb7152ee4e711379e03fe0546c7c3b97303 /silx/io/specfile |
Import Upstream version 0.5.0+dfsg
Diffstat (limited to 'silx/io/specfile')
-rw-r--r-- | silx/io/specfile/include/Lists.h | 51 | ||||
-rw-r--r-- | silx/io/specfile/include/SpecFile.h | 291 | ||||
-rw-r--r-- | silx/io/specfile/include/SpecFileCython.h | 28 | ||||
-rw-r--r-- | silx/io/specfile/include/SpecFileP.h | 74 | ||||
-rw-r--r-- | silx/io/specfile/include/locale_management.h | 23 | ||||
-rw-r--r-- | silx/io/specfile/specfile.c | 21782 | ||||
-rw-r--r-- | silx/io/specfile/specfile.pyx | 1273 | ||||
-rw-r--r-- | silx/io/specfile/specfile_wrapper.pxd | 77 | ||||
-rw-r--r-- | silx/io/specfile/src/locale_management.c | 64 | ||||
-rw-r--r-- | silx/io/specfile/src/sfdata.c | 775 | ||||
-rw-r--r-- | silx/io/specfile/src/sfheader.c | 787 | ||||
-rw-r--r-- | silx/io/specfile/src/sfindex.c | 551 | ||||
-rw-r--r-- | silx/io/specfile/src/sfinit.c | 827 | ||||
-rw-r--r-- | silx/io/specfile/src/sflabel.c | 649 | ||||
-rw-r--r-- | silx/io/specfile/src/sflists.c | 184 | ||||
-rw-r--r-- | silx/io/specfile/src/sfmca.c | 336 | ||||
-rw-r--r-- | silx/io/specfile/src/sftools.c | 550 | ||||
-rw-r--r-- | silx/io/specfile/src/sfwrite.c | 587 |
18 files changed, 28909 insertions, 0 deletions
diff --git a/silx/io/specfile/include/Lists.h b/silx/io/specfile/include/Lists.h new file mode 100644 index 0000000..bcda100 --- /dev/null +++ b/silx/io/specfile/include/Lists.h @@ -0,0 +1,51 @@ +#/*########################################################################## +# Copyright (C) 2004-2013 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/*************************************************************************** + * + * File: Lists.h + * + * Description: Include file for dealing with lists. + * + * Author: Vicente Rey + * + * Created: 22 May 1995 + * + * (copyright by E.S.R.F. March 1995) + * + ***************************************************************************/ +#ifndef LISTS_H +#define LISTS_H + +/* #include <malloc.h> */ + +typedef struct _ObjectList { + struct _ObjectList *next; + struct _ObjectList *prev; + void *contents; +} ObjectList; + +typedef struct _ListHeader { + struct _ObjectList *first; + struct _ObjectList *last; +} ListHeader; + +extern ObjectList * findInList ( ListHeader *list, int (*proc)(void *,void *), void *value ); +extern long addToList ( ListHeader *list, void *object,long size); +extern void unlinkFromList ( ListHeader *list, ObjectList *element); + +#endif /* LISTS_H */ diff --git a/silx/io/specfile/include/SpecFile.h b/silx/io/specfile/include/SpecFile.h new file mode 100644 index 0000000..fce729c --- /dev/null +++ b/silx/io/specfile/include/SpecFile.h @@ -0,0 +1,291 @@ +#/*########################################################################## +# Copyright (C) 2004-2013 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/*************************************************************************** + * + * File: SpecFile.h + * + * Description: Include file for treating spec data files. + * + * Author: Vicente Rey + * + * Created: 2 March 1995 + * + * (copyright by E.S.R.F. March 1995) + * + ***************************************************************************/ +#ifndef SPECFILE_H +#define SPECFILE_H + +#include <math.h> +#include <stdio.h> +#include <fcntl.h> + +#include <time.h> +#include <stdlib.h> +/* #include <malloc.h> */ +#include <string.h> +#include <Lists.h> + +#ifdef _WINDOWS /* compiling on windows */ +#include <windows.h> +#include <io.h> +#define SF_OPENFLAG O_RDONLY | O_BINARY +#define SF_WRITEFLAG O_CREAT | O_WRONLY +#define SF_UMASK 0666 +#else /* if not windows */ +#define SF_OPENFLAG O_RDONLY +#define SF_WRITEFLAG O_CREAT | O_WRONLY +#define SF_UMASK 0666 +#endif + +#ifdef _GENLIB /* for windows dll generation */ +#define DllExport __declspec (dllexport) +#else +#define DllExport +#endif + + +#ifdef SUN4 +#define SEEK_SET 0 +#define SEEK_CUR 1 +#define SEEK_END 2 +#endif + +/* + * Defines. + */ +#define ROW 0 /* data_info index for no. of data rows */ +#define COL 1 /* data_info index for no. of data columns*/ +#define REG 2 /* data_info index for regular */ +#define H 0 +#define K 1 +#define L 2 +#define ABORTED -1 +#define NOT_ABORTED 0 + +#define SF_ERR_NO_ERRORS 0 +#define SF_ERR_MEMORY_ALLOC 1 +#define SF_ERR_FILE_OPEN 2 +#define SF_ERR_FILE_CLOSE 3 +#define SF_ERR_FILE_READ 4 +#define SF_ERR_FILE_WRITE 5 +#define SF_ERR_LINE_NOT_FOUND 6 +#define SF_ERR_SCAN_NOT_FOUND 7 +#define SF_ERR_HEADER_NOT_FOUND 8 +#define SF_ERR_LABEL_NOT_FOUND 9 +#define SF_ERR_MOTOR_NOT_FOUND 10 +#define SF_ERR_POSITION_NOT_FOUND 11 +#define SF_ERR_LINE_EMPTY 12 +#define SF_ERR_USER_NOT_FOUND 13 +#define SF_ERR_COL_NOT_FOUND 14 +#define SF_ERR_MCA_NOT_FOUND 15 + +typedef struct _SfCursor { + long int scanno; /* nb of scans */ + long int cursor; /* beginning of current scan */ + long int hdafoffset; /* global offset of header after beginning of data */ + long int datalines; /* contains nb of data lines */ + long int dataoffset; /* contains data offset from begin of scan */ + long int mcaspectra; /* contains nb of mca spectra in scan */ + long int bytecnt; /* total file byte count */ + long int what; /* scan of file block */ + long int data; /* data flag */ + long int file_header; /* address of file header for this scan */ + long int fileh_size; /* size of it */ +} SfCursor; + + +typedef struct _SpecFile{ + int fd; + long m_time; + char *sfname; + struct _ListHeader list; + long int no_scans; + ObjectList *current; + char *scanbuffer; + long scanheadersize; + char *filebuffer; + long filebuffersize; + long scansize; + char **labels; + long int no_labels; + char **motor_names; + long int no_motor_names; + double *motor_pos; + long int no_motor_pos; + double **data; + long *data_info; + SfCursor cursor; + short updating; +} SpecFile; + +typedef struct _SpecFileOut{ + SpecFile *sf; + long *list; + long list_size; + long file_header; +} SpecFileOut; + +typedef struct _SpecScan { + long int index; + long int scan_no; + long int order; + long int offset; + long int size; + long int last; + long int file_header; + long int data_offset; + long int hdafter_offset; + long int mcaspectra; +} SpecScan; + +/* + * Function declarations. + */ + + /* + * Init + */ +/* + * init + */ +DllExport extern SpecFile *SfOpen ( char *name, int *error ); +DllExport extern short SfUpdate ( SpecFile *sf,int *error ); +DllExport extern int SfClose ( SpecFile *sf ); + +/* + * indexes + */ +DllExport extern long SfScanNo ( SpecFile *sf ); +DllExport extern long *SfList ( SpecFile *sf, int *error ); +DllExport extern long SfCondList ( SpecFile *sf, long cond, + long **scan_list, int *error ); +DllExport extern long SfIndex ( SpecFile *sf, long number, + long order ); +DllExport extern long SfIndexes ( SpecFile *sf, long number, + long **indexlist ); +DllExport extern long SfNumber ( SpecFile *sf, long index ); +DllExport extern long SfOrder ( SpecFile *sf, long index ); +DllExport extern int SfNumberOrder ( SpecFile *sf, long index, + long *number, long *order ); + + /* + * Header + */ +DllExport extern char *SfCommand ( SpecFile *sf, long index, int *error ); +DllExport extern long SfNoColumns ( SpecFile *sf, long index, int *error ); +DllExport extern char *SfDate ( SpecFile *sf, long index, int *error ); +DllExport extern long SfEpoch ( SpecFile *sf, long index, int *error ); +DllExport extern long SfNoHeaderBefore ( SpecFile *sf, long index, int *error ); +DllExport extern double *SfHKL ( SpecFile *sf, long index, int *error ); +DllExport extern long SfHeader ( SpecFile *sf, long index, char *string, + char ***lines, int *error ); +DllExport extern long SfGeometry ( SpecFile *sf, long index, + char ***lines, int *error ); +DllExport extern long SfFileHeader ( SpecFile *sf, long index, char *string, + char ***lines, int *error ); +DllExport extern char *SfFileDate ( SpecFile *sf, long index, int *error ); +DllExport extern char *SfUser ( SpecFile *sf, long index, int *error ); +DllExport extern char *SfTitle ( SpecFile *sf, long index, int *error ); + + /* + * Labels + */ +DllExport extern long SfAllLabels ( SpecFile *sf, long index, + char ***labels, int *error ); +DllExport extern char *SfLabel ( SpecFile *sf, long index, long column, + int *error ); + + /* + * Motors + */ +DllExport extern long SfAllMotors ( SpecFile *sf, long index, + char ***names, int *error ); +DllExport extern char * SfMotor ( SpecFile *sf, long index, + long number, int *error ); +DllExport extern long SfAllMotorPos ( SpecFile *sf, long index, + double **pos, int *error ); +DllExport extern double SfMotorPos ( SpecFile *sf, long index, + long number, int *error ); +DllExport extern double SfMotorPosByName ( SpecFile *sf, long index, + char *name, int *error ); + + /* + * Data + */ +DllExport extern long SfNoDataLines ( SpecFile *sf, long index, int *error ); +DllExport extern int SfData ( SpecFile *sf, long index, + double ***data, long **data_info, int *error ); +DllExport extern long SfDataAsString ( SpecFile *sf, long index, + char ***data, int *error ); +DllExport extern long SfDataLine ( SpecFile *sf, long index, long line, + double **data_line, int *error ); +DllExport extern long SfDataCol ( SpecFile *sf, long index, long col, + double **data_col, int *error ); +DllExport extern long SfDataColByName ( SpecFile *sf, long index, + char *label, double **data_col, int *error ); + + /* + * MCA functions + */ +DllExport extern long SfNoMca ( SpecFile *sf, long index, int *error ); +DllExport extern int SfGetMca ( SpecFile *sf, long index, long mcano, + double **retdata, int *error ); +DllExport extern long SfMcaCalib ( SpecFile *sf, long index, double **calib, + int *error ); + + /* + * Write and write related functions + */ +DllExport extern SpecFileOut *SfoInit ( SpecFile *sf, int *error ); +DllExport extern void SfoClose ( SpecFileOut *sfo ); +DllExport extern long SfoSelectAll ( SpecFileOut *sfo, int *error ); +DllExport extern long SfoSelectOne ( SpecFileOut *sfo, long index, + int *error ); +DllExport extern long SfoSelect ( SpecFileOut *sfo, long *list, + int *error ); +DllExport extern long SfoSelectRange ( SpecFileOut *sfo, long begin, + long end, int *error ); +DllExport extern long SfoRemoveOne ( SpecFileOut *sfo, long index, + int *error ); +DllExport extern long SfoRemove ( SpecFileOut *sfo, long *list, + int *error ); +DllExport extern long SfoRemoveRange ( SpecFileOut *sfo, long begin, + long end, int *error ); +DllExport extern long SfoRemoveAll ( SpecFileOut *sfo, int *error ); +DllExport extern long SfoWrite ( SpecFileOut *sfo, char *name, + int *error ); +DllExport extern long SfoGetList ( SpecFileOut *sfo, long **list, + int *error ); + /* + * Memory free functions + */ +DllExport extern void freeArrNZ ( void ***ptr, long no_lines ); +DllExport extern void freePtr ( void *ptr ); + + /* + * Sf Tools + */ +DllExport extern void SfShow ( SpecFile *sf ); +DllExport extern void SfShowScan ( SpecFile *sf ,long index); + /* + * Error + */ +DllExport extern char *SfError ( int code ); + +#endif /* SPECFILE_H */ diff --git a/silx/io/specfile/include/SpecFileCython.h b/silx/io/specfile/include/SpecFileCython.h new file mode 100644 index 0000000..3225e13 --- /dev/null +++ b/silx/io/specfile/include/SpecFileCython.h @@ -0,0 +1,28 @@ +#/*########################################################################## +# coding: utf-8 +# Copyright (C) 2016 European Synchrotron Radiation Facility +# +# Permission is hereby granted, free of charge, to any person obtaining a copy +# of this software and associated documentation files (the "Software"), to deal +# in the Software without restriction, including without limitation the rights +# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell +# copies of the Software, and to permit persons to whom the Software is +# furnished to do so, subject to the following conditions: +# +# The above copyright notice and this permission notice shall be included in +# all copies or substantial portions of the Software. +# +# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER +# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, +# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN +# THE SOFTWARE. +# +#############################################################################*/ + +/* The original SpecFile.h has a `#define L 2` directive + that breaks cython lists and memory views. */ +#include "SpecFile.h" +#undef L diff --git a/silx/io/specfile/include/SpecFileP.h b/silx/io/specfile/include/SpecFileP.h new file mode 100644 index 0000000..de9904d --- /dev/null +++ b/silx/io/specfile/include/SpecFileP.h @@ -0,0 +1,74 @@ +#/*########################################################################## +# Copyright (C) 2004-2013 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/*************************************************************************** + * + * File: SpecFileP.h + * + * Description: Include file for treating spec data files. + * + * Author: Vicente Rey + * + * Created: 2 March 1995 + * + * (copyright by E.S.R.F. March 1995) + * + ***************************************************************************/ +#ifndef SPECFILE_P_H +#define SPECFILE_P_H + +/* + * Defines. + */ +#define FILE_HEADER 0 +#define SCAN 1 + +#define FROM_SCAN 0 +#define FROM_FILE 1 + +#define SF_COMMENT 'C' +#define SF_DATE 'D' +#define SF_EPOCH 'E' +#define SF_FILE_NAME 'F' +#define SF_GEOMETRY 'G' +#define SF_INTENSITY 'I' +#define SF_LABEL 'L' +#define SF_MON_NORM 'M' +#define SF_COLUMNS 'N' +#define SF_MOTOR_NAMES 'O' +#define SF_MOTOR_POSITIONS 'P' +#define SF_RECIP_SPACE 'Q' +#define SF_RESULTS 'R' +#define SF_SCAN_NUM 'S' +#define SF_TIME_NORM 'T' +#define SF_USER_DEFINED 'U' +#define SF_TEMPERATURE 'X' +#define SF_MCA_DATA '@' + +/* + * Library internal functions + */ +extern int sfSetCurrent ( SpecFile *sf, long index, int *error); +extern ObjectList *findScanByIndex ( ListHeader *list, long index ); +extern ObjectList *findScanByNo ( ListHeader *list, long scan_no, long order ); +extern void freeArr ( void ***ptr, long lines ); +extern void freeAllData ( SpecFile *sf ); +extern long mulstrtod ( char *str, double **arr, int *error ); +extern int sfGetHeaderLine ( SpecFile *sf, int from, char character, + char **buf,int *error); + +#endif /* SPECFILE_P_H */ diff --git a/silx/io/specfile/include/locale_management.h b/silx/io/specfile/include/locale_management.h new file mode 100644 index 0000000..d3b9f51 --- /dev/null +++ b/silx/io/specfile/include/locale_management.h @@ -0,0 +1,23 @@ +#/*########################################################################## +# Copyright (C) 2012-2013 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +#ifndef PyMca_LOCALE_MANAGEMENT_H +#define PyMca_LOCALE_MANAGEMENT_H + +double PyMcaAtof(const char*); + +#endif diff --git a/silx/io/specfile/specfile.c b/silx/io/specfile/specfile.c new file mode 100644 index 0000000..17e3eb2 --- /dev/null +++ b/silx/io/specfile/specfile.c @@ -0,0 +1,21782 @@ +/* Generated by Cython 0.21.1 */ + +#define PY_SSIZE_T_CLEAN +#ifndef CYTHON_USE_PYLONG_INTERNALS +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 0 +#else +#include "pyconfig.h" +#ifdef PYLONG_BITS_IN_DIGIT +#define CYTHON_USE_PYLONG_INTERNALS 1 +#else +#define CYTHON_USE_PYLONG_INTERNALS 0 +#endif +#endif +#endif +#include "Python.h" +#ifndef Py_PYTHON_H + #error Python headers needed to compile C extensions, please install development version of Python. +#elif PY_VERSION_HEX < 0x02060000 || (0x03000000 <= PY_VERSION_HEX && PY_VERSION_HEX < 0x03020000) + #error Cython requires Python 2.6+ or Python 3.2+. +#else +#define CYTHON_ABI "0_21_1" +#include <stddef.h> +#ifndef offsetof +#define offsetof(type, member) ( (size_t) & ((type*)0) -> member ) +#endif +#if !defined(WIN32) && !defined(MS_WINDOWS) + #ifndef __stdcall + #define __stdcall + #endif + #ifndef __cdecl + #define __cdecl + #endif + #ifndef __fastcall + #define __fastcall + #endif +#endif +#ifndef DL_IMPORT + #define DL_IMPORT(t) t +#endif +#ifndef DL_EXPORT + #define DL_EXPORT(t) t +#endif +#ifndef PY_LONG_LONG + #define PY_LONG_LONG LONG_LONG +#endif +#ifndef Py_HUGE_VAL + #define Py_HUGE_VAL HUGE_VAL +#endif +#ifdef PYPY_VERSION +#define CYTHON_COMPILING_IN_PYPY 1 +#define CYTHON_COMPILING_IN_CPYTHON 0 +#else +#define CYTHON_COMPILING_IN_PYPY 0 +#define CYTHON_COMPILING_IN_CPYTHON 1 +#endif +#if CYTHON_COMPILING_IN_PYPY && PY_VERSION_HEX < 0x02070600 +#define Py_OptimizeFlag 0 +#endif +#define __PYX_BUILD_PY_SSIZE_T "n" +#define CYTHON_FORMAT_SSIZE_T "z" +#if PY_MAJOR_VERSION < 3 + #define __Pyx_BUILTIN_MODULE_NAME "__builtin__" + #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ + PyCode_New(a+k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyClass_Type +#else + #define __Pyx_BUILTIN_MODULE_NAME "builtins" + #define __Pyx_PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) \ + PyCode_New(a, k, l, s, f, code, c, n, v, fv, cell, fn, name, fline, lnos) + #define __Pyx_DefaultClassType PyType_Type +#endif +#if PY_MAJOR_VERSION >= 3 + #define Py_TPFLAGS_CHECKTYPES 0 + #define Py_TPFLAGS_HAVE_INDEX 0 + #define Py_TPFLAGS_HAVE_NEWBUFFER 0 +#endif +#if PY_VERSION_HEX < 0x030400a1 && !defined(Py_TPFLAGS_HAVE_FINALIZE) + #define Py_TPFLAGS_HAVE_FINALIZE 0 +#endif +#if PY_VERSION_HEX > 0x03030000 && defined(PyUnicode_KIND) + #define CYTHON_PEP393_ENABLED 1 + #define __Pyx_PyUnicode_READY(op) (likely(PyUnicode_IS_READY(op)) ? \ + 0 : _PyUnicode_Ready((PyObject *)(op))) + #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_LENGTH(u) + #define __Pyx_PyUnicode_READ_CHAR(u, i) PyUnicode_READ_CHAR(u, i) + #define __Pyx_PyUnicode_KIND(u) PyUnicode_KIND(u) + #define __Pyx_PyUnicode_DATA(u) PyUnicode_DATA(u) + #define __Pyx_PyUnicode_READ(k, d, i) PyUnicode_READ(k, d, i) +#else + #define CYTHON_PEP393_ENABLED 0 + #define __Pyx_PyUnicode_READY(op) (0) + #define __Pyx_PyUnicode_GET_LENGTH(u) PyUnicode_GET_SIZE(u) + #define __Pyx_PyUnicode_READ_CHAR(u, i) ((Py_UCS4)(PyUnicode_AS_UNICODE(u)[i])) + #define __Pyx_PyUnicode_KIND(u) (sizeof(Py_UNICODE)) + #define __Pyx_PyUnicode_DATA(u) ((void*)PyUnicode_AS_UNICODE(u)) + #define __Pyx_PyUnicode_READ(k, d, i) ((void)(k), (Py_UCS4)(((Py_UNICODE*)d)[i])) +#endif +#if CYTHON_COMPILING_IN_PYPY + #define __Pyx_PyUnicode_Concat(a, b) PyNumber_Add(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) PyNumber_Add(a, b) + #define __Pyx_PyFrozenSet_Size(s) PyObject_Size(s) +#else + #define __Pyx_PyUnicode_Concat(a, b) PyUnicode_Concat(a, b) + #define __Pyx_PyUnicode_ConcatSafe(a, b) ((unlikely((a) == Py_None) || unlikely((b) == Py_None)) ? \ + PyNumber_Add(a, b) : __Pyx_PyUnicode_Concat(a, b)) + #define __Pyx_PyFrozenSet_Size(s) PySet_Size(s) +#endif +#define __Pyx_PyString_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : __Pyx_PyString_Format(a, b)) +#define __Pyx_PyUnicode_FormatSafe(a, b) ((unlikely((a) == Py_None)) ? PyNumber_Remainder(a, b) : PyUnicode_Format(a, b)) +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyString_Format(a, b) PyUnicode_Format(a, b) +#else + #define __Pyx_PyString_Format(a, b) PyString_Format(a, b) +#endif +#if PY_MAJOR_VERSION >= 3 + #define PyBaseString_Type PyUnicode_Type + #define PyStringObject PyUnicodeObject + #define PyString_Type PyUnicode_Type + #define PyString_Check PyUnicode_Check + #define PyString_CheckExact PyUnicode_CheckExact +#endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyBaseString_Check(obj) PyUnicode_Check(obj) + #define __Pyx_PyBaseString_CheckExact(obj) PyUnicode_CheckExact(obj) +#else + #define __Pyx_PyBaseString_Check(obj) (PyString_Check(obj) || PyUnicode_Check(obj)) + #define __Pyx_PyBaseString_CheckExact(obj) (PyString_CheckExact(obj) || PyUnicode_CheckExact(obj)) +#endif +#ifndef PySet_CheckExact + #define PySet_CheckExact(obj) (Py_TYPE(obj) == &PySet_Type) +#endif +#define __Pyx_TypeCheck(obj, type) PyObject_TypeCheck(obj, (PyTypeObject *)type) +#if PY_MAJOR_VERSION >= 3 + #define PyIntObject PyLongObject + #define PyInt_Type PyLong_Type + #define PyInt_Check(op) PyLong_Check(op) + #define PyInt_CheckExact(op) PyLong_CheckExact(op) + #define PyInt_FromString PyLong_FromString + #define PyInt_FromUnicode PyLong_FromUnicode + #define PyInt_FromLong PyLong_FromLong + #define PyInt_FromSize_t PyLong_FromSize_t + #define PyInt_FromSsize_t PyLong_FromSsize_t + #define PyInt_AsLong PyLong_AsLong + #define PyInt_AS_LONG PyLong_AS_LONG + #define PyInt_AsSsize_t PyLong_AsSsize_t + #define PyInt_AsUnsignedLongMask PyLong_AsUnsignedLongMask + #define PyInt_AsUnsignedLongLongMask PyLong_AsUnsignedLongLongMask + #define PyNumber_Int PyNumber_Long +#endif +#if PY_MAJOR_VERSION >= 3 + #define PyBoolObject PyLongObject +#endif +#if PY_MAJOR_VERSION >= 3 && CYTHON_COMPILING_IN_PYPY + #ifndef PyUnicode_InternFromString + #define PyUnicode_InternFromString(s) PyUnicode_FromString(s) + #endif +#endif +#if PY_VERSION_HEX < 0x030200A4 + typedef long Py_hash_t; + #define __Pyx_PyInt_FromHash_t PyInt_FromLong + #define __Pyx_PyInt_AsHash_t PyInt_AsLong +#else + #define __Pyx_PyInt_FromHash_t PyInt_FromSsize_t + #define __Pyx_PyInt_AsHash_t PyInt_AsSsize_t +#endif +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyMethod_New(func, self, klass) ((self) ? PyMethod_New(func, self) : PyInstanceMethod_New(func)) +#else + #define __Pyx_PyMethod_New(func, self, klass) PyMethod_New(func, self, klass) +#endif +#ifndef CYTHON_INLINE + #if defined(__GNUC__) + #define CYTHON_INLINE __inline__ + #elif defined(_MSC_VER) + #define CYTHON_INLINE __inline + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_INLINE inline + #else + #define CYTHON_INLINE + #endif +#endif +#ifndef CYTHON_RESTRICT + #if defined(__GNUC__) + #define CYTHON_RESTRICT __restrict__ + #elif defined(_MSC_VER) && _MSC_VER >= 1400 + #define CYTHON_RESTRICT __restrict + #elif defined (__STDC_VERSION__) && __STDC_VERSION__ >= 199901L + #define CYTHON_RESTRICT restrict + #else + #define CYTHON_RESTRICT + #endif +#endif +#ifdef NAN +#define __PYX_NAN() ((float) NAN) +#else +static CYTHON_INLINE float __PYX_NAN() { + /* Initialize NaN. The sign is irrelevant, an exponent with all bits 1 and + a nonzero mantissa means NaN. If the first bit in the mantissa is 1, it is + a quiet NaN. */ + float value; + memset(&value, 0xFF, sizeof(value)); + return value; +} +#endif +#ifdef __cplusplus +template<typename T> +void __Pyx_call_destructor(T* x) { + x->~T(); +} +#endif + + +#if PY_MAJOR_VERSION >= 3 + #define __Pyx_PyNumber_Divide(x,y) PyNumber_TrueDivide(x,y) + #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceTrueDivide(x,y) +#else + #define __Pyx_PyNumber_Divide(x,y) PyNumber_Divide(x,y) + #define __Pyx_PyNumber_InPlaceDivide(x,y) PyNumber_InPlaceDivide(x,y) +#endif + +#ifndef __PYX_EXTERN_C + #ifdef __cplusplus + #define __PYX_EXTERN_C extern "C" + #else + #define __PYX_EXTERN_C extern + #endif +#endif + +#if defined(WIN32) || defined(MS_WINDOWS) +#define _USE_MATH_DEFINES +#endif +#include <math.h> +#define __PYX_HAVE__specfile +#define __PYX_HAVE_API__specfile +#include "string.h" +#include "stdio.h" +#include "stdlib.h" +#include "numpy/arrayobject.h" +#include "numpy/ufuncobject.h" +#include "SpecFileCython.h" +#ifdef _OPENMP +#include <omp.h> +#endif /* _OPENMP */ + +#ifdef PYREX_WITHOUT_ASSERTIONS +#define CYTHON_WITHOUT_ASSERTIONS +#endif + +#ifndef CYTHON_UNUSED +# if defined(__GNUC__) +# if !(defined(__cplusplus)) || (__GNUC__ > 3 || (__GNUC__ == 3 && __GNUC_MINOR__ >= 4)) +# define CYTHON_UNUSED __attribute__ ((__unused__)) +# else +# define CYTHON_UNUSED +# endif +# elif defined(__ICC) || (defined(__INTEL_COMPILER) && !defined(_MSC_VER)) +# define CYTHON_UNUSED __attribute__ ((__unused__)) +# else +# define CYTHON_UNUSED +# endif +#endif +typedef struct {PyObject **p; char *s; const Py_ssize_t n; const char* encoding; + const char is_unicode; const char is_str; const char intern; } __Pyx_StringTabEntry; + +#define __PYX_DEFAULT_STRING_ENCODING_IS_ASCII 0 +#define __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT 0 +#define __PYX_DEFAULT_STRING_ENCODING "" +#define __Pyx_PyObject_FromString __Pyx_PyBytes_FromString +#define __Pyx_PyObject_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#define __Pyx_fits_Py_ssize_t(v, type, is_signed) ( \ + (sizeof(type) < sizeof(Py_ssize_t)) || \ + (sizeof(type) > sizeof(Py_ssize_t) && \ + likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX) && \ + (!is_signed || likely(v > (type)PY_SSIZE_T_MIN || \ + v == (type)PY_SSIZE_T_MIN))) || \ + (sizeof(type) == sizeof(Py_ssize_t) && \ + (is_signed || likely(v < (type)PY_SSIZE_T_MAX || \ + v == (type)PY_SSIZE_T_MAX))) ) +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject*); +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject*, Py_ssize_t* length); +#define __Pyx_PyByteArray_FromString(s) PyByteArray_FromStringAndSize((const char*)s, strlen((const char*)s)) +#define __Pyx_PyByteArray_FromStringAndSize(s, l) PyByteArray_FromStringAndSize((const char*)s, l) +#define __Pyx_PyBytes_FromString PyBytes_FromString +#define __Pyx_PyBytes_FromStringAndSize PyBytes_FromStringAndSize +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char*); +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyStr_FromString __Pyx_PyBytes_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyBytes_FromStringAndSize +#else + #define __Pyx_PyStr_FromString __Pyx_PyUnicode_FromString + #define __Pyx_PyStr_FromStringAndSize __Pyx_PyUnicode_FromStringAndSize +#endif +#define __Pyx_PyObject_AsSString(s) ((signed char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_AsUString(s) ((unsigned char*) __Pyx_PyObject_AsString(s)) +#define __Pyx_PyObject_FromUString(s) __Pyx_PyObject_FromString((const char*)s) +#define __Pyx_PyBytes_FromUString(s) __Pyx_PyBytes_FromString((const char*)s) +#define __Pyx_PyByteArray_FromUString(s) __Pyx_PyByteArray_FromString((const char*)s) +#define __Pyx_PyStr_FromUString(s) __Pyx_PyStr_FromString((const char*)s) +#define __Pyx_PyUnicode_FromUString(s) __Pyx_PyUnicode_FromString((const char*)s) +#if PY_MAJOR_VERSION < 3 +static CYTHON_INLINE size_t __Pyx_Py_UNICODE_strlen(const Py_UNICODE *u) +{ + const Py_UNICODE *u_end = u; + while (*u_end++) ; + return (size_t)(u_end - u - 1); +} +#else +#define __Pyx_Py_UNICODE_strlen Py_UNICODE_strlen +#endif +#define __Pyx_PyUnicode_FromUnicode(u) PyUnicode_FromUnicode(u, __Pyx_Py_UNICODE_strlen(u)) +#define __Pyx_PyUnicode_FromUnicodeAndLength PyUnicode_FromUnicode +#define __Pyx_PyUnicode_AsUnicode PyUnicode_AsUnicode +#define __Pyx_Owned_Py_None(b) (Py_INCREF(Py_None), Py_None) +#define __Pyx_PyBool_FromLong(b) ((b) ? (Py_INCREF(Py_True), Py_True) : (Py_INCREF(Py_False), Py_False)) +static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject*); +static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x); +static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject*); +static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t); +#if CYTHON_COMPILING_IN_CPYTHON +#define __pyx_PyFloat_AsDouble(x) (PyFloat_CheckExact(x) ? PyFloat_AS_DOUBLE(x) : PyFloat_AsDouble(x)) +#else +#define __pyx_PyFloat_AsDouble(x) PyFloat_AsDouble(x) +#endif +#define __pyx_PyFloat_AsFloat(x) ((float) __pyx_PyFloat_AsDouble(x)) +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII +static int __Pyx_sys_getdefaultencoding_not_ascii; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys; + PyObject* default_encoding = NULL; + PyObject* ascii_chars_u = NULL; + PyObject* ascii_chars_b = NULL; + const char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (!sys) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + Py_DECREF(sys); + if (!default_encoding) goto bad; + default_encoding_c = PyBytes_AsString(default_encoding); + if (!default_encoding_c) goto bad; + if (strcmp(default_encoding_c, "ascii") == 0) { + __Pyx_sys_getdefaultencoding_not_ascii = 0; + } else { + char ascii_chars[128]; + int c; + for (c = 0; c < 128; c++) { + ascii_chars[c] = c; + } + __Pyx_sys_getdefaultencoding_not_ascii = 1; + ascii_chars_u = PyUnicode_DecodeASCII(ascii_chars, 128, NULL); + if (!ascii_chars_u) goto bad; + ascii_chars_b = PyUnicode_AsEncodedString(ascii_chars_u, default_encoding_c, NULL); + if (!ascii_chars_b || !PyBytes_Check(ascii_chars_b) || memcmp(ascii_chars, PyBytes_AS_STRING(ascii_chars_b), 128) != 0) { + PyErr_Format( + PyExc_ValueError, + "This module compiled with c_string_encoding=ascii, but default encoding '%.200s' is not a superset of ascii.", + default_encoding_c); + goto bad; + } + Py_DECREF(ascii_chars_u); + Py_DECREF(ascii_chars_b); + } + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(default_encoding); + Py_XDECREF(ascii_chars_u); + Py_XDECREF(ascii_chars_b); + return -1; +} +#endif +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT && PY_MAJOR_VERSION >= 3 +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_DecodeUTF8(c_str, size, NULL) +#else +#define __Pyx_PyUnicode_FromStringAndSize(c_str, size) PyUnicode_Decode(c_str, size, __PYX_DEFAULT_STRING_ENCODING, NULL) +#if __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT +static char* __PYX_DEFAULT_STRING_ENCODING; +static int __Pyx_init_sys_getdefaultencoding_params(void) { + PyObject* sys; + PyObject* default_encoding = NULL; + char* default_encoding_c; + sys = PyImport_ImportModule("sys"); + if (!sys) goto bad; + default_encoding = PyObject_CallMethod(sys, (char*) (const char*) "getdefaultencoding", NULL); + Py_DECREF(sys); + if (!default_encoding) goto bad; + default_encoding_c = PyBytes_AsString(default_encoding); + if (!default_encoding_c) goto bad; + __PYX_DEFAULT_STRING_ENCODING = (char*) malloc(strlen(default_encoding_c)); + if (!__PYX_DEFAULT_STRING_ENCODING) goto bad; + strcpy(__PYX_DEFAULT_STRING_ENCODING, default_encoding_c); + Py_DECREF(default_encoding); + return 0; +bad: + Py_XDECREF(default_encoding); + return -1; +} +#endif +#endif + + +/* Test for GCC > 2.95 */ +#if defined(__GNUC__) && (__GNUC__ > 2 || (__GNUC__ == 2 && (__GNUC_MINOR__ > 95))) + #define likely(x) __builtin_expect(!!(x), 1) + #define unlikely(x) __builtin_expect(!!(x), 0) +#else /* !__GNUC__ or GCC < 2.95 */ + #define likely(x) (x) + #define unlikely(x) (x) +#endif /* __GNUC__ */ + +static PyObject *__pyx_m; +static PyObject *__pyx_d; +static PyObject *__pyx_b; +static PyObject *__pyx_empty_tuple; +static PyObject *__pyx_empty_bytes; +static int __pyx_lineno; +static int __pyx_clineno = 0; +static const char * __pyx_cfilenm= __FILE__; +static const char *__pyx_filename; + +#if !defined(CYTHON_CCOMPLEX) + #if defined(__cplusplus) + #define CYTHON_CCOMPLEX 1 + #elif defined(_Complex_I) + #define CYTHON_CCOMPLEX 1 + #else + #define CYTHON_CCOMPLEX 0 + #endif +#endif +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + #include <complex> + #else + #include <complex.h> + #endif +#endif +#if CYTHON_CCOMPLEX && !defined(__cplusplus) && defined(__sun__) && defined(__GNUC__) + #undef _Complex_I + #define _Complex_I 1.0fj +#endif + + +static const char *__pyx_f[] = { + "specfile.pyx", + "__init__.pxd", + "type.pxd", +}; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":723 + * # in Cython to enable them only on the right systems. + * + * ctypedef npy_int8 int8_t # <<<<<<<<<<<<<< + * ctypedef npy_int16 int16_t + * ctypedef npy_int32 int32_t + */ +typedef npy_int8 __pyx_t_5numpy_int8_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":724 + * + * ctypedef npy_int8 int8_t + * ctypedef npy_int16 int16_t # <<<<<<<<<<<<<< + * ctypedef npy_int32 int32_t + * ctypedef npy_int64 int64_t + */ +typedef npy_int16 __pyx_t_5numpy_int16_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":725 + * ctypedef npy_int8 int8_t + * ctypedef npy_int16 int16_t + * ctypedef npy_int32 int32_t # <<<<<<<<<<<<<< + * ctypedef npy_int64 int64_t + * #ctypedef npy_int96 int96_t + */ +typedef npy_int32 __pyx_t_5numpy_int32_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":726 + * ctypedef npy_int16 int16_t + * ctypedef npy_int32 int32_t + * ctypedef npy_int64 int64_t # <<<<<<<<<<<<<< + * #ctypedef npy_int96 int96_t + * #ctypedef npy_int128 int128_t + */ +typedef npy_int64 __pyx_t_5numpy_int64_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":730 + * #ctypedef npy_int128 int128_t + * + * ctypedef npy_uint8 uint8_t # <<<<<<<<<<<<<< + * ctypedef npy_uint16 uint16_t + * ctypedef npy_uint32 uint32_t + */ +typedef npy_uint8 __pyx_t_5numpy_uint8_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":731 + * + * ctypedef npy_uint8 uint8_t + * ctypedef npy_uint16 uint16_t # <<<<<<<<<<<<<< + * ctypedef npy_uint32 uint32_t + * ctypedef npy_uint64 uint64_t + */ +typedef npy_uint16 __pyx_t_5numpy_uint16_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":732 + * ctypedef npy_uint8 uint8_t + * ctypedef npy_uint16 uint16_t + * ctypedef npy_uint32 uint32_t # <<<<<<<<<<<<<< + * ctypedef npy_uint64 uint64_t + * #ctypedef npy_uint96 uint96_t + */ +typedef npy_uint32 __pyx_t_5numpy_uint32_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":733 + * ctypedef npy_uint16 uint16_t + * ctypedef npy_uint32 uint32_t + * ctypedef npy_uint64 uint64_t # <<<<<<<<<<<<<< + * #ctypedef npy_uint96 uint96_t + * #ctypedef npy_uint128 uint128_t + */ +typedef npy_uint64 __pyx_t_5numpy_uint64_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":737 + * #ctypedef npy_uint128 uint128_t + * + * ctypedef npy_float32 float32_t # <<<<<<<<<<<<<< + * ctypedef npy_float64 float64_t + * #ctypedef npy_float80 float80_t + */ +typedef npy_float32 __pyx_t_5numpy_float32_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":738 + * + * ctypedef npy_float32 float32_t + * ctypedef npy_float64 float64_t # <<<<<<<<<<<<<< + * #ctypedef npy_float80 float80_t + * #ctypedef npy_float128 float128_t + */ +typedef npy_float64 __pyx_t_5numpy_float64_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":747 + * # The int types are mapped a bit surprising -- + * # numpy.int corresponds to 'l' and numpy.long to 'q' + * ctypedef npy_long int_t # <<<<<<<<<<<<<< + * ctypedef npy_longlong long_t + * ctypedef npy_longlong longlong_t + */ +typedef npy_long __pyx_t_5numpy_int_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":748 + * # numpy.int corresponds to 'l' and numpy.long to 'q' + * ctypedef npy_long int_t + * ctypedef npy_longlong long_t # <<<<<<<<<<<<<< + * ctypedef npy_longlong longlong_t + * + */ +typedef npy_longlong __pyx_t_5numpy_long_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":749 + * ctypedef npy_long int_t + * ctypedef npy_longlong long_t + * ctypedef npy_longlong longlong_t # <<<<<<<<<<<<<< + * + * ctypedef npy_ulong uint_t + */ +typedef npy_longlong __pyx_t_5numpy_longlong_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":751 + * ctypedef npy_longlong longlong_t + * + * ctypedef npy_ulong uint_t # <<<<<<<<<<<<<< + * ctypedef npy_ulonglong ulong_t + * ctypedef npy_ulonglong ulonglong_t + */ +typedef npy_ulong __pyx_t_5numpy_uint_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":752 + * + * ctypedef npy_ulong uint_t + * ctypedef npy_ulonglong ulong_t # <<<<<<<<<<<<<< + * ctypedef npy_ulonglong ulonglong_t + * + */ +typedef npy_ulonglong __pyx_t_5numpy_ulong_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":753 + * ctypedef npy_ulong uint_t + * ctypedef npy_ulonglong ulong_t + * ctypedef npy_ulonglong ulonglong_t # <<<<<<<<<<<<<< + * + * ctypedef npy_intp intp_t + */ +typedef npy_ulonglong __pyx_t_5numpy_ulonglong_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":755 + * ctypedef npy_ulonglong ulonglong_t + * + * ctypedef npy_intp intp_t # <<<<<<<<<<<<<< + * ctypedef npy_uintp uintp_t + * + */ +typedef npy_intp __pyx_t_5numpy_intp_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":756 + * + * ctypedef npy_intp intp_t + * ctypedef npy_uintp uintp_t # <<<<<<<<<<<<<< + * + * ctypedef npy_double float_t + */ +typedef npy_uintp __pyx_t_5numpy_uintp_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":758 + * ctypedef npy_uintp uintp_t + * + * ctypedef npy_double float_t # <<<<<<<<<<<<<< + * ctypedef npy_double double_t + * ctypedef npy_longdouble longdouble_t + */ +typedef npy_double __pyx_t_5numpy_float_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":759 + * + * ctypedef npy_double float_t + * ctypedef npy_double double_t # <<<<<<<<<<<<<< + * ctypedef npy_longdouble longdouble_t + * + */ +typedef npy_double __pyx_t_5numpy_double_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":760 + * ctypedef npy_double float_t + * ctypedef npy_double double_t + * ctypedef npy_longdouble longdouble_t # <<<<<<<<<<<<<< + * + * ctypedef npy_cfloat cfloat_t + */ +typedef npy_longdouble __pyx_t_5numpy_longdouble_t; +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + typedef ::std::complex< float > __pyx_t_float_complex; + #else + typedef float _Complex __pyx_t_float_complex; + #endif +#else + typedef struct { float real, imag; } __pyx_t_float_complex; +#endif + +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + typedef ::std::complex< double > __pyx_t_double_complex; + #else + typedef double _Complex __pyx_t_double_complex; + #endif +#else + typedef struct { double real, imag; } __pyx_t_double_complex; +#endif + + +/*--- Type declarations ---*/ +struct __pyx_obj_8specfile_SpecFile; +struct __pyx_obj_8specfile___pyx_scope_struct____iter__; +struct __pyx_obj_8specfile___pyx_scope_struct_1___iter__; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":762 + * ctypedef npy_longdouble longdouble_t + * + * ctypedef npy_cfloat cfloat_t # <<<<<<<<<<<<<< + * ctypedef npy_cdouble cdouble_t + * ctypedef npy_clongdouble clongdouble_t + */ +typedef npy_cfloat __pyx_t_5numpy_cfloat_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":763 + * + * ctypedef npy_cfloat cfloat_t + * ctypedef npy_cdouble cdouble_t # <<<<<<<<<<<<<< + * ctypedef npy_clongdouble clongdouble_t + * + */ +typedef npy_cdouble __pyx_t_5numpy_cdouble_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":764 + * ctypedef npy_cfloat cfloat_t + * ctypedef npy_cdouble cdouble_t + * ctypedef npy_clongdouble clongdouble_t # <<<<<<<<<<<<<< + * + * ctypedef npy_cdouble complex_t + */ +typedef npy_clongdouble __pyx_t_5numpy_clongdouble_t; + +/* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":766 + * ctypedef npy_clongdouble clongdouble_t + * + * ctypedef npy_cdouble complex_t # <<<<<<<<<<<<<< + * + * cdef inline object PyArray_MultiIterNew1(a): + */ +typedef npy_cdouble __pyx_t_5numpy_complex_t; + +/* "specfile_wrapper.pxd":35 + * pass + * # Renaming struct because we have too many SpecFile items (files, classes) + * ctypedef _SpecFile SpecFileHandle # <<<<<<<<<<<<<< + * + * cdef extern from "SpecFileCython.h": + */ +typedef struct _SpecFile __pyx_t_16specfile_wrapper_SpecFileHandle; + +/* "specfile.pyx":647 + * + * + * cdef class SpecFile(object): # <<<<<<<<<<<<<< + * """ + * + */ +struct __pyx_obj_8specfile_SpecFile { + PyObject_HEAD + __pyx_t_16specfile_wrapper_SpecFileHandle *handle; + PyObject *filename; + int __pyx___open_failed; +}; + + +/* "specfile.pyx":315 + * mca_index) + * + * def __iter__(self): # <<<<<<<<<<<<<< + * """Return the next MCA data line each time this method is called. + * + */ +struct __pyx_obj_8specfile___pyx_scope_struct____iter__ { + PyObject_HEAD + Py_ssize_t __pyx_v_mca_index; + PyObject *__pyx_v_self; + Py_ssize_t __pyx_t_0; + Py_ssize_t __pyx_t_1; +}; + + +/* "specfile.pyx":698 + * return specfile_wrapper.SfScanNo(self.handle) + * + * def __iter__(self): # <<<<<<<<<<<<<< + * """Return the next :class:`Scan` in a SpecFile each time this method + * is called. + */ +struct __pyx_obj_8specfile___pyx_scope_struct_1___iter__ { + PyObject_HEAD + Py_ssize_t __pyx_v_scan_index; + struct __pyx_obj_8specfile_SpecFile *__pyx_v_self; + Py_ssize_t __pyx_t_0; + Py_ssize_t __pyx_t_1; +}; + +#ifndef CYTHON_REFNANNY + #define CYTHON_REFNANNY 0 +#endif +#if CYTHON_REFNANNY + typedef struct { + void (*INCREF)(void*, PyObject*, int); + void (*DECREF)(void*, PyObject*, int); + void (*GOTREF)(void*, PyObject*, int); + void (*GIVEREF)(void*, PyObject*, int); + void* (*SetupContext)(const char*, int, const char*); + void (*FinishContext)(void**); + } __Pyx_RefNannyAPIStruct; + static __Pyx_RefNannyAPIStruct *__Pyx_RefNanny = NULL; + static __Pyx_RefNannyAPIStruct *__Pyx_RefNannyImportAPI(const char *modname); + #define __Pyx_RefNannyDeclarations void *__pyx_refnanny = NULL; +#ifdef WITH_THREAD + #define __Pyx_RefNannySetupContext(name, acquire_gil) \ + if (acquire_gil) { \ + PyGILState_STATE __pyx_gilstate_save = PyGILState_Ensure(); \ + __pyx_refnanny = __Pyx_RefNanny->SetupContext((name), __LINE__, __FILE__); \ + PyGILState_Release(__pyx_gilstate_save); \ + } else { \ + __pyx_refnanny = __Pyx_RefNanny->SetupContext((name), __LINE__, __FILE__); 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\ + r = v; __Pyx_XDECREF(tmp); \ + } while (0) +#define __Pyx_DECREF_SET(r, v) do { \ + PyObject *tmp = (PyObject *) r; \ + r = v; __Pyx_DECREF(tmp); \ + } while (0) +#define __Pyx_CLEAR(r) do { PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);} while(0) +#define __Pyx_XCLEAR(r) do { if((r) != NULL) {PyObject* tmp = ((PyObject*)(r)); r = NULL; __Pyx_DECREF(tmp);}} while(0) + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_GetAttrStr(PyObject* obj, PyObject* attr_name) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_getattro)) + return tp->tp_getattro(obj, attr_name); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_getattr)) + return tp->tp_getattr(obj, PyString_AS_STRING(attr_name)); +#endif + return PyObject_GetAttr(obj, attr_name); +} +#else +#define __Pyx_PyObject_GetAttrStr(o,n) PyObject_GetAttr(o,n) +#endif + +static PyObject *__Pyx_GetBuiltinName(PyObject *name); + +static void __Pyx_RaiseArgtupleInvalid(const char* func_name, int exact, + Py_ssize_t num_min, Py_ssize_t num_max, Py_ssize_t num_found); + +static void __Pyx_RaiseDoubleKeywordsError(const char* func_name, PyObject* kw_name); + +static int __Pyx_ParseOptionalKeywords(PyObject *kwds, PyObject **argnames[], \ + PyObject *kwds2, PyObject *values[], Py_ssize_t num_pos_args, \ + const char* function_name); + +#if CYTHON_COMPILING_IN_CPYTHON +#define __Pyx_PyObject_DelAttrStr(o,n) __Pyx_PyObject_SetAttrStr(o,n,NULL) +static CYTHON_INLINE int __Pyx_PyObject_SetAttrStr(PyObject* obj, PyObject* attr_name, PyObject* value) { + PyTypeObject* tp = Py_TYPE(obj); + if (likely(tp->tp_setattro)) + return tp->tp_setattro(obj, attr_name, value); +#if PY_MAJOR_VERSION < 3 + if (likely(tp->tp_setattr)) + return tp->tp_setattr(obj, PyString_AS_STRING(attr_name), value); +#endif + return PyObject_SetAttr(obj, attr_name, value); +} +#else +#define __Pyx_PyObject_DelAttrStr(o,n) PyObject_DelAttr(o,n) +#define __Pyx_PyObject_SetAttrStr(o,n,v) PyObject_SetAttr(o,n,v) +#endif + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw); +#else +#define __Pyx_PyObject_Call(func, arg, kw) PyObject_Call(func, arg, kw) +#endif + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg); +#endif + +static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg); + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func); +#else +#define __Pyx_PyObject_CallNoArg(func) __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL) +#endif + +static CYTHON_INLINE int __Pyx_PySequence_Contains(PyObject* item, PyObject* seq, int eq) { + int result = PySequence_Contains(seq, item); + return unlikely(result < 0) ? result : (result == (eq == Py_EQ)); +} + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE int __Pyx_ListComp_Append(PyObject* list, PyObject* x) { + PyListObject* L = (PyListObject*) list; + Py_ssize_t len = Py_SIZE(list); + if (likely(L->allocated > len)) { + Py_INCREF(x); + PyList_SET_ITEM(list, len, x); + Py_SIZE(list) = len+1; + return 0; + } + return PyList_Append(list, x); +} +#else +#define __Pyx_ListComp_Append(L,x) PyList_Append(L,x) +#endif + +static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected); + +static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index); + +static CYTHON_INLINE int __Pyx_IterFinish(void); + +static int __Pyx_IternextUnpackEndCheck(PyObject *retval, Py_ssize_t expected); + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE int __Pyx_PyList_Append(PyObject* list, PyObject* x) { + PyListObject* L = (PyListObject*) list; + Py_ssize_t len = Py_SIZE(list); + if (likely(L->allocated > len) & likely(len > (L->allocated >> 1))) { + Py_INCREF(x); + PyList_SET_ITEM(list, len, x); + Py_SIZE(list) = len+1; + return 0; + } + return PyList_Append(list, x); +} +#else +#define __Pyx_PyList_Append(L,x) PyList_Append(L,x) +#endif + +static PyObject* __Pyx_PyObject_CallMethod1(PyObject* obj, PyObject* method_name, PyObject* arg); + +static CYTHON_INLINE int __Pyx_PyObject_Append(PyObject* L, PyObject* x); + +#define __Pyx_GetItemInt(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_GetItemInt_Fast(o, (Py_ssize_t)i, is_list, wraparound, boundscheck) : \ + (is_list ? (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL) : \ + __Pyx_GetItemInt_Generic(o, to_py_func(i)))) +#define __Pyx_GetItemInt_List(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_GetItemInt_List_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) : \ + (PyErr_SetString(PyExc_IndexError, "list index out of range"), (PyObject*)NULL)) +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, + int wraparound, int boundscheck); +#define __Pyx_GetItemInt_Tuple(o, i, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_GetItemInt_Tuple_Fast(o, (Py_ssize_t)i, wraparound, boundscheck) : \ + (PyErr_SetString(PyExc_IndexError, "tuple index out of range"), (PyObject*)NULL)) +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, + int wraparound, int boundscheck); +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j); +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, + int is_list, int wraparound, int boundscheck); + +static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb); +static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb); + +static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause); + +static CYTHON_INLINE void __Pyx_ExceptionSave(PyObject **type, PyObject **value, PyObject **tb); +static void __Pyx_ExceptionReset(PyObject *type, PyObject *value, PyObject *tb); + +static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb); + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name); + +static void __Pyx_WriteUnraisable(const char *name, int clineno, + int lineno, const char *filename, + int full_traceback); + +#if PY_MAJOR_VERSION < 3 +#define __Pyx_PyString_Join __Pyx_PyBytes_Join +#define __Pyx_PyBaseString_Join(s, v) (PyUnicode_CheckExact(s) ? PyUnicode_Join(s, v) : __Pyx_PyBytes_Join(s, v)) +#else +#define __Pyx_PyString_Join PyUnicode_Join +#define __Pyx_PyBaseString_Join PyUnicode_Join +#endif +#if CYTHON_COMPILING_IN_CPYTHON + #if PY_MAJOR_VERSION < 3 + #define __Pyx_PyBytes_Join _PyString_Join + #else + #define __Pyx_PyBytes_Join _PyBytes_Join + #endif +#else +static CYTHON_INLINE PyObject* __Pyx_PyBytes_Join(PyObject* sep, PyObject* values); +#endif + +static CYTHON_INLINE int __Pyx_PyDict_Contains(PyObject* item, PyObject* dict, int eq) { + int result = PyDict_Contains(dict, item); + return unlikely(result < 0) ? result : (result == (eq == Py_EQ)); +} + +#if PY_MAJOR_VERSION >= 3 +static PyObject *__Pyx_PyDict_GetItem(PyObject *d, PyObject* key) { + PyObject *value; + value = PyDict_GetItemWithError(d, key); + if (unlikely(!value)) { + if (!PyErr_Occurred()) { + PyObject* args = PyTuple_Pack(1, key); + if (likely(args)) + PyErr_SetObject(PyExc_KeyError, args); + Py_XDECREF(args); + } + return NULL; + } + Py_INCREF(value); + return value; +} +#else + #define __Pyx_PyDict_GetItem(d, key) PyObject_GetItem(d, key) +#endif + +static CYTHON_INLINE PyObject* __Pyx_decode_c_bytes( + const char* cstring, Py_ssize_t length, Py_ssize_t start, Py_ssize_t stop, + const char* encoding, const char* errors, + PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); + +static CYTHON_INLINE PyObject* __Pyx_decode_bytes( + PyObject* string, Py_ssize_t start, Py_ssize_t stop, + const char* encoding, const char* errors, + PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { + return __Pyx_decode_c_bytes( + PyBytes_AS_STRING(string), PyBytes_GET_SIZE(string), + start, stop, encoding, errors, decode_func); +} + +static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type); + +#define __Pyx_SetItemInt(o, i, v, type, is_signed, to_py_func, is_list, wraparound, boundscheck) \ + (__Pyx_fits_Py_ssize_t(i, type, is_signed) ? \ + __Pyx_SetItemInt_Fast(o, (Py_ssize_t)i, v, is_list, wraparound, boundscheck) : \ + (is_list ? (PyErr_SetString(PyExc_IndexError, "list assignment index out of range"), -1) : \ + __Pyx_SetItemInt_Generic(o, to_py_func(i), v))) +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v); +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck); + +#include <string.h> + +static CYTHON_INLINE PyObject* __Pyx_decode_c_string( + const char* cstring, Py_ssize_t start, Py_ssize_t stop, + const char* encoding, const char* errors, + PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)); + +static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void); + +static PyObject *__Pyx_CalculateMetaclass(PyTypeObject *metaclass, PyObject *bases); + +static PyObject *__Pyx_Py3MetaclassPrepare(PyObject *metaclass, PyObject *bases, PyObject *name, PyObject *qualname, + PyObject *mkw, PyObject *modname, PyObject *doc); +static PyObject *__Pyx_Py3ClassCreate(PyObject *metaclass, PyObject *name, PyObject *bases, PyObject *dict, + PyObject *mkw, int calculate_metaclass, int allow_py2_metaclass); + +static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type); + +#define __Pyx_CyFunction_USED 1 +#include <structmember.h> +#define __Pyx_CYFUNCTION_STATICMETHOD 0x01 +#define __Pyx_CYFUNCTION_CLASSMETHOD 0x02 +#define __Pyx_CYFUNCTION_CCLASS 0x04 +#define __Pyx_CyFunction_GetClosure(f) \ + (((__pyx_CyFunctionObject *) (f))->func_closure) +#define __Pyx_CyFunction_GetClassObj(f) \ + (((__pyx_CyFunctionObject *) (f))->func_classobj) +#define __Pyx_CyFunction_Defaults(type, f) \ + ((type *)(((__pyx_CyFunctionObject *) (f))->defaults)) +#define __Pyx_CyFunction_SetDefaultsGetter(f, g) \ + ((__pyx_CyFunctionObject *) (f))->defaults_getter = (g) +typedef struct { + PyCFunctionObject func; +#if PY_VERSION_HEX < 0x030500A0 + PyObject *func_weakreflist; +#endif + PyObject *func_dict; + PyObject *func_name; + PyObject *func_qualname; + PyObject *func_doc; + PyObject *func_globals; + PyObject *func_code; + PyObject *func_closure; + PyObject *func_classobj; + void *defaults; + int defaults_pyobjects; + int flags; + PyObject *defaults_tuple; + PyObject *defaults_kwdict; + PyObject *(*defaults_getter)(PyObject *); + PyObject *func_annotations; +} __pyx_CyFunctionObject; +static PyTypeObject *__pyx_CyFunctionType = 0; +#define __Pyx_CyFunction_NewEx(ml, flags, qualname, self, module, globals, code) \ + __Pyx_CyFunction_New(__pyx_CyFunctionType, ml, flags, qualname, self, module, globals, code) +static PyObject *__Pyx_CyFunction_New(PyTypeObject *, PyMethodDef *ml, + int flags, PyObject* qualname, + PyObject *self, + PyObject *module, PyObject *globals, + PyObject* code); +static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *m, + size_t size, + int pyobjects); +static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *m, + PyObject *tuple); +static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *m, + PyObject *dict); +static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *m, + PyObject *dict); +static int __Pyx_CyFunction_init(void); + +typedef struct { + int code_line; + PyCodeObject* code_object; +} __Pyx_CodeObjectCacheEntry; +struct __Pyx_CodeObjectCache { + int count; + int max_count; + __Pyx_CodeObjectCacheEntry* entries; +}; +static struct __Pyx_CodeObjectCache __pyx_code_cache = {0,0,NULL}; +static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line); +static PyCodeObject *__pyx_find_code_object(int code_line); +static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object); + +static void __Pyx_AddTraceback(const char *funcname, int c_line, + int py_line, const char *filename); + +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value); + +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *); + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value); + +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *); + +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + #define __Pyx_CREAL(z) ((z).real()) + #define __Pyx_CIMAG(z) ((z).imag()) + #else + #define __Pyx_CREAL(z) (__real__(z)) + #define __Pyx_CIMAG(z) (__imag__(z)) + #endif +#else + #define __Pyx_CREAL(z) ((z).real) + #define __Pyx_CIMAG(z) ((z).imag) +#endif +#if (defined(_WIN32) || defined(__clang__)) && defined(__cplusplus) && CYTHON_CCOMPLEX + #define __Pyx_SET_CREAL(z,x) ((z).real(x)) + #define __Pyx_SET_CIMAG(z,y) ((z).imag(y)) +#else + #define __Pyx_SET_CREAL(z,x) __Pyx_CREAL(z) = (x) + #define __Pyx_SET_CIMAG(z,y) __Pyx_CIMAG(z) = (y) +#endif + +static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float, float); + +#if CYTHON_CCOMPLEX + #define __Pyx_c_eqf(a, b) ((a)==(b)) + #define __Pyx_c_sumf(a, b) ((a)+(b)) + #define __Pyx_c_difff(a, b) ((a)-(b)) + #define __Pyx_c_prodf(a, b) ((a)*(b)) + #define __Pyx_c_quotf(a, b) ((a)/(b)) + #define __Pyx_c_negf(a) (-(a)) + #ifdef __cplusplus + #define __Pyx_c_is_zerof(z) ((z)==(float)0) + #define __Pyx_c_conjf(z) (::std::conj(z)) + #if 1 + #define __Pyx_c_absf(z) (::std::abs(z)) + #define __Pyx_c_powf(a, b) (::std::pow(a, b)) + #endif + #else + #define __Pyx_c_is_zerof(z) ((z)==0) + #define __Pyx_c_conjf(z) (conjf(z)) + #if 1 + #define __Pyx_c_absf(z) (cabsf(z)) + #define __Pyx_c_powf(a, b) (cpowf(a, b)) + #endif + #endif +#else + static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prodf(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex, __pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex); + static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex); + #if 1 + static CYTHON_INLINE float __Pyx_c_absf(__pyx_t_float_complex); + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_powf(__pyx_t_float_complex, __pyx_t_float_complex); + #endif +#endif + +static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double, double); + +#if CYTHON_CCOMPLEX + #define __Pyx_c_eq(a, b) ((a)==(b)) + #define __Pyx_c_sum(a, b) ((a)+(b)) + #define __Pyx_c_diff(a, b) ((a)-(b)) + #define __Pyx_c_prod(a, b) ((a)*(b)) + #define __Pyx_c_quot(a, b) ((a)/(b)) + #define __Pyx_c_neg(a) (-(a)) + #ifdef __cplusplus + #define __Pyx_c_is_zero(z) ((z)==(double)0) + #define __Pyx_c_conj(z) (::std::conj(z)) + #if 1 + #define __Pyx_c_abs(z) (::std::abs(z)) + #define __Pyx_c_pow(a, b) (::std::pow(a, b)) + #endif + #else + #define __Pyx_c_is_zero(z) ((z)==0) + #define __Pyx_c_conj(z) (conj(z)) + #if 1 + #define __Pyx_c_abs(z) (cabs(z)) + #define __Pyx_c_pow(a, b) (cpow(a, b)) + #endif + #endif +#else + static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex, __pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex); + static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex); + #if 1 + static CYTHON_INLINE double __Pyx_c_abs(__pyx_t_double_complex); + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow(__pyx_t_double_complex, __pyx_t_double_complex); + #endif +#endif + +static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb); + +#define __Pyx_Generator_USED +#include <structmember.h> +#include <frameobject.h> +typedef PyObject *(*__pyx_generator_body_t)(PyObject *, PyObject *); +typedef struct { + PyObject_HEAD + __pyx_generator_body_t body; + PyObject *closure; + PyObject *exc_type; + PyObject *exc_value; + PyObject *exc_traceback; + PyObject *gi_weakreflist; + PyObject *classobj; + PyObject *yieldfrom; + PyObject *gi_name; + PyObject *gi_qualname; + int resume_label; + char is_running; +} __pyx_GeneratorObject; +static __pyx_GeneratorObject *__Pyx_Generator_New(__pyx_generator_body_t body, + PyObject *closure, PyObject *name, PyObject *qualname); +static int __pyx_Generator_init(void); +static int __Pyx_Generator_clear(PyObject* self); +#if 1 || PY_VERSION_HEX < 0x030300B0 +static int __Pyx_PyGen_FetchStopIterationValue(PyObject **pvalue); +#else +#define __Pyx_PyGen_FetchStopIterationValue(pvalue) PyGen_FetchStopIterationValue(pvalue) +#endif + +static int __Pyx_check_binary_version(void); + +#if !defined(__Pyx_PyIdentifier_FromString) +#if PY_MAJOR_VERSION < 3 + #define __Pyx_PyIdentifier_FromString(s) PyString_FromString(s) +#else + #define __Pyx_PyIdentifier_FromString(s) PyUnicode_FromString(s) +#endif +#endif + +static PyObject *__Pyx_ImportModule(const char *name); + +static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, size_t size, int strict); + +static int __Pyx_InitStrings(__Pyx_StringTabEntry *t); + + +/* Module declarations from 'cpython.buffer' */ + +/* Module declarations from 'cpython.ref' */ + +/* Module declarations from 'libc.string' */ + +/* Module declarations from 'libc.stdio' */ + +/* Module declarations from 'cpython.object' */ + +/* Module declarations from '__builtin__' */ + +/* Module declarations from 'cpython.type' */ +static PyTypeObject *__pyx_ptype_7cpython_4type_type = 0; + +/* Module declarations from 'libc.stdlib' */ + +/* Module declarations from 'numpy' */ + +/* Module declarations from 'numpy' */ +static PyTypeObject *__pyx_ptype_5numpy_dtype = 0; +static PyTypeObject *__pyx_ptype_5numpy_flatiter = 0; +static PyTypeObject *__pyx_ptype_5numpy_broadcast = 0; +static PyTypeObject *__pyx_ptype_5numpy_ndarray = 0; +static PyTypeObject *__pyx_ptype_5numpy_ufunc = 0; +static CYTHON_INLINE char *__pyx_f_5numpy__util_dtypestring(PyArray_Descr *, char *, char *, int *); /*proto*/ + +/* Module declarations from 'cython' */ + +/* Module declarations from 'specfile_wrapper' */ + +/* Module declarations from 'specfile' */ +static PyTypeObject *__pyx_ptype_8specfile_SpecFile = 0; +static PyTypeObject *__pyx_ptype_8specfile___pyx_scope_struct____iter__ = 0; +static PyTypeObject *__pyx_ptype_8specfile___pyx_scope_struct_1___iter__ = 0; +#define __Pyx_MODULE_NAME "specfile" +int __pyx_module_is_main_specfile = 0; + +/* Implementation of 'specfile' */ +static PyObject *__pyx_builtin_Exception; +static PyObject *__pyx_builtin_object; +static PyObject *__pyx_builtin_property; +static PyObject *__pyx_builtin_map; +static PyObject *__pyx_builtin_range; +static PyObject *__pyx_builtin_IndexError; +static PyObject *__pyx_builtin_TypeError; +static PyObject *__pyx_builtin_open; +static PyObject *__pyx_builtin_enumerate; +static PyObject *__pyx_builtin_ValueError; +static PyObject *__pyx_builtin_KeyError; +static PyObject *__pyx_builtin_AttributeError; +static PyObject *__pyx_builtin_RuntimeError; +static PyObject *__pyx_pf_8specfile_3MCA___init__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_scan); /* proto */ +static PyObject *__pyx_pf_8specfile_3MCA_2_parse_channels(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_3MCA_4_parse_calibration(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_3MCA_6__len__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_3MCA_8__getitem__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_key); /* proto */ +static PyObject *__pyx_pf_8specfile_3MCA_10__iter__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile__add_or_concatenate(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_dictionary, PyObject *__pyx_v_key, PyObject *__pyx_v_value); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan___init__(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_specfile, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_2index(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_4number(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_6order(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_8header(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_10scan_header(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_12file_header(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_14scan_header_dict(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_16mca_header_dict(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_18file_header_dict(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_20labels(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_22data(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_24mca(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_26motor_names(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_28motor_positions(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_30record_exists_in_hdr(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_record); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_32data_line(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_line_index); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_34data_column_by_name(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_label); /* proto */ +static PyObject *__pyx_pf_8specfile_4Scan_36motor_position_by_name(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_self, PyObject *__pyx_v_name); /* proto */ +static PyObject *__pyx_pf_8specfile_2_string_to_char_star(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_string_); /* proto */ +static PyObject *__pyx_pf_8specfile_4is_specfile(CYTHON_UNUSED PyObject *__pyx_self, PyObject *__pyx_v_filename); /* proto */ +static int __pyx_pf_8specfile_8SpecFile___cinit__(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_filename); /* proto */ +static int __pyx_pf_8specfile_8SpecFile_2__init__(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_filename); /* proto */ +static void __pyx_pf_8specfile_8SpecFile_4__dealloc__(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self); /* proto */ +static Py_ssize_t __pyx_pf_8specfile_8SpecFile_6__len__(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_8__iter__(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_11__getitem__(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_key); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_13keys(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self); /* proto */ +static int __pyx_pf_8specfile_8SpecFile_15__contains__(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_key); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_17_get_error_string(CYTHON_UNUSED struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_error_code); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_19_handle_error(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_error_code); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_21index(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_number, PyObject *__pyx_v_scan_order); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_23number(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_25order(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_27_list(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_29list(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_31data(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_33data_column_by_name(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index, PyObject *__pyx_v_label); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_35scan_header(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_37file_header(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_39columns(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_41command(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_43date(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_45labels(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_47motor_names(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_49motor_positions(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_51motor_position_by_name(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index, PyObject *__pyx_v_name); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_53number_of_mca(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_55mca_calibration(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index); /* proto */ +static PyObject *__pyx_pf_8specfile_8SpecFile_57get_mca(struct __pyx_obj_8specfile_SpecFile *__pyx_v_self, PyObject *__pyx_v_scan_index, PyObject *__pyx_v_mca_index); /* proto */ +static int __pyx_pf_5numpy_7ndarray___getbuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info, int __pyx_v_flags); /* proto */ +static void __pyx_pf_5numpy_7ndarray_2__releasebuffer__(PyArrayObject *__pyx_v_self, Py_buffer *__pyx_v_info); /* proto */ +static PyObject *__pyx_tp_new_8specfile_SpecFile(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ +static PyObject *__pyx_tp_new_8specfile___pyx_scope_struct____iter__(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ +static PyObject *__pyx_tp_new_8specfile___pyx_scope_struct_1___iter__(PyTypeObject *t, PyObject *a, PyObject *k); /*proto*/ +static char __pyx_k_[] = "\n"; +static char __pyx_k_2[] = " {2,}"; +static char __pyx_k_3[] = "3"; +static char __pyx_k_B[] = "B"; +static char __pyx_k_F[] = "#F "; +static char __pyx_k_H[] = "H"; +static char __pyx_k_I[] = "I"; +static char __pyx_k_L[] = "L"; +static char __pyx_k_O[] = "O"; +static char __pyx_k_Q[] = "Q"; +static char __pyx_k_S[] = "#S "; +static char __pyx_k_b[] = "b"; +static char __pyx_k_d[] = "d"; +static char __pyx_k_f[] = "f"; +static char __pyx_k_g[] = "g"; +static char __pyx_k_h[] = "h"; +static char __pyx_k_i[] = "i"; +static char __pyx_k_l[] = "l"; +static char __pyx_k_q[] = "q"; +static char __pyx_k_w[] = "#(\\w+) *(.*)"; +static char __pyx_k_Zd[] = "Zd"; +static char __pyx_k_Zf[] = "Zf"; +static char __pyx_k_Zg[] = "Zg"; +static char __pyx_k__7[] = "#"; +static char __pyx_k_os[] = "os"; +static char __pyx_k_re[] = "re"; +static char __pyx_k_MCA[] = "MCA"; +static char __pyx_k_MIT[] = "MIT"; +static char __pyx_k__14[] = " "; +static char __pyx_k__25[] = "."; +static char __pyx_k__27[] = "', '"; +static char __pyx_k__28[] = "'"; +static char __pyx_k__29[] = ""; +static char __pyx_k_d_d[] = "%d.%d"; +static char __pyx_k_doc[] = "__doc__"; +static char __pyx_k_key[] = "key"; +static char __pyx_k_len[] = "__len__"; +static char __pyx_k_map[] = "map"; +static char __pyx_k_mca[] = "_mca"; +static char __pyx_k_msg[] = "msg"; +static char __pyx_k_ret[] = "ret"; +static char __pyx_k_sub[] = "sub"; +static char __pyx_k_sys[] = "sys"; +static char __pyx_k_w_2[] = "#@(\\w+) *(.*)"; +static char __pyx_k_Scan[] = "Scan"; +static char __pyx_k_args[] = "args"; +static char __pyx_k_data[] = "_data"; +static char __pyx_k_date[] = "__date__"; +static char __pyx_k_hkey[] = "hkey"; +static char __pyx_k_init[] = "__init__"; +static char __pyx_k_iter[] = "__iter__"; +static char __pyx_k_join[] = "join"; +static char __pyx_k_keys[] = "keys"; +static char __pyx_k_line[] = "line"; +static char __pyx_k_list[] = "_list"; +static char __pyx_k_main[] = "__main__"; +static char __pyx_k_name[] = "name"; +static char __pyx_k_open[] = "open"; +static char __pyx_k_path[] = "path"; +static char __pyx_k_scan[] = "scan"; +static char __pyx_k_self[] = "self"; +static char __pyx_k_send[] = "send"; +static char __pyx_k_stop[] = "stop"; +static char __pyx_k_test[] = "__test__"; +static char __pyx_k_CALIB[] = "CALIB"; +static char __pyx_k_CHANN[] = "CHANN"; +static char __pyx_k_ascii[] = "ascii"; +static char __pyx_k_close[] = "close"; +static char __pyx_k_dtype[] = "dtype"; +static char __pyx_k_empty[] = "empty"; +static char __pyx_k_group[] = "group"; +static char __pyx_k_index[] = "index"; +static char __pyx_k_label[] = "label"; +static char __pyx_k_match[] = "match"; +static char __pyx_k_mca_2[] = "mca"; +static char __pyx_k_numpy[] = "numpy"; +static char __pyx_k_order[] = "order"; +static char __pyx_k_range[] = "range"; +static char __pyx_k_shape[] = "shape"; +static char __pyx_k_split[] = "split"; +static char __pyx_k_start[] = "start"; +static char __pyx_k_strip[] = "strip"; +static char __pyx_k_throw[] = "throw"; +static char __pyx_k_value[] = "value"; +static char __pyx_k_ERRORS[] = "ERRORS"; +static char __pyx_k_append[] = "append"; +static char __pyx_k_data_2[] = "data"; +static char __pyx_k_decode[] = "decode"; +static char __pyx_k_double[] = "double"; +static char __pyx_k_encode[] = "encode"; +static char __pyx_k_header[] = "_header"; +static char __pyx_k_hvalue[] = "hvalue"; +static char __pyx_k_import[] = "__import__"; +static char __pyx_k_isfile[] = "isfile"; +static char __pyx_k_labels[] = "_labels"; +static char __pyx_k_length[] = "length"; +static char __pyx_k_logger[] = "_logger"; +static char __pyx_k_lstrip[] = "lstrip"; +static char __pyx_k_module[] = "__module__"; +static char __pyx_k_name_2[] = "__name__"; +static char __pyx_k_number[] = "number"; +static char __pyx_k_object[] = "object"; +static char __pyx_k_record[] = "record"; +static char __pyx_k_scan_2[] = "_scan"; +static char __pyx_k_search[] = "search"; +static char __pyx_k_string[] = "string_"; +static char __pyx_k_SfError[] = "SfError"; +static char __pyx_k_authors[] = "__authors__"; +static char __pyx_k_get_mca[] = "get_mca"; +static char __pyx_k_getitem[] = "__getitem__"; +static char __pyx_k_index_2[] = "_index"; +static char __pyx_k_license[] = "__license__"; +static char __pyx_k_logging[] = "logging"; +static char __pyx_k_order_2[] = "_order"; +static char __pyx_k_os_path[] = "os.path"; +static char __pyx_k_prepare[] = "__prepare__"; +static char __pyx_k_version[] = "version"; +static char __pyx_k_warning[] = "warning"; +static char __pyx_k_KeyError[] = "KeyError"; +static char __pyx_k_L_header[] = "L_header"; +static char __pyx_k_P_Knobel[] = "P. Knobel"; +static char __pyx_k_Scan_mca[] = "Scan.mca"; +static char __pyx_k_channels[] = "channels"; +static char __pyx_k_filename[] = "filename"; +static char __pyx_k_header_2[] = "header"; +static char __pyx_k_labels_2[] = "labels"; +static char __pyx_k_number_2[] = "_number"; +static char __pyx_k_property[] = "property"; +static char __pyx_k_qualname[] = "__qualname__"; +static char __pyx_k_specfile[] = "_specfile"; +static char __pyx_k_Exception[] = "Exception"; +static char __pyx_k_MCA___len[] = "MCA.__len__"; +static char __pyx_k_Scan_data[] = "Scan.data"; +static char __pyx_k_TypeError[] = "TypeError"; +static char __pyx_k_data_line[] = "data_line"; +static char __pyx_k_enumerate[] = "enumerate"; +static char __pyx_k_getLogger[] = "getLogger"; +static char __pyx_k_increment[] = "increment"; +static char __pyx_k_match_mca[] = "match_mca"; +static char __pyx_k_mca_index[] = "mca_index"; +static char __pyx_k_metaclass[] = "__metaclass__"; +static char __pyx_k_transpose[] = "transpose"; +static char __pyx_k_27_09_2016[] = "27/09/2016"; +static char __pyx_k_IndexError[] = "IndexError"; +static char __pyx_k_MCA___init[] = "MCA.__init__"; +static char __pyx_k_MCA___iter[] = "MCA.__iter__"; +static char __pyx_k_Scan_index[] = "Scan.index"; +static char __pyx_k_Scan_order[] = "Scan.order"; +static char __pyx_k_Valid_keys[] = "\nValid keys: '"; +static char __pyx_k_ValueError[] = "ValueError"; +static char __pyx_k_calib_line[] = "calib_line"; +static char __pyx_k_chann_line[] = "chann_line"; +static char __pyx_k_dictionary[] = "dictionary"; +static char __pyx_k_line_index[] = "line_index"; +static char __pyx_k_scan_index[] = "scan_index"; +static char __pyx_k_scan_order[] = "scan_order"; +static char __pyx_k_specfile_2[] = "specfile"; +static char __pyx_k_startswith[] = "startswith"; +static char __pyx_k_Scan___init[] = "Scan.__init__"; +static char __pyx_k_Scan_header[] = "Scan.header"; +static char __pyx_k_Scan_labels[] = "Scan.labels"; +static char __pyx_k_Scan_number[] = "Scan.number"; +static char __pyx_k_basicConfig[] = "basicConfig"; +static char __pyx_k_calib_lines[] = "calib_lines"; +static char __pyx_k_calibration[] = "calibration"; +static char __pyx_k_chann_lines[] = "chann_lines"; +static char __pyx_k_file_header[] = "file_header"; +static char __pyx_k_is_specfile[] = "is_specfile"; +static char __pyx_k_motor_names[] = "motor_names"; +static char __pyx_k_scan_header[] = "scan_header"; +static char __pyx_k_scan_number[] = "scan_number"; +static char __pyx_k_RuntimeError[] = "RuntimeError"; +static char __pyx_k_SfNoMcaError[] = "SfNoMcaError"; +static char __pyx_k_handle_error[] = "_handle_error"; +static char __pyx_k_version_info[] = "version_info"; +static char __pyx_k_MCA___getitem[] = "MCA.__getitem__"; +static char __pyx_k_SfErrFileOpen[] = "SfErrFileOpen"; +static char __pyx_k_SfErrFileRead[] = "SfErrFileRead"; +static char __pyx_k_motor_names_2[] = "_motor_names"; +static char __pyx_k_number_of_mca[] = "number_of_mca"; +static char __pyx_k_AttributeError[] = "AttributeError"; +static char __pyx_k_Scan_data_line[] = "Scan.data_line"; +static char __pyx_k_SfErrFileClose[] = "SfErrFileClose"; +static char __pyx_k_SfErrFileWrite[] = "SfErrFileWrite"; +static char __pyx_k_SfErrLineEmpty[] = "SfErrLineEmpty"; +static char __pyx_k_parse_channels[] = "_parse_channels"; +static char __pyx_k_SpecFile___iter[] = "SpecFile.__iter__"; +static char __pyx_k_mca_header_dict[] = "mca_header_dict"; +static char __pyx_k_motor_positions[] = "motor_positions"; +static char __pyx_k_SF_ERR_FILE_OPEN[] = "SF_ERR_FILE_OPEN"; +static char __pyx_k_SF_ERR_NO_ERRORS[] = "SF_ERR_NO_ERRORS"; +static char __pyx_k_Scan_file_header[] = "Scan.file_header"; +static char __pyx_k_Scan_motor_names[] = "Scan.motor_names"; +static char __pyx_k_Scan_scan_header[] = "Scan.scan_header"; +static char __pyx_k_SfErrColNotFound[] = "SfErrColNotFound"; +static char __pyx_k_SfErrMcaNotFound[] = "SfErrMcaNotFound"; +static char __pyx_k_SfErrMemoryAlloc[] = "SfErrMemoryAlloc"; +static char __pyx_k_all_calib_values[] = "all_calib_values"; +static char __pyx_k_all_chann_values[] = "all_chann_values"; +static char __pyx_k_file_header_dict[] = "_file_header_dict"; +static char __pyx_k_get_error_string[] = "_get_error_string"; +static char __pyx_k_scan_header_dict[] = "_scan_header_dict"; +static char __pyx_k_SfErrLineNotFound[] = "SfErrLineNotFound"; +static char __pyx_k_SfErrScanNotFound[] = "SfErrScanNotFound"; +static char __pyx_k_SfErrUserNotFound[] = "SfErrUserNotFound"; +static char __pyx_k_file_header_lines[] = "_file_header_lines"; +static char __pyx_k_mca_header_dict_2[] = "_mca_header_dict"; +static char __pyx_k_motor_positions_2[] = "_motor_positions"; +static char __pyx_k_parse_calibration[] = "_parse_calibration"; +static char __pyx_k_scan_header_lines[] = "_scan_header_lines"; +static char __pyx_k_SfErrLabelNotFound[] = "SfErrLabelNotFound"; +static char __pyx_k_SfErrMotorNotFound[] = "SfErrMotorNotFound"; +static char __pyx_k_SfNoMca_returned_1[] = "(SfNoMca returned -1)"; +static char __pyx_k_add_or_concatenate[] = "_add_or_concatenate"; +static char __pyx_k_file_header_dict_2[] = "file_header_dict"; +static char __pyx_k_scan_header_dict_2[] = "scan_header_dict"; +static char __pyx_k_MCA__parse_channels[] = "MCA._parse_channels"; +static char __pyx_k_SfErrHeaderNotFound[] = "SfErrHeaderNotFound"; +static char __pyx_k_data_column_by_name[] = "data_column_by_name"; +static char __pyx_k_string_to_char_star[] = "_string_to_char_star"; +static char __pyx_k_Scan_mca_header_dict[] = "Scan.mca_header_dict"; +static char __pyx_k_Scan_motor_positions[] = "Scan.motor_positions"; +static char __pyx_k_record_exists_in_hdr[] = "record_exists_in_hdr"; +static char __pyx_k_SF_ERR_SCAN_NOT_FOUND[] = "SF_ERR_SCAN_NOT_FOUND"; +static char __pyx_k_Scan_file_header_dict[] = "Scan.file_header_dict"; +static char __pyx_k_Scan_scan_header_dict[] = "Scan.scan_header_dict"; +static char __pyx_k_SfErrPositionNotFound[] = "SfErrPositionNotFound"; +static char __pyx_k_one_line_calib_values[] = "one_line_calib_values"; +static char __pyx_k_one_line_chann_values[] = "one_line_chann_values"; +static char __pyx_k_MCA__parse_calibration[] = "MCA._parse_calibration"; +static char __pyx_k_motor_position_by_name[] = "motor_position_by_name"; +static char __pyx_k_Scan_data_column_by_name[] = "Scan.data_column_by_name"; +static char __pyx_k_Scan_record_exists_in_hdr[] = "Scan.record_exists_in_hdr"; +static char __pyx_k_Scan_motor_position_by_name[] = "Scan.motor_position_by_name"; +static char __pyx_k_ndarray_is_not_C_contiguous[] = "ndarray is not C contiguous"; +static char __pyx_k_Error_while_closing_SpecFile[] = "Error while closing SpecFile"; +static char __pyx_k_number_and_M_the_order_eg_2_3[] = " number and M the order (eg '2.3')."; +static char __pyx_k_MCA_index_must_be_in_range_0_d[] = "MCA index must be in range 0-%d"; +static char __pyx_k_param_specfile_Parent_SpecFile[] = "\n\n :param specfile: Parent SpecFile from which this scan is extracted.\n :type specfile: :class:`SpecFile`\n :param scan_index: Unique index defining the scan in the SpecFile\n :type scan_index: int\n\n Interface to access a SpecFile scan\n\n A scan is a block of descriptive header lines followed by a 2D data array.\n\n Following three ways of accessing a scan are equivalent::\n\n sf = SpecFile(\"/path/to/specfile.dat\")\n\n # Explicit class instantiation\n scan2 = Scan(sf, scan_index=2)\n\n # 0-based index on a SpecFile object\n scan2 = sf[2]\n\n # Using a \"n.m\" key (scan number starting with 1, scan order)\n scan2 = sf[\"3.1\"]\n "; +static char __pyx_k_users_payno_Documents_dev_esrf[] = "/users/payno/Documents/dev/esrf/silx/paynoSilx/silx/silx/io/specfile/specfile.pyx"; +static char __pyx_k_Base_exception_inherited_by_all[] = "Base exception inherited by all exceptions raised when a\n C function from the legacy SpecFile library returns an error\n code.\n "; +static char __pyx_k_Scan_index_must_be_in_range_0_d[] = "Scan index must be in range 0-%d"; +static char __pyx_k_The_scan_identification_key_can[] = "The scan identification key can be an integer representing "; +static char __pyx_k_This_module_is_a_cython_binding[] = "\nThis module is a cython binding to wrap the C SpecFile library, to access\nSpecFile data within a python program.\n\nDocumentation for the original C library SpecFile can be found on the ESRF\nwebsite:\n`The manual for the SpecFile Library <http://www.esrf.eu/files/live/sites/www/files/Instrumentation/software/beamline-control/BLISS/documentation/SpecFileManual.pdf>`_\n\nExamples\n========\n\nStart by importing :class:`SpecFile` and instantiate it:\n\n.. code-block:: python\n\n from silx.io.specfile import SpecFile\n\n sf = SpecFile(\"test.dat\")\n\nA :class:`SpecFile` instance can be accessed like a dictionary to obtain a\n:class:`Scan` instance.\n\nIf the key is a string representing two values\nseparated by a dot (e.g. ``\"1.2\"``), they will be treated as the scan number\n(``#S`` header line) and the scan order::\n\n # get second occurrence of scan \"#S 1\"\n myscan = sf[\"1.2\"]\n\n # access scan data as a numpy array\n nlines, ncolumns = myscan.data.shape\n\nIf the key is an integer, it will be treated as a 0-based index::\n\n first_scan = sf[0]\n second_scan = sf[1]\n\nIt is also possible to browse through all scans using :class:`SpecFile` as\nan iterator::\n\n for scan in sf:\n print(scan.scan_header_dict['S'])\n\nMCA spectra can be selectively loaded using an instance of :class:`MCA`\nprovided by :class:`Scan`::\n\n # Only one MCA spectrum is loaded in memory\n second_mca = first_scan.mca[1]\n\n # Iterating trough all MCA spectra in a scan:\n for mca_data in first_scan.mca:\n print(sum(mca_data))\n\nClasses\n=======\n\n- :class:`SpecFile`\n- :class:`Scan`\n- :class:`MCA`\n\nExceptions\n==========\n\n- :class:`SfError`\n- :class:`SfErrMemoryAlloc`\n- :class:`SfErrFileOpen`\n- :class:`SfErrFileClose`\n- :class:`SfErrFileRead`\n- :class:`SfErrFileWrite`\n- :class:`SfErrLineNotFound`\n- :class:`SfErrScanNotFound`\n- :class:`SfErrHeaderNotFound`\n- :class:`SfErrLabelNotFound`\n- :class:`SfErrMotorNotFound`""\n- :class:`SfErrPositionNotFound`\n- :class:`SfErrLineEmpty`\n- :class:`SfErrUserNotFound`\n- :class:`SfErrColNotFound`\n- :class:`SfErrMcaNotFound`\n\n"; +static char __pyx_k_param_scan_Parent_Scan_instance[] = "\n\n :param scan: Parent Scan instance\n :type scan: :class:`Scan`\n\n :var calibration: MCA calibration :math:`(a, b, c)` (as in\n :math:`a + b x + c x\302\262`) from ``#@CALIB`` scan header.\n :type calibration: list of 3 floats, default ``[0., 1., 0.]``\n :var channels: MCA channels list from ``#@CHANN`` scan header.\n In the absence of a ``#@CHANN`` header, this attribute is a list\n ``[0, \342\200\246, N-1]`` where ``N`` is the length of the first spectrum.\n In the absence of MCA spectra, this attribute defaults to ``None``.\n :type channels: list of int\n\n This class provides access to Multi-Channel Analysis data. A :class:`MCA`\n instance can be indexed to access 1D numpy arrays representing single \n MCA\302\240spectra.\n\n To create a :class:`MCA` instance, you must provide a parent :class:`Scan`\n instance, which in turn will provide a reference to the original\n :class:`SpecFile` instance::\n\n sf = SpecFile(\"/path/to/specfile.dat\")\n scan2 = Scan(sf, scan_index=2)\n mcas_in_scan2 = MCA(scan2)\n for i in len(mcas_in_scan2):\n mca_data = mcas_in_scan2[i]\n ... # do some something with mca_data (1D numpy array)\n\n A more pythonic way to do the same work, without having to explicitly\n instantiate ``scan`` and ``mcas_in_scan``, would be::\n\n sf = SpecFile(\"specfilename.dat\")\n # scan2 from previous example can be referred to as sf[2]\n # mcas_in_scan2 from previous example can be referred to as scan2.mca\n for mca_data in sf[2].mca:\n ... # do some something with mca_data (1D numpy array)\n\n "; +static char __pyx_k_unknown_dtype_code_in_numpy_pxd[] = "unknown dtype code in numpy.pxd (%d)"; +static char __pyx_k_Cannot_get_data_column_s_in_scan[] = "Cannot get data column %s in scan %d.%d"; +static char __pyx_k_Custom_exception_raised_when_SfN[] = "Custom exception raised when ``SfNoMca()`` returns ``-1``\n "; +static char __pyx_k_Failed_to_retrieve_number_of_MCA[] = "Failed to retrieve number of MCA "; +static char __pyx_k_Format_string_allocated_too_shor[] = "Format string allocated too short, see comment in numpy.pxd"; +static char __pyx_k_MCA_calibration_line_CALIB_not_f[] = "MCA calibration line (@CALIB) not found"; +static char __pyx_k_MCA_index_should_be_an_integer_s[] = "MCA index should be an integer (%s provided)"; +static char __pyx_k_No_MCA_spectrum_found_in_this_sc[] = "No MCA spectrum found in this scan"; +static char __pyx_k_Non_native_byte_order_not_suppor[] = "Non-native byte order not supported"; +static char __pyx_k_Parameter_value_must_be_a_string[] = "Parameter value must be a string."; +static char __pyx_k_Unable_to_parse_file_header_line[] = "Unable to parse file header line "; +static char __pyx_k_Unable_to_parse_scan_header_line[] = "Unable to parse scan header line "; +static char __pyx_k_ndarray_is_not_Fortran_contiguou[] = "ndarray is not Fortran contiguous"; +static char __pyx_k_the_unique_scan_index_or_a_strin[] = "the unique scan index or a string 'N.M' with N being the scan"; +static char __pyx_k_Format_string_allocated_too_shor_2[] = "Format string allocated too short."; +static PyObject *__pyx_kp_s_; +static PyObject *__pyx_kp_s_2; +static PyObject *__pyx_kp_s_27_09_2016; +static PyObject *__pyx_kp_s_3; +static PyObject *__pyx_n_s_AttributeError; +static PyObject *__pyx_kp_s_Base_exception_inherited_by_all; +static PyObject *__pyx_n_s_CALIB; +static PyObject *__pyx_n_s_CHANN; +static PyObject *__pyx_kp_s_Cannot_get_data_column_s_in_scan; +static PyObject *__pyx_kp_s_Custom_exception_raised_when_SfN; +static PyObject *__pyx_n_s_ERRORS; +static PyObject *__pyx_kp_s_Error_while_closing_SpecFile; +static PyObject *__pyx_n_s_Exception; +static PyObject *__pyx_kp_s_F; +static PyObject *__pyx_kp_s_Failed_to_retrieve_number_of_MCA; +static PyObject *__pyx_kp_u_Format_string_allocated_too_shor; +static PyObject *__pyx_kp_u_Format_string_allocated_too_shor_2; +static PyObject *__pyx_n_s_IndexError; +static PyObject *__pyx_n_s_KeyError; +static PyObject *__pyx_n_s_L; +static PyObject *__pyx_n_s_L_header; +static PyObject *__pyx_n_s_MCA; +static PyObject *__pyx_n_s_MCA___getitem; +static PyObject *__pyx_n_s_MCA___init; +static PyObject *__pyx_n_s_MCA___iter; +static PyObject *__pyx_n_s_MCA___len; +static PyObject *__pyx_n_s_MCA__parse_calibration; +static PyObject *__pyx_n_s_MCA__parse_channels; +static PyObject *__pyx_kp_s_MCA_calibration_line_CALIB_not_f; +static PyObject *__pyx_kp_s_MCA_index_must_be_in_range_0_d; +static PyObject *__pyx_kp_s_MCA_index_should_be_an_integer_s; +static PyObject *__pyx_n_s_MIT; +static PyObject *__pyx_kp_s_No_MCA_spectrum_found_in_this_sc; +static PyObject *__pyx_kp_u_Non_native_byte_order_not_suppor; +static PyObject *__pyx_kp_s_P_Knobel; +static PyObject *__pyx_kp_s_Parameter_value_must_be_a_string; +static PyObject *__pyx_n_s_RuntimeError; +static PyObject *__pyx_kp_s_S; +static PyObject *__pyx_n_s_SF_ERR_FILE_OPEN; +static PyObject *__pyx_n_s_SF_ERR_NO_ERRORS; +static PyObject *__pyx_n_s_SF_ERR_SCAN_NOT_FOUND; +static PyObject *__pyx_n_s_Scan; +static PyObject *__pyx_n_s_Scan___init; +static PyObject *__pyx_n_s_Scan_data; +static PyObject *__pyx_n_s_Scan_data_column_by_name; +static PyObject *__pyx_n_s_Scan_data_line; +static PyObject *__pyx_n_s_Scan_file_header; +static PyObject *__pyx_n_s_Scan_file_header_dict; +static PyObject *__pyx_n_s_Scan_header; +static PyObject *__pyx_n_s_Scan_index; +static PyObject *__pyx_kp_s_Scan_index_must_be_in_range_0_d; +static PyObject *__pyx_n_s_Scan_labels; +static PyObject *__pyx_n_s_Scan_mca; +static PyObject *__pyx_n_s_Scan_mca_header_dict; +static PyObject *__pyx_n_s_Scan_motor_names; +static PyObject *__pyx_n_s_Scan_motor_position_by_name; +static PyObject *__pyx_n_s_Scan_motor_positions; +static PyObject *__pyx_n_s_Scan_number; +static PyObject *__pyx_n_s_Scan_order; +static PyObject *__pyx_n_s_Scan_record_exists_in_hdr; +static PyObject *__pyx_n_s_Scan_scan_header; +static PyObject *__pyx_n_s_Scan_scan_header_dict; +static PyObject *__pyx_n_s_SfErrColNotFound; +static PyObject *__pyx_n_s_SfErrFileClose; +static PyObject *__pyx_n_s_SfErrFileOpen; +static PyObject *__pyx_n_s_SfErrFileRead; +static PyObject *__pyx_n_s_SfErrFileWrite; +static PyObject *__pyx_n_s_SfErrHeaderNotFound; +static PyObject *__pyx_n_s_SfErrLabelNotFound; +static PyObject *__pyx_n_s_SfErrLineEmpty; +static PyObject *__pyx_n_s_SfErrLineNotFound; +static PyObject *__pyx_n_s_SfErrMcaNotFound; +static PyObject *__pyx_n_s_SfErrMemoryAlloc; +static PyObject *__pyx_n_s_SfErrMotorNotFound; +static PyObject *__pyx_n_s_SfErrPositionNotFound; +static PyObject *__pyx_n_s_SfErrScanNotFound; +static PyObject *__pyx_n_s_SfErrUserNotFound; +static PyObject *__pyx_n_s_SfError; +static PyObject *__pyx_n_s_SfNoMcaError; +static PyObject *__pyx_kp_s_SfNoMca_returned_1; +static PyObject *__pyx_n_s_SpecFile___iter; +static PyObject *__pyx_kp_s_The_scan_identification_key_can; +static PyObject *__pyx_n_s_TypeError; +static PyObject *__pyx_kp_s_Unable_to_parse_file_header_line; +static PyObject *__pyx_kp_s_Unable_to_parse_scan_header_line; +static PyObject *__pyx_kp_s_Valid_keys; +static PyObject *__pyx_n_s_ValueError; +static PyObject *__pyx_kp_s__14; +static PyObject *__pyx_kp_s__25; +static PyObject *__pyx_kp_s__27; +static PyObject *__pyx_kp_s__28; +static PyObject *__pyx_kp_s__7; +static PyObject *__pyx_n_s_add_or_concatenate; +static PyObject *__pyx_n_s_all_calib_values; +static PyObject *__pyx_n_s_all_chann_values; +static PyObject *__pyx_n_s_append; +static PyObject *__pyx_n_s_args; +static PyObject *__pyx_n_s_ascii; +static PyObject *__pyx_n_s_authors; +static PyObject *__pyx_n_s_basicConfig; +static PyObject *__pyx_n_s_calib_line; +static PyObject *__pyx_n_s_calib_lines; +static PyObject *__pyx_n_s_calibration; +static PyObject *__pyx_n_s_chann_line; +static PyObject *__pyx_n_s_chann_lines; +static PyObject *__pyx_n_s_channels; +static PyObject *__pyx_n_s_close; +static PyObject *__pyx_kp_u_d_d; +static PyObject *__pyx_n_s_data; +static PyObject *__pyx_n_s_data_2; +static PyObject *__pyx_n_s_data_column_by_name; +static PyObject *__pyx_n_s_data_line; +static PyObject *__pyx_n_s_date; +static PyObject *__pyx_n_s_decode; +static PyObject *__pyx_n_s_dictionary; +static PyObject *__pyx_n_s_doc; +static PyObject *__pyx_n_s_double; +static PyObject *__pyx_n_s_dtype; +static PyObject *__pyx_n_s_empty; +static PyObject *__pyx_n_s_encode; +static PyObject *__pyx_n_s_enumerate; +static PyObject *__pyx_n_s_f; +static PyObject *__pyx_n_s_file_header; +static PyObject *__pyx_n_s_file_header_dict; +static PyObject *__pyx_n_s_file_header_dict_2; +static PyObject *__pyx_n_s_file_header_lines; +static PyObject *__pyx_n_s_filename; +static PyObject *__pyx_n_s_getLogger; +static PyObject *__pyx_n_s_get_error_string; +static PyObject *__pyx_n_s_get_mca; +static PyObject *__pyx_n_s_getitem; +static PyObject *__pyx_n_s_group; +static PyObject *__pyx_n_s_handle_error; +static PyObject *__pyx_n_s_header; +static PyObject *__pyx_n_s_header_2; +static PyObject *__pyx_n_s_hkey; +static PyObject *__pyx_n_s_hvalue; +static PyObject *__pyx_n_s_i; +static PyObject *__pyx_n_s_import; +static PyObject *__pyx_n_s_increment; +static PyObject *__pyx_n_s_index; +static PyObject *__pyx_n_s_index_2; +static PyObject *__pyx_n_s_init; +static PyObject *__pyx_n_s_is_specfile; +static PyObject *__pyx_n_s_isfile; +static PyObject *__pyx_n_s_iter; +static PyObject *__pyx_n_s_join; +static PyObject *__pyx_n_s_key; +static PyObject *__pyx_n_s_keys; +static PyObject *__pyx_n_s_label; +static PyObject *__pyx_n_s_labels; +static PyObject *__pyx_n_s_labels_2; +static PyObject *__pyx_n_s_len; +static PyObject *__pyx_n_s_length; +static PyObject *__pyx_n_s_license; +static PyObject *__pyx_n_s_line; +static PyObject *__pyx_n_s_line_index; +static PyObject *__pyx_n_s_list; +static PyObject *__pyx_n_s_logger; +static PyObject *__pyx_n_s_logging; +static PyObject *__pyx_n_s_lstrip; +static PyObject *__pyx_n_s_main; +static PyObject *__pyx_n_s_map; +static PyObject *__pyx_n_s_match; +static PyObject *__pyx_n_s_match_mca; +static PyObject *__pyx_n_s_mca; +static PyObject *__pyx_n_s_mca_2; +static PyObject *__pyx_n_s_mca_header_dict; +static PyObject *__pyx_n_s_mca_header_dict_2; +static PyObject *__pyx_n_s_mca_index; +static PyObject *__pyx_n_s_metaclass; +static PyObject *__pyx_n_s_module; +static PyObject *__pyx_n_s_motor_names; +static PyObject *__pyx_n_s_motor_names_2; +static PyObject *__pyx_n_s_motor_position_by_name; +static PyObject *__pyx_n_s_motor_positions; +static PyObject *__pyx_n_s_motor_positions_2; +static PyObject *__pyx_n_s_msg; +static PyObject *__pyx_n_s_name; +static PyObject *__pyx_n_s_name_2; +static PyObject *__pyx_kp_u_ndarray_is_not_C_contiguous; +static PyObject *__pyx_kp_u_ndarray_is_not_Fortran_contiguou; +static PyObject *__pyx_n_s_number; +static PyObject *__pyx_n_s_number_2; +static PyObject *__pyx_kp_s_number_and_M_the_order_eg_2_3; +static PyObject *__pyx_n_s_number_of_mca; +static PyObject *__pyx_n_s_numpy; +static PyObject *__pyx_n_s_object; +static PyObject *__pyx_n_s_one_line_calib_values; +static PyObject *__pyx_n_s_one_line_chann_values; +static PyObject *__pyx_n_s_open; +static PyObject *__pyx_n_s_order; +static PyObject *__pyx_n_s_order_2; +static PyObject *__pyx_n_s_os; +static PyObject *__pyx_n_s_os_path; +static PyObject *__pyx_kp_s_param_scan_Parent_Scan_instance; +static PyObject *__pyx_kp_s_param_specfile_Parent_SpecFile; +static PyObject *__pyx_n_s_parse_calibration; +static PyObject *__pyx_n_s_parse_channels; +static PyObject *__pyx_n_s_path; +static PyObject *__pyx_n_s_prepare; +static PyObject *__pyx_n_s_property; +static PyObject *__pyx_n_s_qualname; +static PyObject *__pyx_n_s_range; +static PyObject *__pyx_n_s_re; +static PyObject *__pyx_n_s_record; +static PyObject *__pyx_n_s_record_exists_in_hdr; +static PyObject *__pyx_n_s_ret; +static PyObject *__pyx_n_s_scan; +static PyObject *__pyx_n_s_scan_2; +static PyObject *__pyx_n_s_scan_header; +static PyObject *__pyx_n_s_scan_header_dict; +static PyObject *__pyx_n_s_scan_header_dict_2; +static PyObject *__pyx_n_s_scan_header_lines; +static PyObject *__pyx_n_s_scan_index; +static PyObject *__pyx_n_s_scan_number; +static PyObject *__pyx_n_s_scan_order; +static PyObject *__pyx_n_s_search; +static PyObject *__pyx_n_s_self; +static PyObject *__pyx_n_s_send; +static PyObject *__pyx_n_s_shape; +static PyObject *__pyx_n_s_specfile; +static PyObject *__pyx_n_s_specfile_2; +static PyObject *__pyx_n_s_split; +static PyObject *__pyx_n_s_start; +static PyObject *__pyx_n_s_startswith; +static PyObject *__pyx_n_s_stop; +static PyObject *__pyx_n_s_string; +static PyObject *__pyx_n_s_string_to_char_star; +static PyObject *__pyx_n_s_strip; +static PyObject *__pyx_n_s_sub; +static PyObject *__pyx_n_s_sys; +static PyObject *__pyx_n_s_test; +static PyObject *__pyx_kp_s_the_unique_scan_index_or_a_strin; +static PyObject *__pyx_n_s_throw; +static PyObject *__pyx_n_s_transpose; +static PyObject *__pyx_kp_u_unknown_dtype_code_in_numpy_pxd; +static PyObject *__pyx_kp_s_users_payno_Documents_dev_esrf; +static PyObject *__pyx_n_s_value; +static PyObject *__pyx_n_s_version; +static PyObject *__pyx_n_s_version_info; +static PyObject *__pyx_kp_s_w; +static PyObject *__pyx_kp_s_w_2; +static PyObject *__pyx_n_s_warning; +static PyObject *__pyx_float_0_; +static PyObject *__pyx_float_1_; +static PyObject *__pyx_int_0; +static PyObject *__pyx_int_1; +static PyObject *__pyx_int_2; +static PyObject *__pyx_int_3; +static PyObject *__pyx_int_4; +static PyObject *__pyx_int_5; +static PyObject *__pyx_int_6; +static PyObject *__pyx_int_7; +static PyObject *__pyx_int_8; +static PyObject *__pyx_int_9; +static PyObject *__pyx_int_10; +static PyObject *__pyx_int_11; +static PyObject *__pyx_int_12; +static PyObject *__pyx_int_13; +static PyObject *__pyx_int_14; +static PyObject *__pyx_int_15; +static PyObject *__pyx_int_neg_1; +static PyObject *__pyx_tuple__2; +static PyObject *__pyx_tuple__3; +static PyObject *__pyx_tuple__4; +static PyObject *__pyx_tuple__5; +static PyObject *__pyx_tuple__6; +static PyObject *__pyx_tuple__8; +static PyObject *__pyx_tuple__9; +static PyObject *__pyx_slice__19; +static PyObject *__pyx_tuple__10; +static PyObject *__pyx_tuple__11; +static PyObject *__pyx_tuple__12; +static PyObject *__pyx_tuple__13; +static PyObject *__pyx_tuple__15; +static PyObject *__pyx_tuple__16; +static PyObject *__pyx_tuple__17; +static PyObject *__pyx_tuple__18; +static PyObject *__pyx_tuple__20; +static PyObject *__pyx_tuple__21; +static PyObject *__pyx_tuple__22; +static PyObject *__pyx_tuple__23; +static PyObject *__pyx_tuple__24; +static PyObject *__pyx_tuple__26; +static PyObject *__pyx_tuple__30; +static PyObject *__pyx_tuple__31; +static PyObject *__pyx_tuple__32; +static PyObject *__pyx_tuple__33; +static PyObject *__pyx_tuple__34; +static PyObject *__pyx_tuple__35; +static PyObject *__pyx_tuple__36; +static PyObject *__pyx_tuple__37; +static PyObject *__pyx_tuple__39; +static PyObject *__pyx_tuple__41; +static PyObject *__pyx_tuple__43; +static PyObject *__pyx_tuple__45; +static PyObject *__pyx_tuple__47; +static PyObject *__pyx_tuple__49; +static PyObject *__pyx_tuple__51; +static PyObject *__pyx_tuple__53; +static PyObject *__pyx_tuple__55; +static PyObject *__pyx_tuple__57; +static PyObject *__pyx_tuple__59; +static PyObject *__pyx_tuple__61; +static PyObject *__pyx_tuple__63; +static PyObject *__pyx_tuple__65; +static PyObject *__pyx_tuple__67; +static PyObject *__pyx_tuple__69; +static PyObject *__pyx_tuple__71; +static PyObject *__pyx_tuple__73; +static PyObject *__pyx_tuple__75; +static PyObject *__pyx_tuple__77; +static PyObject *__pyx_tuple__79; +static PyObject *__pyx_tuple__81; +static PyObject *__pyx_tuple__83; +static PyObject *__pyx_tuple__85; +static PyObject *__pyx_tuple__87; +static PyObject *__pyx_tuple__89; +static PyObject *__pyx_tuple__91; +static PyObject *__pyx_codeobj__38; +static PyObject *__pyx_codeobj__40; +static PyObject *__pyx_codeobj__42; +static PyObject *__pyx_codeobj__44; +static PyObject *__pyx_codeobj__46; +static PyObject *__pyx_codeobj__48; +static PyObject *__pyx_codeobj__50; +static PyObject *__pyx_codeobj__52; +static PyObject *__pyx_codeobj__54; +static PyObject *__pyx_codeobj__56; +static PyObject *__pyx_codeobj__58; +static PyObject *__pyx_codeobj__60; +static PyObject *__pyx_codeobj__62; +static PyObject *__pyx_codeobj__64; +static PyObject *__pyx_codeobj__66; +static PyObject *__pyx_codeobj__68; +static PyObject *__pyx_codeobj__70; +static PyObject *__pyx_codeobj__72; +static PyObject *__pyx_codeobj__74; +static PyObject *__pyx_codeobj__76; +static PyObject *__pyx_codeobj__78; +static PyObject *__pyx_codeobj__80; +static PyObject *__pyx_codeobj__82; +static PyObject *__pyx_codeobj__84; +static PyObject *__pyx_codeobj__86; +static PyObject *__pyx_codeobj__88; +static PyObject *__pyx_codeobj__90; +static PyObject *__pyx_codeobj__92; + +/* "specfile.pyx":234 + * + * """ + * def __init__(self, scan): # <<<<<<<<<<<<<< + * self._scan = scan + * + */ + +/* Python wrapper */ +static PyObject *__pyx_pw_8specfile_3MCA_1__init__(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds); /*proto*/ +static char __pyx_doc_8specfile_3MCA___init__[] = "MCA.__init__(self, scan)"; +static PyMethodDef __pyx_mdef_8specfile_3MCA_1__init__ = {"__init__", (PyCFunction)__pyx_pw_8specfile_3MCA_1__init__, METH_VARARGS|METH_KEYWORDS, __pyx_doc_8specfile_3MCA___init__}; +static PyObject *__pyx_pw_8specfile_3MCA_1__init__(PyObject *__pyx_self, PyObject *__pyx_args, PyObject *__pyx_kwds) { + PyObject *__pyx_v_self = 0; + PyObject *__pyx_v_scan = 0; + int __pyx_lineno = 0; + const char *__pyx_filename = NULL; + int __pyx_clineno = 0; + PyObject *__pyx_r = 0; + __Pyx_RefNannyDeclarations + __Pyx_RefNannySetupContext("__init__ (wrapper)", 0); + { + static PyObject **__pyx_pyargnames[] = {&__pyx_n_s_self,&__pyx_n_s_scan,0}; + PyObject* values[2] = {0,0}; + if (unlikely(__pyx_kwds)) { + Py_ssize_t kw_args; + const Py_ssize_t pos_args = PyTuple_GET_SIZE(__pyx_args); + switch (pos_args) { + case 2: values[1] = PyTuple_GET_ITEM(__pyx_args, 1); + case 1: values[0] = PyTuple_GET_ITEM(__pyx_args, 0); 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__pyx_obj_8specfile___pyx_scope_struct____iter__ *)o; + tmp = ((PyObject*)p->__pyx_v_self); + p->__pyx_v_self = Py_None; Py_INCREF(Py_None); + Py_XDECREF(tmp); + return 0; +} + +static PyTypeObject __pyx_type_8specfile___pyx_scope_struct____iter__ = { + PyVarObject_HEAD_INIT(0, 0) + "specfile.__pyx_scope_struct____iter__", /*tp_name*/ + sizeof(struct __pyx_obj_8specfile___pyx_scope_struct____iter__), /*tp_basicsize*/ + 0, /*tp_itemsize*/ + __pyx_tp_dealloc_8specfile___pyx_scope_struct____iter__, /*tp_dealloc*/ + 0, /*tp_print*/ + 0, /*tp_getattr*/ + 0, /*tp_setattr*/ + #if PY_MAJOR_VERSION < 3 + 0, /*tp_compare*/ + #else + 0, /*reserved*/ + #endif + 0, /*tp_repr*/ + 0, /*tp_as_number*/ + 0, /*tp_as_sequence*/ + 0, /*tp_as_mapping*/ + 0, /*tp_hash*/ + 0, /*tp_call*/ + 0, /*tp_str*/ + 0, /*tp_getattro*/ + 0, /*tp_setattro*/ + 0, /*tp_as_buffer*/ + Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ + 0, /*tp_doc*/ + __pyx_tp_traverse_8specfile___pyx_scope_struct____iter__, /*tp_traverse*/ + __pyx_tp_clear_8specfile___pyx_scope_struct____iter__, /*tp_clear*/ + 0, /*tp_richcompare*/ + 0, /*tp_weaklistoffset*/ + 0, /*tp_iter*/ + 0, /*tp_iternext*/ + 0, /*tp_methods*/ + 0, /*tp_members*/ + 0, /*tp_getset*/ + 0, /*tp_base*/ + 0, /*tp_dict*/ + 0, /*tp_descr_get*/ + 0, /*tp_descr_set*/ + 0, /*tp_dictoffset*/ + 0, /*tp_init*/ + 0, /*tp_alloc*/ + __pyx_tp_new_8specfile___pyx_scope_struct____iter__, /*tp_new*/ + 0, /*tp_free*/ + 0, /*tp_is_gc*/ + 0, /*tp_bases*/ + 0, /*tp_mro*/ + 0, /*tp_cache*/ + 0, /*tp_subclasses*/ + 0, /*tp_weaklist*/ + 0, /*tp_del*/ + 0, /*tp_version_tag*/ + #if PY_VERSION_HEX >= 0x030400a1 + 0, /*tp_finalize*/ + #endif +}; + +static struct __pyx_obj_8specfile___pyx_scope_struct_1___iter__ *__pyx_freelist_8specfile___pyx_scope_struct_1___iter__[8]; +static int __pyx_freecount_8specfile___pyx_scope_struct_1___iter__ = 0; + +static PyObject *__pyx_tp_new_8specfile___pyx_scope_struct_1___iter__(PyTypeObject *t, CYTHON_UNUSED PyObject *a, CYTHON_UNUSED PyObject *k) { + PyObject *o; + if (CYTHON_COMPILING_IN_CPYTHON && likely((__pyx_freecount_8specfile___pyx_scope_struct_1___iter__ > 0) & (t->tp_basicsize == sizeof(struct __pyx_obj_8specfile___pyx_scope_struct_1___iter__)))) { + o = (PyObject*)__pyx_freelist_8specfile___pyx_scope_struct_1___iter__[--__pyx_freecount_8specfile___pyx_scope_struct_1___iter__]; + memset(o, 0, sizeof(struct __pyx_obj_8specfile___pyx_scope_struct_1___iter__)); + (void) PyObject_INIT(o, t); + PyObject_GC_Track(o); + } else { + o = (*t->tp_alloc)(t, 0); + if (unlikely(!o)) return 0; + } + return o; +} + +static void __pyx_tp_dealloc_8specfile___pyx_scope_struct_1___iter__(PyObject *o) { + struct __pyx_obj_8specfile___pyx_scope_struct_1___iter__ *p = (struct __pyx_obj_8specfile___pyx_scope_struct_1___iter__ *)o; + PyObject_GC_UnTrack(o); + Py_CLEAR(p->__pyx_v_self); + if (CYTHON_COMPILING_IN_CPYTHON 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((PyObject*)p->__pyx_v_self); + p->__pyx_v_self = ((struct __pyx_obj_8specfile_SpecFile *)Py_None); Py_INCREF(Py_None); + Py_XDECREF(tmp); + return 0; +} + +static PyTypeObject __pyx_type_8specfile___pyx_scope_struct_1___iter__ = { + PyVarObject_HEAD_INIT(0, 0) + "specfile.__pyx_scope_struct_1___iter__", /*tp_name*/ + sizeof(struct __pyx_obj_8specfile___pyx_scope_struct_1___iter__), /*tp_basicsize*/ + 0, /*tp_itemsize*/ + __pyx_tp_dealloc_8specfile___pyx_scope_struct_1___iter__, /*tp_dealloc*/ + 0, /*tp_print*/ + 0, /*tp_getattr*/ + 0, /*tp_setattr*/ + #if PY_MAJOR_VERSION < 3 + 0, /*tp_compare*/ + #else + 0, /*reserved*/ + #endif + 0, /*tp_repr*/ + 0, /*tp_as_number*/ + 0, /*tp_as_sequence*/ + 0, /*tp_as_mapping*/ + 0, /*tp_hash*/ + 0, /*tp_call*/ + 0, /*tp_str*/ + 0, /*tp_getattro*/ + 0, /*tp_setattro*/ + 0, /*tp_as_buffer*/ + Py_TPFLAGS_DEFAULT|Py_TPFLAGS_HAVE_VERSION_TAG|Py_TPFLAGS_CHECKTYPES|Py_TPFLAGS_HAVE_NEWBUFFER|Py_TPFLAGS_HAVE_GC, /*tp_flags*/ + 0, /*tp_doc*/ + __pyx_tp_traverse_8specfile___pyx_scope_struct_1___iter__, /*tp_traverse*/ + __pyx_tp_clear_8specfile___pyx_scope_struct_1___iter__, /*tp_clear*/ + 0, /*tp_richcompare*/ + 0, /*tp_weaklistoffset*/ + 0, /*tp_iter*/ + 0, /*tp_iternext*/ + 0, /*tp_methods*/ + 0, /*tp_members*/ + 0, /*tp_getset*/ + 0, /*tp_base*/ + 0, /*tp_dict*/ + 0, /*tp_descr_get*/ + 0, /*tp_descr_set*/ + 0, /*tp_dictoffset*/ + 0, /*tp_init*/ + 0, /*tp_alloc*/ + __pyx_tp_new_8specfile___pyx_scope_struct_1___iter__, /*tp_new*/ + 0, /*tp_free*/ + 0, /*tp_is_gc*/ + 0, /*tp_bases*/ + 0, /*tp_mro*/ + 0, /*tp_cache*/ + 0, /*tp_subclasses*/ + 0, /*tp_weaklist*/ + 0, /*tp_del*/ + 0, /*tp_version_tag*/ + #if PY_VERSION_HEX >= 0x030400a1 + 0, /*tp_finalize*/ + #endif +}; + +static PyMethodDef __pyx_methods[] = { + {0, 0, 0, 0} +}; + +#if PY_MAJOR_VERSION >= 3 +static struct PyModuleDef __pyx_moduledef = { + #if PY_VERSION_HEX < 0x03020000 + { PyObject_HEAD_INIT(NULL) NULL, 0, NULL }, + #else + PyModuleDef_HEAD_INIT, + #endif + 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{&__pyx_n_s_TypeError, __pyx_k_TypeError, sizeof(__pyx_k_TypeError), 0, 0, 1, 1}, + {&__pyx_kp_s_Unable_to_parse_file_header_line, __pyx_k_Unable_to_parse_file_header_line, sizeof(__pyx_k_Unable_to_parse_file_header_line), 0, 0, 1, 0}, + {&__pyx_kp_s_Unable_to_parse_scan_header_line, __pyx_k_Unable_to_parse_scan_header_line, sizeof(__pyx_k_Unable_to_parse_scan_header_line), 0, 0, 1, 0}, + {&__pyx_kp_s_Valid_keys, __pyx_k_Valid_keys, sizeof(__pyx_k_Valid_keys), 0, 0, 1, 0}, + {&__pyx_n_s_ValueError, __pyx_k_ValueError, sizeof(__pyx_k_ValueError), 0, 0, 1, 1}, + {&__pyx_kp_s__14, __pyx_k__14, sizeof(__pyx_k__14), 0, 0, 1, 0}, + {&__pyx_kp_s__25, __pyx_k__25, sizeof(__pyx_k__25), 0, 0, 1, 0}, + {&__pyx_kp_s__27, __pyx_k__27, sizeof(__pyx_k__27), 0, 0, 1, 0}, + {&__pyx_kp_s__28, __pyx_k__28, sizeof(__pyx_k__28), 0, 0, 1, 0}, + {&__pyx_kp_s__7, __pyx_k__7, sizeof(__pyx_k__7), 0, 0, 1, 0}, + {&__pyx_n_s_add_or_concatenate, __pyx_k_add_or_concatenate, sizeof(__pyx_k_add_or_concatenate), 0, 0, 1, 1}, + {&__pyx_n_s_all_calib_values, __pyx_k_all_calib_values, sizeof(__pyx_k_all_calib_values), 0, 0, 1, 1}, + {&__pyx_n_s_all_chann_values, __pyx_k_all_chann_values, sizeof(__pyx_k_all_chann_values), 0, 0, 1, 1}, + {&__pyx_n_s_append, __pyx_k_append, sizeof(__pyx_k_append), 0, 0, 1, 1}, + {&__pyx_n_s_args, __pyx_k_args, sizeof(__pyx_k_args), 0, 0, 1, 1}, + {&__pyx_n_s_ascii, __pyx_k_ascii, sizeof(__pyx_k_ascii), 0, 0, 1, 1}, + {&__pyx_n_s_authors, __pyx_k_authors, sizeof(__pyx_k_authors), 0, 0, 1, 1}, + {&__pyx_n_s_basicConfig, __pyx_k_basicConfig, sizeof(__pyx_k_basicConfig), 0, 0, 1, 1}, + {&__pyx_n_s_calib_line, __pyx_k_calib_line, sizeof(__pyx_k_calib_line), 0, 0, 1, 1}, + {&__pyx_n_s_calib_lines, __pyx_k_calib_lines, sizeof(__pyx_k_calib_lines), 0, 0, 1, 1}, + {&__pyx_n_s_calibration, __pyx_k_calibration, sizeof(__pyx_k_calibration), 0, 0, 1, 1}, + {&__pyx_n_s_chann_line, __pyx_k_chann_line, sizeof(__pyx_k_chann_line), 0, 0, 1, 1}, + {&__pyx_n_s_chann_lines, __pyx_k_chann_lines, sizeof(__pyx_k_chann_lines), 0, 0, 1, 1}, + {&__pyx_n_s_channels, __pyx_k_channels, sizeof(__pyx_k_channels), 0, 0, 1, 1}, + {&__pyx_n_s_close, __pyx_k_close, sizeof(__pyx_k_close), 0, 0, 1, 1}, + {&__pyx_kp_u_d_d, __pyx_k_d_d, sizeof(__pyx_k_d_d), 0, 1, 0, 0}, + {&__pyx_n_s_data, __pyx_k_data, sizeof(__pyx_k_data), 0, 0, 1, 1}, + {&__pyx_n_s_data_2, __pyx_k_data_2, sizeof(__pyx_k_data_2), 0, 0, 1, 1}, + {&__pyx_n_s_data_column_by_name, __pyx_k_data_column_by_name, sizeof(__pyx_k_data_column_by_name), 0, 0, 1, 1}, + {&__pyx_n_s_data_line, __pyx_k_data_line, sizeof(__pyx_k_data_line), 0, 0, 1, 1}, + {&__pyx_n_s_date, __pyx_k_date, sizeof(__pyx_k_date), 0, 0, 1, 1}, + {&__pyx_n_s_decode, __pyx_k_decode, sizeof(__pyx_k_decode), 0, 0, 1, 1}, + {&__pyx_n_s_dictionary, __pyx_k_dictionary, sizeof(__pyx_k_dictionary), 0, 0, 1, 1}, + {&__pyx_n_s_doc, __pyx_k_doc, sizeof(__pyx_k_doc), 0, 0, 1, 1}, + {&__pyx_n_s_double, __pyx_k_double, sizeof(__pyx_k_double), 0, 0, 1, 1}, + {&__pyx_n_s_dtype, __pyx_k_dtype, sizeof(__pyx_k_dtype), 0, 0, 1, 1}, + {&__pyx_n_s_empty, __pyx_k_empty, sizeof(__pyx_k_empty), 0, 0, 1, 1}, + {&__pyx_n_s_encode, __pyx_k_encode, sizeof(__pyx_k_encode), 0, 0, 1, 1}, + {&__pyx_n_s_enumerate, __pyx_k_enumerate, sizeof(__pyx_k_enumerate), 0, 0, 1, 1}, + {&__pyx_n_s_f, __pyx_k_f, sizeof(__pyx_k_f), 0, 0, 1, 1}, + {&__pyx_n_s_file_header, __pyx_k_file_header, sizeof(__pyx_k_file_header), 0, 0, 1, 1}, + {&__pyx_n_s_file_header_dict, __pyx_k_file_header_dict, sizeof(__pyx_k_file_header_dict), 0, 0, 1, 1}, + {&__pyx_n_s_file_header_dict_2, __pyx_k_file_header_dict_2, sizeof(__pyx_k_file_header_dict_2), 0, 0, 1, 1}, + {&__pyx_n_s_file_header_lines, __pyx_k_file_header_lines, sizeof(__pyx_k_file_header_lines), 0, 0, 1, 1}, + {&__pyx_n_s_filename, __pyx_k_filename, sizeof(__pyx_k_filename), 0, 0, 1, 1}, + {&__pyx_n_s_getLogger, __pyx_k_getLogger, sizeof(__pyx_k_getLogger), 0, 0, 1, 1}, + {&__pyx_n_s_get_error_string, __pyx_k_get_error_string, sizeof(__pyx_k_get_error_string), 0, 0, 1, 1}, + {&__pyx_n_s_get_mca, __pyx_k_get_mca, sizeof(__pyx_k_get_mca), 0, 0, 1, 1}, + {&__pyx_n_s_getitem, __pyx_k_getitem, sizeof(__pyx_k_getitem), 0, 0, 1, 1}, + {&__pyx_n_s_group, __pyx_k_group, sizeof(__pyx_k_group), 0, 0, 1, 1}, + {&__pyx_n_s_handle_error, __pyx_k_handle_error, sizeof(__pyx_k_handle_error), 0, 0, 1, 1}, + {&__pyx_n_s_header, __pyx_k_header, sizeof(__pyx_k_header), 0, 0, 1, 1}, + {&__pyx_n_s_header_2, __pyx_k_header_2, sizeof(__pyx_k_header_2), 0, 0, 1, 1}, + {&__pyx_n_s_hkey, __pyx_k_hkey, sizeof(__pyx_k_hkey), 0, 0, 1, 1}, + {&__pyx_n_s_hvalue, __pyx_k_hvalue, sizeof(__pyx_k_hvalue), 0, 0, 1, 1}, + {&__pyx_n_s_i, __pyx_k_i, sizeof(__pyx_k_i), 0, 0, 1, 1}, + {&__pyx_n_s_import, __pyx_k_import, sizeof(__pyx_k_import), 0, 0, 1, 1}, + {&__pyx_n_s_increment, __pyx_k_increment, sizeof(__pyx_k_increment), 0, 0, 1, 1}, + {&__pyx_n_s_index, __pyx_k_index, sizeof(__pyx_k_index), 0, 0, 1, 1}, + {&__pyx_n_s_index_2, __pyx_k_index_2, sizeof(__pyx_k_index_2), 0, 0, 1, 1}, + {&__pyx_n_s_init, __pyx_k_init, sizeof(__pyx_k_init), 0, 0, 1, 1}, + {&__pyx_n_s_is_specfile, __pyx_k_is_specfile, sizeof(__pyx_k_is_specfile), 0, 0, 1, 1}, + {&__pyx_n_s_isfile, __pyx_k_isfile, sizeof(__pyx_k_isfile), 0, 0, 1, 1}, + {&__pyx_n_s_iter, __pyx_k_iter, sizeof(__pyx_k_iter), 0, 0, 1, 1}, + {&__pyx_n_s_join, __pyx_k_join, sizeof(__pyx_k_join), 0, 0, 1, 1}, + {&__pyx_n_s_key, __pyx_k_key, sizeof(__pyx_k_key), 0, 0, 1, 1}, + {&__pyx_n_s_keys, __pyx_k_keys, sizeof(__pyx_k_keys), 0, 0, 1, 1}, + {&__pyx_n_s_label, __pyx_k_label, sizeof(__pyx_k_label), 0, 0, 1, 1}, + {&__pyx_n_s_labels, __pyx_k_labels, sizeof(__pyx_k_labels), 0, 0, 1, 1}, + {&__pyx_n_s_labels_2, __pyx_k_labels_2, sizeof(__pyx_k_labels_2), 0, 0, 1, 1}, + {&__pyx_n_s_len, __pyx_k_len, sizeof(__pyx_k_len), 0, 0, 1, 1}, + {&__pyx_n_s_length, __pyx_k_length, sizeof(__pyx_k_length), 0, 0, 1, 1}, + {&__pyx_n_s_license, __pyx_k_license, sizeof(__pyx_k_license), 0, 0, 1, 1}, + {&__pyx_n_s_line, __pyx_k_line, sizeof(__pyx_k_line), 0, 0, 1, 1}, + {&__pyx_n_s_line_index, __pyx_k_line_index, sizeof(__pyx_k_line_index), 0, 0, 1, 1}, + {&__pyx_n_s_list, __pyx_k_list, sizeof(__pyx_k_list), 0, 0, 1, 1}, + {&__pyx_n_s_logger, __pyx_k_logger, sizeof(__pyx_k_logger), 0, 0, 1, 1}, + {&__pyx_n_s_logging, __pyx_k_logging, sizeof(__pyx_k_logging), 0, 0, 1, 1}, + {&__pyx_n_s_lstrip, __pyx_k_lstrip, sizeof(__pyx_k_lstrip), 0, 0, 1, 1}, + {&__pyx_n_s_main, __pyx_k_main, sizeof(__pyx_k_main), 0, 0, 1, 1}, + {&__pyx_n_s_map, __pyx_k_map, sizeof(__pyx_k_map), 0, 0, 1, 1}, + {&__pyx_n_s_match, __pyx_k_match, sizeof(__pyx_k_match), 0, 0, 1, 1}, + {&__pyx_n_s_match_mca, __pyx_k_match_mca, sizeof(__pyx_k_match_mca), 0, 0, 1, 1}, + {&__pyx_n_s_mca, __pyx_k_mca, sizeof(__pyx_k_mca), 0, 0, 1, 1}, + {&__pyx_n_s_mca_2, __pyx_k_mca_2, sizeof(__pyx_k_mca_2), 0, 0, 1, 1}, + {&__pyx_n_s_mca_header_dict, __pyx_k_mca_header_dict, sizeof(__pyx_k_mca_header_dict), 0, 0, 1, 1}, + {&__pyx_n_s_mca_header_dict_2, __pyx_k_mca_header_dict_2, sizeof(__pyx_k_mca_header_dict_2), 0, 0, 1, 1}, + {&__pyx_n_s_mca_index, __pyx_k_mca_index, sizeof(__pyx_k_mca_index), 0, 0, 1, 1}, + {&__pyx_n_s_metaclass, __pyx_k_metaclass, sizeof(__pyx_k_metaclass), 0, 0, 1, 1}, + {&__pyx_n_s_module, __pyx_k_module, sizeof(__pyx_k_module), 0, 0, 1, 1}, + {&__pyx_n_s_motor_names, __pyx_k_motor_names, sizeof(__pyx_k_motor_names), 0, 0, 1, 1}, + {&__pyx_n_s_motor_names_2, __pyx_k_motor_names_2, sizeof(__pyx_k_motor_names_2), 0, 0, 1, 1}, + {&__pyx_n_s_motor_position_by_name, __pyx_k_motor_position_by_name, sizeof(__pyx_k_motor_position_by_name), 0, 0, 1, 1}, + {&__pyx_n_s_motor_positions, __pyx_k_motor_positions, sizeof(__pyx_k_motor_positions), 0, 0, 1, 1}, + {&__pyx_n_s_motor_positions_2, __pyx_k_motor_positions_2, sizeof(__pyx_k_motor_positions_2), 0, 0, 1, 1}, + {&__pyx_n_s_msg, __pyx_k_msg, sizeof(__pyx_k_msg), 0, 0, 1, 1}, + {&__pyx_n_s_name, __pyx_k_name, sizeof(__pyx_k_name), 0, 0, 1, 1}, + {&__pyx_n_s_name_2, __pyx_k_name_2, sizeof(__pyx_k_name_2), 0, 0, 1, 1}, + {&__pyx_kp_u_ndarray_is_not_C_contiguous, __pyx_k_ndarray_is_not_C_contiguous, sizeof(__pyx_k_ndarray_is_not_C_contiguous), 0, 1, 0, 0}, + {&__pyx_kp_u_ndarray_is_not_Fortran_contiguou, __pyx_k_ndarray_is_not_Fortran_contiguou, sizeof(__pyx_k_ndarray_is_not_Fortran_contiguou), 0, 1, 0, 0}, + {&__pyx_n_s_number, __pyx_k_number, sizeof(__pyx_k_number), 0, 0, 1, 1}, + {&__pyx_n_s_number_2, __pyx_k_number_2, sizeof(__pyx_k_number_2), 0, 0, 1, 1}, + {&__pyx_kp_s_number_and_M_the_order_eg_2_3, __pyx_k_number_and_M_the_order_eg_2_3, sizeof(__pyx_k_number_and_M_the_order_eg_2_3), 0, 0, 1, 0}, + {&__pyx_n_s_number_of_mca, __pyx_k_number_of_mca, sizeof(__pyx_k_number_of_mca), 0, 0, 1, 1}, + {&__pyx_n_s_numpy, __pyx_k_numpy, sizeof(__pyx_k_numpy), 0, 0, 1, 1}, + {&__pyx_n_s_object, __pyx_k_object, sizeof(__pyx_k_object), 0, 0, 1, 1}, + {&__pyx_n_s_one_line_calib_values, __pyx_k_one_line_calib_values, sizeof(__pyx_k_one_line_calib_values), 0, 0, 1, 1}, + {&__pyx_n_s_one_line_chann_values, __pyx_k_one_line_chann_values, sizeof(__pyx_k_one_line_chann_values), 0, 0, 1, 1}, + {&__pyx_n_s_open, __pyx_k_open, sizeof(__pyx_k_open), 0, 0, 1, 1}, + {&__pyx_n_s_order, __pyx_k_order, sizeof(__pyx_k_order), 0, 0, 1, 1}, + {&__pyx_n_s_order_2, __pyx_k_order_2, sizeof(__pyx_k_order_2), 0, 0, 1, 1}, + {&__pyx_n_s_os, __pyx_k_os, sizeof(__pyx_k_os), 0, 0, 1, 1}, + {&__pyx_n_s_os_path, __pyx_k_os_path, sizeof(__pyx_k_os_path), 0, 0, 1, 1}, + {&__pyx_kp_s_param_scan_Parent_Scan_instance, __pyx_k_param_scan_Parent_Scan_instance, sizeof(__pyx_k_param_scan_Parent_Scan_instance), 0, 0, 1, 0}, + {&__pyx_kp_s_param_specfile_Parent_SpecFile, __pyx_k_param_specfile_Parent_SpecFile, sizeof(__pyx_k_param_specfile_Parent_SpecFile), 0, 0, 1, 0}, + {&__pyx_n_s_parse_calibration, __pyx_k_parse_calibration, sizeof(__pyx_k_parse_calibration), 0, 0, 1, 1}, + {&__pyx_n_s_parse_channels, __pyx_k_parse_channels, sizeof(__pyx_k_parse_channels), 0, 0, 1, 1}, + {&__pyx_n_s_path, __pyx_k_path, sizeof(__pyx_k_path), 0, 0, 1, 1}, + {&__pyx_n_s_prepare, __pyx_k_prepare, sizeof(__pyx_k_prepare), 0, 0, 1, 1}, + {&__pyx_n_s_property, __pyx_k_property, sizeof(__pyx_k_property), 0, 0, 1, 1}, + {&__pyx_n_s_qualname, __pyx_k_qualname, sizeof(__pyx_k_qualname), 0, 0, 1, 1}, + {&__pyx_n_s_range, __pyx_k_range, sizeof(__pyx_k_range), 0, 0, 1, 1}, + {&__pyx_n_s_re, __pyx_k_re, sizeof(__pyx_k_re), 0, 0, 1, 1}, + {&__pyx_n_s_record, __pyx_k_record, sizeof(__pyx_k_record), 0, 0, 1, 1}, + {&__pyx_n_s_record_exists_in_hdr, __pyx_k_record_exists_in_hdr, sizeof(__pyx_k_record_exists_in_hdr), 0, 0, 1, 1}, + {&__pyx_n_s_ret, __pyx_k_ret, sizeof(__pyx_k_ret), 0, 0, 1, 1}, + {&__pyx_n_s_scan, __pyx_k_scan, sizeof(__pyx_k_scan), 0, 0, 1, 1}, + {&__pyx_n_s_scan_2, __pyx_k_scan_2, sizeof(__pyx_k_scan_2), 0, 0, 1, 1}, + {&__pyx_n_s_scan_header, __pyx_k_scan_header, sizeof(__pyx_k_scan_header), 0, 0, 1, 1}, + {&__pyx_n_s_scan_header_dict, __pyx_k_scan_header_dict, sizeof(__pyx_k_scan_header_dict), 0, 0, 1, 1}, + {&__pyx_n_s_scan_header_dict_2, __pyx_k_scan_header_dict_2, sizeof(__pyx_k_scan_header_dict_2), 0, 0, 1, 1}, + {&__pyx_n_s_scan_header_lines, __pyx_k_scan_header_lines, sizeof(__pyx_k_scan_header_lines), 0, 0, 1, 1}, + {&__pyx_n_s_scan_index, __pyx_k_scan_index, sizeof(__pyx_k_scan_index), 0, 0, 1, 1}, + {&__pyx_n_s_scan_number, __pyx_k_scan_number, sizeof(__pyx_k_scan_number), 0, 0, 1, 1}, + {&__pyx_n_s_scan_order, __pyx_k_scan_order, sizeof(__pyx_k_scan_order), 0, 0, 1, 1}, + {&__pyx_n_s_search, __pyx_k_search, sizeof(__pyx_k_search), 0, 0, 1, 1}, + {&__pyx_n_s_self, __pyx_k_self, sizeof(__pyx_k_self), 0, 0, 1, 1}, + {&__pyx_n_s_send, __pyx_k_send, sizeof(__pyx_k_send), 0, 0, 1, 1}, + {&__pyx_n_s_shape, __pyx_k_shape, sizeof(__pyx_k_shape), 0, 0, 1, 1}, + {&__pyx_n_s_specfile, __pyx_k_specfile, sizeof(__pyx_k_specfile), 0, 0, 1, 1}, + {&__pyx_n_s_specfile_2, __pyx_k_specfile_2, 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__pyx_f[1]; __pyx_lineno = 803; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_tuple__35); + __Pyx_GIVEREF(__pyx_tuple__35); + + /* "../../../../../../../../usr/lib/python2.7/dist-packages/Cython/Includes/numpy/__init__.pxd":823 + * t = child.type_num + * if end - f < 5: + * raise RuntimeError(u"Format string allocated too short.") # <<<<<<<<<<<<<< + * + * # Until ticket #99 is fixed, use integers to avoid warnings + */ + __pyx_tuple__36 = PyTuple_Pack(1, __pyx_kp_u_Format_string_allocated_too_shor_2); if (unlikely(!__pyx_tuple__36)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 823; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_tuple__36); + __Pyx_GIVEREF(__pyx_tuple__36); + + /* "specfile.pyx":234 + * + * """ + * def __init__(self, scan): # <<<<<<<<<<<<<< + * self._scan = scan + * + */ + __pyx_tuple__37 = PyTuple_Pack(2, __pyx_n_s_self, __pyx_n_s_scan); if (unlikely(!__pyx_tuple__37)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 234; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_tuple__37); + __Pyx_GIVEREF(__pyx_tuple__37); + __pyx_codeobj__38 = (PyObject*)__Pyx_PyCode_New(2, 0, 2, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__37, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_users_payno_Documents_dev_esrf, __pyx_n_s_init, 234, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__38)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 234; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + + /* "specfile.pyx":252 + * self._parse_channels() + * + * def _parse_channels(self): # <<<<<<<<<<<<<< + * """Fill :attr:`channels`""" + * # Channels list + */ + __pyx_tuple__39 = PyTuple_Pack(9, __pyx_n_s_self, __pyx_n_s_chann_lines, __pyx_n_s_all_chann_values, __pyx_n_s_one_line_chann_values, __pyx_n_s_length, __pyx_n_s_start, __pyx_n_s_stop, __pyx_n_s_increment, __pyx_n_s_chann_line); if (unlikely(!__pyx_tuple__39)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 252; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_tuple__39); + __Pyx_GIVEREF(__pyx_tuple__39); + __pyx_codeobj__40 = (PyObject*)__Pyx_PyCode_New(1, 0, 9, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__39, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_users_payno_Documents_dev_esrf, __pyx_n_s_parse_channels, 252, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__40)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 252; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + + /* "specfile.pyx":267 + * self.channels.append(list(range(start, stop + 1, increment))) + * + * def _parse_calibration(self): # <<<<<<<<<<<<<< + * """Fill :attr:`calibration`""" + * # Channels list + */ + __pyx_tuple__41 = PyTuple_Pack(5, __pyx_n_s_self, __pyx_n_s_calib_lines, __pyx_n_s_all_calib_values, __pyx_n_s_one_line_calib_values, __pyx_n_s_calib_line); if (unlikely(!__pyx_tuple__41)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 267; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_tuple__41); + __Pyx_GIVEREF(__pyx_tuple__41); + __pyx_codeobj__42 = (PyObject*)__Pyx_PyCode_New(1, 0, 5, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__41, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_users_payno_Documents_dev_esrf, __pyx_n_s_parse_calibration, 267, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__42)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 267; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + + /* "specfile.pyx":279 + * self.calibration.append([0., 1., 0.]) + * + * def __len__(self): # <<<<<<<<<<<<<< + * """ + * + */ + __pyx_tuple__43 = PyTuple_Pack(1, __pyx_n_s_self); if (unlikely(!__pyx_tuple__43)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 279; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_tuple__43); + __Pyx_GIVEREF(__pyx_tuple__43); + __pyx_codeobj__44 = (PyObject*)__Pyx_PyCode_New(1, 0, 1, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__43, 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__pyx_clineno = __LINE__; goto __pyx_L1_error;} + + /* "specfile.pyx":625 + * + * + * def is_specfile(filename): # <<<<<<<<<<<<<< + * """Test if a file is a SPEC file, by checking if one of the first two + * lines starts with *#F* (SPEC file header) or *#S* (scan header). + */ + __pyx_tuple__91 = PyTuple_Pack(4, __pyx_n_s_filename, __pyx_n_s_f, __pyx_n_s_i, __pyx_n_s_line); if (unlikely(!__pyx_tuple__91)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 625; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + __Pyx_GOTREF(__pyx_tuple__91); + __Pyx_GIVEREF(__pyx_tuple__91); + __pyx_codeobj__92 = (PyObject*)__Pyx_PyCode_New(1, 0, 4, 0, 0, __pyx_empty_bytes, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_tuple__91, __pyx_empty_tuple, __pyx_empty_tuple, __pyx_kp_s_users_payno_Documents_dev_esrf, __pyx_n_s_is_specfile, 625, __pyx_empty_bytes); if (unlikely(!__pyx_codeobj__92)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 625; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + 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*((PyWrapperDescrObject *)wrapper)->d_base; + __pyx_wrapperbase_8specfile_8SpecFile_11__getitem__.doc = __pyx_doc_8specfile_8SpecFile_11__getitem__; + ((PyWrapperDescrObject *)wrapper)->d_base = &__pyx_wrapperbase_8specfile_8SpecFile_11__getitem__; + } + } + #endif + #if CYTHON_COMPILING_IN_CPYTHON + { + PyObject *wrapper = PyObject_GetAttrString((PyObject *)&__pyx_type_8specfile_SpecFile, "__contains__"); if (unlikely(!wrapper)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 647; __pyx_clineno = __LINE__; goto __pyx_L1_error;} + if (Py_TYPE(wrapper) == &PyWrapperDescr_Type) { + __pyx_wrapperbase_8specfile_8SpecFile_15__contains__ = *((PyWrapperDescrObject *)wrapper)->d_base; + __pyx_wrapperbase_8specfile_8SpecFile_15__contains__.doc = __pyx_doc_8specfile_8SpecFile_15__contains__; + ((PyWrapperDescrObject *)wrapper)->d_base = &__pyx_wrapperbase_8specfile_8SpecFile_15__contains__; + } + } + #endif + if (PyObject_SetAttrString(__pyx_m, "SpecFile", (PyObject 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"" : "s", num_found); +} + +static void __Pyx_RaiseDoubleKeywordsError( + const char* func_name, + PyObject* kw_name) +{ + PyErr_Format(PyExc_TypeError, + #if PY_MAJOR_VERSION >= 3 + "%s() got multiple values for keyword argument '%U'", func_name, kw_name); + #else + "%s() got multiple values for keyword argument '%s'", func_name, + PyString_AsString(kw_name)); + #endif +} + +static int __Pyx_ParseOptionalKeywords( + PyObject *kwds, + PyObject **argnames[], + PyObject *kwds2, + PyObject *values[], + Py_ssize_t num_pos_args, + const char* function_name) +{ + PyObject *key = 0, *value = 0; + Py_ssize_t pos = 0; + PyObject*** name; + PyObject*** first_kw_arg = argnames + num_pos_args; + while (PyDict_Next(kwds, &pos, &key, &value)) { + name = first_kw_arg; + while (*name && (**name != key)) name++; + if (*name) { + values[name-argnames] = value; + continue; + } + name = first_kw_arg; + #if PY_MAJOR_VERSION < 3 + if (likely(PyString_CheckExact(key)) || likely(PyString_Check(key))) { + while (*name) { + if ((CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**name) == PyString_GET_SIZE(key)) + && _PyString_Eq(**name, key)) { + values[name-argnames] = value; + break; + } + name++; + } + if (*name) continue; + else { + PyObject*** argname = argnames; + while (argname != first_kw_arg) { + if ((**argname == key) || ( + (CYTHON_COMPILING_IN_PYPY || PyString_GET_SIZE(**argname) == PyString_GET_SIZE(key)) + && _PyString_Eq(**argname, key))) { + goto arg_passed_twice; + } + argname++; + } + } + } else + #endif + if (likely(PyUnicode_Check(key))) { + while (*name) { + int cmp = (**name == key) ? 0 : + #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 + (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 : + #endif + PyUnicode_Compare(**name, key); + if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; + if (cmp == 0) { + values[name-argnames] = value; + break; + } + name++; + } + if (*name) continue; + else { + PyObject*** argname = argnames; + while (argname != first_kw_arg) { + int cmp = (**argname == key) ? 0 : + #if !CYTHON_COMPILING_IN_PYPY && PY_MAJOR_VERSION >= 3 + (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 : + #endif + PyUnicode_Compare(**argname, key); + if (cmp < 0 && unlikely(PyErr_Occurred())) goto bad; + if (cmp == 0) goto arg_passed_twice; + argname++; + } + } + } else + goto invalid_keyword_type; + if (kwds2) { + if (unlikely(PyDict_SetItem(kwds2, key, value))) goto bad; + } else { + goto invalid_keyword; + } + } + return 0; +arg_passed_twice: + __Pyx_RaiseDoubleKeywordsError(function_name, key); + goto bad; +invalid_keyword_type: + PyErr_Format(PyExc_TypeError, + "%.200s() keywords must be strings", function_name); + goto bad; +invalid_keyword: + PyErr_Format(PyExc_TypeError, + #if PY_MAJOR_VERSION < 3 + "%.200s() got an unexpected keyword argument '%.200s'", + function_name, PyString_AsString(key)); + #else + "%s() got an unexpected keyword argument '%U'", + function_name, key); + #endif +bad: + return -1; +} + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_Call(PyObject *func, PyObject *arg, PyObject *kw) { + PyObject *result; + ternaryfunc call = func->ob_type->tp_call; + if (unlikely(!call)) + return PyObject_Call(func, arg, kw); + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; + result = (*call)(func, arg, kw); + Py_LeaveRecursiveCall(); + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); + } + return result; +} +#endif + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_CallMethO(PyObject *func, PyObject *arg) { + PyObject *self, *result; + PyCFunction cfunc; + cfunc = PyCFunction_GET_FUNCTION(func); + self = PyCFunction_GET_SELF(func); + if (unlikely(Py_EnterRecursiveCall((char*)" while calling a Python object"))) + return NULL; + result = cfunc(self, arg); + Py_LeaveRecursiveCall(); + if (unlikely(!result) && unlikely(!PyErr_Occurred())) { + PyErr_SetString( + PyExc_SystemError, + "NULL result without error in PyObject_Call"); + } + return result; +} +#endif + +#if CYTHON_COMPILING_IN_CPYTHON +static PyObject* __Pyx__PyObject_CallOneArg(PyObject *func, PyObject *arg) { + PyObject *result; + PyObject *args = PyTuple_New(1); + if (unlikely(!args)) return NULL; + Py_INCREF(arg); + PyTuple_SET_ITEM(args, 0, arg); + result = __Pyx_PyObject_Call(func, args, NULL); + Py_DECREF(args); + return result; +} +static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { +#ifdef __Pyx_CyFunction_USED + if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { +#else + if (likely(PyCFunction_Check(func))) { +#endif + if (likely(PyCFunction_GET_FLAGS(func) & METH_O)) { + return __Pyx_PyObject_CallMethO(func, arg); + } + } + return __Pyx__PyObject_CallOneArg(func, arg); +} +#else +static CYTHON_INLINE PyObject* __Pyx_PyObject_CallOneArg(PyObject *func, PyObject *arg) { + PyObject* args = PyTuple_Pack(1, arg); + return (likely(args)) ? __Pyx_PyObject_Call(func, args, NULL) : NULL; +} +#endif + +#if CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyObject_CallNoArg(PyObject *func) { +#ifdef __Pyx_CyFunction_USED + if (likely(PyCFunction_Check(func) || PyObject_TypeCheck(func, __pyx_CyFunctionType))) { +#else + if (likely(PyCFunction_Check(func))) { +#endif + if (likely(PyCFunction_GET_FLAGS(func) & METH_NOARGS)) { + return __Pyx_PyObject_CallMethO(func, NULL); + } + } + return __Pyx_PyObject_Call(func, __pyx_empty_tuple, NULL); +} +#endif + +static CYTHON_INLINE void __Pyx_RaiseTooManyValuesError(Py_ssize_t expected) { + PyErr_Format(PyExc_ValueError, + "too many values to unpack (expected %" CYTHON_FORMAT_SSIZE_T "d)", expected); +} + +static CYTHON_INLINE void __Pyx_RaiseNeedMoreValuesError(Py_ssize_t index) { + PyErr_Format(PyExc_ValueError, + "need more than %" CYTHON_FORMAT_SSIZE_T "d value%.1s to unpack", + index, (index == 1) ? 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+ return -1; + } else { + return __Pyx_IterFinish(); + } + return 0; +} + +static PyObject* __Pyx_PyObject_CallMethod1(PyObject* obj, PyObject* method_name, PyObject* arg) { + PyObject *method, *result = NULL; + method = __Pyx_PyObject_GetAttrStr(obj, method_name); + if (unlikely(!method)) goto bad; +#if CYTHON_COMPILING_IN_CPYTHON + if (likely(PyMethod_Check(method))) { + PyObject *self = PyMethod_GET_SELF(method); + if (likely(self)) { + PyObject *args; + PyObject *function = PyMethod_GET_FUNCTION(method); + args = PyTuple_New(2); + if (unlikely(!args)) goto bad; + Py_INCREF(self); + PyTuple_SET_ITEM(args, 0, self); + Py_INCREF(arg); + PyTuple_SET_ITEM(args, 1, arg); + Py_INCREF(function); + Py_DECREF(method); method = NULL; + result = __Pyx_PyObject_Call(function, args, NULL); + Py_DECREF(args); + Py_DECREF(function); + return result; + } + } +#endif + result = __Pyx_PyObject_CallOneArg(method, arg); +bad: + Py_XDECREF(method); + return result; +} + +static CYTHON_INLINE int __Pyx_PyObject_Append(PyObject* L, PyObject* x) { + if (likely(PyList_CheckExact(L))) { + if (unlikely(__Pyx_PyList_Append(L, x) < 0)) return -1; + } else { + PyObject* retval = __Pyx_PyObject_CallMethod1(L, __pyx_n_s_append, x); + if (unlikely(!retval)) + return -1; + Py_DECREF(retval); + } + return 0; +} + +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Generic(PyObject *o, PyObject* j) { + PyObject *r; + if (!j) return NULL; + r = PyObject_GetItem(o, j); + Py_DECREF(j); + return r; +} +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_List_Fast(PyObject *o, Py_ssize_t i, + int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (wraparound & unlikely(i < 0)) i += PyList_GET_SIZE(o); + if ((!boundscheck) || likely((0 <= i) & (i < PyList_GET_SIZE(o)))) { + PyObject *r = PyList_GET_ITEM(o, i); + Py_INCREF(r); + return r; + } + return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); +#else + return PySequence_GetItem(o, i); +#endif +} +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Tuple_Fast(PyObject *o, Py_ssize_t i, + int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (wraparound & unlikely(i < 0)) i += PyTuple_GET_SIZE(o); + if ((!boundscheck) || likely((0 <= i) & (i < PyTuple_GET_SIZE(o)))) { + PyObject *r = PyTuple_GET_ITEM(o, i); + Py_INCREF(r); + return r; + } + return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); +#else + return PySequence_GetItem(o, i); +#endif +} +static CYTHON_INLINE PyObject *__Pyx_GetItemInt_Fast(PyObject *o, Py_ssize_t i, + int is_list, int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (is_list || PyList_CheckExact(o)) { + Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyList_GET_SIZE(o); + if ((!boundscheck) || (likely((n >= 0) & (n < PyList_GET_SIZE(o))))) { + PyObject *r = PyList_GET_ITEM(o, n); + Py_INCREF(r); + return r; + } + } + else if (PyTuple_CheckExact(o)) { + Py_ssize_t n = ((!wraparound) | likely(i >= 0)) ? i : i + PyTuple_GET_SIZE(o); + if ((!boundscheck) || likely((n >= 0) & (n < PyTuple_GET_SIZE(o)))) { + PyObject *r = PyTuple_GET_ITEM(o, n); + Py_INCREF(r); + return r; + } + } else { + PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; + if (likely(m && m->sq_item)) { + if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { + Py_ssize_t l = m->sq_length(o); + if (likely(l >= 0)) { + i += l; + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + return NULL; + } + } + return m->sq_item(o, i); + } + } +#else + if (is_list || PySequence_Check(o)) { + return PySequence_GetItem(o, i); + } +#endif + return __Pyx_GetItemInt_Generic(o, PyInt_FromSsize_t(i)); +} + +static CYTHON_INLINE void __Pyx_ErrRestore(PyObject *type, PyObject *value, PyObject *tb) { +#if CYTHON_COMPILING_IN_CPYTHON + PyObject *tmp_type, *tmp_value, *tmp_tb; + PyThreadState *tstate = PyThreadState_GET(); + tmp_type = tstate->curexc_type; + tmp_value = tstate->curexc_value; + tmp_tb = tstate->curexc_traceback; + tstate->curexc_type = type; + tstate->curexc_value = value; + tstate->curexc_traceback = tb; + Py_XDECREF(tmp_type); + Py_XDECREF(tmp_value); + Py_XDECREF(tmp_tb); +#else + PyErr_Restore(type, value, tb); +#endif +} +static CYTHON_INLINE void __Pyx_ErrFetch(PyObject **type, PyObject **value, PyObject **tb) { +#if CYTHON_COMPILING_IN_CPYTHON + PyThreadState *tstate = PyThreadState_GET(); + *type = tstate->curexc_type; + *value = tstate->curexc_value; + *tb = tstate->curexc_traceback; + tstate->curexc_type = 0; + tstate->curexc_value = 0; + tstate->curexc_traceback = 0; +#else + PyErr_Fetch(type, value, tb); +#endif +} + +#if PY_MAJOR_VERSION < 3 +static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, + CYTHON_UNUSED PyObject *cause) { + Py_XINCREF(type); + if (!value || value == Py_None) + value = NULL; + else + Py_INCREF(value); + if (!tb || tb == Py_None) + tb = NULL; + else { + Py_INCREF(tb); + if (!PyTraceBack_Check(tb)) { + PyErr_SetString(PyExc_TypeError, + "raise: arg 3 must be a traceback or None"); + goto raise_error; + } + } + if (PyType_Check(type)) { +#if CYTHON_COMPILING_IN_PYPY + if (!value) { + Py_INCREF(Py_None); + value = Py_None; + } +#endif + PyErr_NormalizeException(&type, &value, &tb); + } else { + if (value) { + PyErr_SetString(PyExc_TypeError, + "instance exception may not have a separate value"); + goto raise_error; + } + value = type; + type = (PyObject*) Py_TYPE(type); + Py_INCREF(type); + if (!PyType_IsSubtype((PyTypeObject *)type, (PyTypeObject *)PyExc_BaseException)) { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto raise_error; + } + } + __Pyx_ErrRestore(type, value, tb); + return; +raise_error: + Py_XDECREF(value); + Py_XDECREF(type); + Py_XDECREF(tb); + return; +} +#else +static void __Pyx_Raise(PyObject *type, PyObject *value, PyObject *tb, PyObject *cause) { + PyObject* owned_instance = NULL; + if (tb == Py_None) { + tb = 0; + } else if (tb && !PyTraceBack_Check(tb)) { + PyErr_SetString(PyExc_TypeError, + "raise: arg 3 must be a traceback or None"); + goto bad; + } + if (value == Py_None) + value = 0; + if (PyExceptionInstance_Check(type)) { + if (value) { + PyErr_SetString(PyExc_TypeError, + "instance exception may not have a separate value"); + goto bad; + } + value = type; + type = (PyObject*) Py_TYPE(value); + } else if (PyExceptionClass_Check(type)) { + PyObject *instance_class = NULL; + if (value && PyExceptionInstance_Check(value)) { + instance_class = (PyObject*) Py_TYPE(value); + if (instance_class != type) { + if (PyObject_IsSubclass(instance_class, type)) { + type = instance_class; + } else { + instance_class = NULL; + } + } + } + if (!instance_class) { + PyObject *args; + if (!value) + args = PyTuple_New(0); + else if (PyTuple_Check(value)) { + Py_INCREF(value); + args = value; + } else + args = PyTuple_Pack(1, value); + if (!args) + goto bad; + owned_instance = PyObject_Call(type, args, NULL); + Py_DECREF(args); + if (!owned_instance) + goto bad; + value = owned_instance; + if (!PyExceptionInstance_Check(value)) { + PyErr_Format(PyExc_TypeError, + "calling %R should have returned an instance of " + "BaseException, not %R", + type, Py_TYPE(value)); + goto bad; + } + } + } else { + PyErr_SetString(PyExc_TypeError, + "raise: exception class must be a subclass of BaseException"); + goto bad; + } +#if PY_VERSION_HEX >= 0x03030000 + if (cause) { +#else + if (cause && cause != Py_None) { +#endif + PyObject *fixed_cause; + if (cause == Py_None) { + fixed_cause = NULL; + } else if (PyExceptionClass_Check(cause)) { + fixed_cause = PyObject_CallObject(cause, NULL); + if (fixed_cause == NULL) + goto bad; + } else if (PyExceptionInstance_Check(cause)) { + fixed_cause = cause; + Py_INCREF(fixed_cause); + } else { + PyErr_SetString(PyExc_TypeError, + "exception causes must derive from " + "BaseException"); + goto bad; + } + PyException_SetCause(value, fixed_cause); + } + PyErr_SetObject(type, value); + if (tb) { +#if CYTHON_COMPILING_IN_PYPY + PyObject *tmp_type, *tmp_value, *tmp_tb; + PyErr_Fetch(tmp_type, tmp_value, tmp_tb); + Py_INCREF(tb); + PyErr_Restore(tmp_type, tmp_value, tb); + Py_XDECREF(tmp_tb); +#else + PyThreadState *tstate = PyThreadState_GET(); + PyObject* tmp_tb = tstate->curexc_traceback; + if (tb != tmp_tb) { + Py_INCREF(tb); + tstate->curexc_traceback = tb; + Py_XDECREF(tmp_tb); + } +#endif + } +bad: + Py_XDECREF(owned_instance); + return; +} +#endif + +static CYTHON_INLINE void __Pyx_ExceptionSave(PyObject **type, PyObject **value, PyObject **tb) { +#if CYTHON_COMPILING_IN_CPYTHON + PyThreadState *tstate = PyThreadState_GET(); + *type = tstate->exc_type; + *value = tstate->exc_value; + *tb = tstate->exc_traceback; + Py_XINCREF(*type); + Py_XINCREF(*value); + Py_XINCREF(*tb); +#else + PyErr_GetExcInfo(type, value, tb); +#endif +} +static void __Pyx_ExceptionReset(PyObject *type, PyObject *value, PyObject *tb) { +#if CYTHON_COMPILING_IN_CPYTHON + PyObject *tmp_type, *tmp_value, *tmp_tb; + PyThreadState *tstate = PyThreadState_GET(); + tmp_type = tstate->exc_type; + tmp_value = tstate->exc_value; + tmp_tb = tstate->exc_traceback; + tstate->exc_type = type; + tstate->exc_value = value; + tstate->exc_traceback = tb; + Py_XDECREF(tmp_type); + Py_XDECREF(tmp_value); + Py_XDECREF(tmp_tb); +#else + PyErr_SetExcInfo(type, value, tb); +#endif +} + +static int __Pyx_GetException(PyObject **type, PyObject **value, PyObject **tb) { + PyObject *local_type, *local_value, *local_tb; +#if CYTHON_COMPILING_IN_CPYTHON + PyObject *tmp_type, *tmp_value, *tmp_tb; + PyThreadState *tstate = PyThreadState_GET(); + local_type = tstate->curexc_type; + local_value = tstate->curexc_value; + local_tb = tstate->curexc_traceback; + tstate->curexc_type = 0; + tstate->curexc_value = 0; + tstate->curexc_traceback = 0; +#else + PyErr_Fetch(&local_type, &local_value, &local_tb); +#endif + PyErr_NormalizeException(&local_type, &local_value, &local_tb); +#if CYTHON_COMPILING_IN_CPYTHON + if (unlikely(tstate->curexc_type)) +#else + if (unlikely(PyErr_Occurred())) +#endif + goto bad; + #if PY_MAJOR_VERSION >= 3 + if (local_tb) { + if (unlikely(PyException_SetTraceback(local_value, local_tb) < 0)) + goto bad; + } + #endif + Py_XINCREF(local_tb); + Py_XINCREF(local_type); + Py_XINCREF(local_value); + *type = local_type; + *value = local_value; + *tb = local_tb; +#if CYTHON_COMPILING_IN_CPYTHON + tmp_type = tstate->exc_type; + tmp_value = tstate->exc_value; + tmp_tb = tstate->exc_traceback; + tstate->exc_type = local_type; + tstate->exc_value = local_value; + tstate->exc_traceback = local_tb; + Py_XDECREF(tmp_type); + Py_XDECREF(tmp_value); + Py_XDECREF(tmp_tb); +#else + PyErr_SetExcInfo(local_type, local_value, local_tb); +#endif + return 0; +bad: + *type = 0; + *value = 0; + *tb = 0; + Py_XDECREF(local_type); + Py_XDECREF(local_value); + Py_XDECREF(local_tb); + return -1; +} + +static CYTHON_INLINE PyObject *__Pyx_GetModuleGlobalName(PyObject *name) { + PyObject *result; +#if CYTHON_COMPILING_IN_CPYTHON + result = PyDict_GetItem(__pyx_d, name); + if (likely(result)) { + Py_INCREF(result); + } else { +#else + result = PyObject_GetItem(__pyx_d, name); + if (!result) { + PyErr_Clear(); +#endif + result = __Pyx_GetBuiltinName(name); + } + return result; +} + +static void __Pyx_WriteUnraisable(const char *name, CYTHON_UNUSED int clineno, + CYTHON_UNUSED int lineno, CYTHON_UNUSED const char *filename, + int full_traceback) { + PyObject *old_exc, *old_val, *old_tb; + PyObject *ctx; + __Pyx_ErrFetch(&old_exc, &old_val, &old_tb); + if (full_traceback) { + Py_XINCREF(old_exc); + Py_XINCREF(old_val); + Py_XINCREF(old_tb); + __Pyx_ErrRestore(old_exc, old_val, old_tb); + PyErr_PrintEx(1); + } + #if PY_MAJOR_VERSION < 3 + ctx = PyString_FromString(name); + #else + ctx = PyUnicode_FromString(name); + #endif + __Pyx_ErrRestore(old_exc, old_val, old_tb); + if (!ctx) { + PyErr_WriteUnraisable(Py_None); + } else { + PyErr_WriteUnraisable(ctx); + Py_DECREF(ctx); + } +} + +#if !CYTHON_COMPILING_IN_CPYTHON +static CYTHON_INLINE PyObject* __Pyx_PyBytes_Join(PyObject* sep, PyObject* values) { + return PyObject_CallMethodObjArgs(sep, __pyx_n_s_join, values, NULL); +} +#endif + +static CYTHON_INLINE PyObject* __Pyx_decode_c_bytes( + const char* cstring, Py_ssize_t length, Py_ssize_t start, Py_ssize_t stop, + const char* encoding, const char* errors, + PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { + if (unlikely((start < 0) | (stop < 0))) { + if (start < 0) { + start += length; + if (start < 0) + start = 0; + } + if (stop < 0) + stop += length; + } + if (stop > length) + stop = length; + length = stop - start; + if (unlikely(length <= 0)) + return PyUnicode_FromUnicode(NULL, 0); + cstring += start; + if (decode_func) { + return decode_func(cstring, length, errors); + } else { + return PyUnicode_Decode(cstring, length, encoding, errors); + } +} + +static CYTHON_INLINE int __Pyx_TypeTest(PyObject *obj, PyTypeObject *type) { + if (unlikely(!type)) { + PyErr_SetString(PyExc_SystemError, "Missing type object"); + return 0; + } + if (likely(PyObject_TypeCheck(obj, type))) + return 1; + PyErr_Format(PyExc_TypeError, "Cannot convert %.200s to %.200s", + Py_TYPE(obj)->tp_name, type->tp_name); + return 0; +} + +static CYTHON_INLINE int __Pyx_SetItemInt_Generic(PyObject *o, PyObject *j, PyObject *v) { + int r; + if (!j) return -1; + r = PyObject_SetItem(o, j, v); + Py_DECREF(j); + return r; +} +static CYTHON_INLINE int __Pyx_SetItemInt_Fast(PyObject *o, Py_ssize_t i, PyObject *v, + int is_list, int wraparound, int boundscheck) { +#if CYTHON_COMPILING_IN_CPYTHON + if (is_list || PyList_CheckExact(o)) { + Py_ssize_t n = (!wraparound) ? i : ((likely(i >= 0)) ? i : i + PyList_GET_SIZE(o)); + if ((!boundscheck) || likely((n >= 0) & (n < PyList_GET_SIZE(o)))) { + PyObject* old = PyList_GET_ITEM(o, n); + Py_INCREF(v); + PyList_SET_ITEM(o, n, v); + Py_DECREF(old); + return 1; + } + } else { + PySequenceMethods *m = Py_TYPE(o)->tp_as_sequence; + if (likely(m && m->sq_ass_item)) { + if (wraparound && unlikely(i < 0) && likely(m->sq_length)) { + Py_ssize_t l = m->sq_length(o); + if (likely(l >= 0)) { + i += l; + } else { + if (PyErr_ExceptionMatches(PyExc_OverflowError)) + PyErr_Clear(); + else + return -1; + } + } + return m->sq_ass_item(o, i, v); + } + } +#else +#if CYTHON_COMPILING_IN_PYPY + if (is_list || (PySequence_Check(o) && !PyDict_Check(o))) { +#else + if (is_list || PySequence_Check(o)) { +#endif + return PySequence_SetItem(o, i, v); + } +#endif + return __Pyx_SetItemInt_Generic(o, PyInt_FromSsize_t(i), v); +} + +static CYTHON_INLINE PyObject* __Pyx_decode_c_string( + const char* cstring, Py_ssize_t start, Py_ssize_t stop, + const char* encoding, const char* errors, + PyObject* (*decode_func)(const char *s, Py_ssize_t size, const char *errors)) { + Py_ssize_t length; + if (unlikely((start < 0) | (stop < 0))) { + length = strlen(cstring); + if (start < 0) { + start += length; + if (start < 0) + start = 0; + } + if (stop < 0) + stop += length; + } + length = stop - start; + if (unlikely(length <= 0)) + return PyUnicode_FromUnicode(NULL, 0); + cstring += start; + if (decode_func) { + return decode_func(cstring, length, errors); + } else { + return PyUnicode_Decode(cstring, length, encoding, errors); + } +} + +static CYTHON_INLINE void __Pyx_RaiseNoneNotIterableError(void) { + PyErr_SetString(PyExc_TypeError, "'NoneType' object is not iterable"); +} + +static PyObject *__Pyx_CalculateMetaclass(PyTypeObject *metaclass, PyObject *bases) { + Py_ssize_t i, nbases = PyTuple_GET_SIZE(bases); + for (i=0; i < nbases; i++) { + PyTypeObject *tmptype; + PyObject *tmp = PyTuple_GET_ITEM(bases, i); + tmptype = Py_TYPE(tmp); +#if PY_MAJOR_VERSION < 3 + if (tmptype == &PyClass_Type) + continue; +#endif + if (!metaclass) { + metaclass = tmptype; + continue; + } + if (PyType_IsSubtype(metaclass, tmptype)) + continue; + if (PyType_IsSubtype(tmptype, metaclass)) { + metaclass = tmptype; + continue; + } + PyErr_SetString(PyExc_TypeError, + "metaclass conflict: " + "the metaclass of a derived class " + "must be a (non-strict) subclass " + "of the metaclasses of all its bases"); + return NULL; + } + if (!metaclass) { +#if PY_MAJOR_VERSION < 3 + metaclass = &PyClass_Type; +#else + metaclass = &PyType_Type; +#endif + } + Py_INCREF((PyObject*) metaclass); + return (PyObject*) metaclass; +} + +static PyObject *__Pyx_Py3MetaclassPrepare(PyObject *metaclass, PyObject *bases, PyObject *name, + PyObject *qualname, PyObject *mkw, PyObject *modname, PyObject *doc) { + PyObject *ns; + if (metaclass) { + PyObject *prep = __Pyx_PyObject_GetAttrStr(metaclass, __pyx_n_s_prepare); + if (prep) { + PyObject *pargs = PyTuple_Pack(2, name, bases); + if (unlikely(!pargs)) { + Py_DECREF(prep); + return NULL; + } + ns = PyObject_Call(prep, pargs, mkw); + Py_DECREF(prep); + Py_DECREF(pargs); + } else { + if (unlikely(!PyErr_ExceptionMatches(PyExc_AttributeError))) + return NULL; + PyErr_Clear(); + ns = PyDict_New(); + } + } else { + ns = PyDict_New(); + } + if (unlikely(!ns)) + return NULL; + if (unlikely(PyObject_SetItem(ns, __pyx_n_s_module, modname) < 0)) goto bad; + if (unlikely(PyObject_SetItem(ns, __pyx_n_s_qualname, qualname) < 0)) goto bad; + if (unlikely(doc && PyObject_SetItem(ns, __pyx_n_s_doc, doc) < 0)) goto bad; + return ns; +bad: + Py_DECREF(ns); + return NULL; +} +static PyObject *__Pyx_Py3ClassCreate(PyObject *metaclass, PyObject *name, PyObject *bases, + PyObject *dict, PyObject *mkw, + int calculate_metaclass, int allow_py2_metaclass) { + PyObject *result, *margs; + PyObject *owned_metaclass = NULL; + if (allow_py2_metaclass) { + owned_metaclass = PyObject_GetItem(dict, __pyx_n_s_metaclass); + if (owned_metaclass) { + metaclass = owned_metaclass; + } else if (likely(PyErr_ExceptionMatches(PyExc_KeyError))) { + PyErr_Clear(); + } else { + return NULL; + } + } + if (calculate_metaclass && (!metaclass || PyType_Check(metaclass))) { + metaclass = __Pyx_CalculateMetaclass((PyTypeObject*) metaclass, bases); + Py_XDECREF(owned_metaclass); + if (unlikely(!metaclass)) + return NULL; + owned_metaclass = metaclass; + } + margs = PyTuple_Pack(3, name, bases, dict); + if (unlikely(!margs)) { + result = NULL; + } else { + result = PyObject_Call(metaclass, margs, mkw); + Py_DECREF(margs); + } + Py_XDECREF(owned_metaclass); + return result; +} + +static PyTypeObject* __Pyx_FetchCommonType(PyTypeObject* type) { + PyObject* fake_module; + PyTypeObject* cached_type = NULL; + fake_module = PyImport_AddModule((char*) "_cython_" CYTHON_ABI); + if (!fake_module) return NULL; + Py_INCREF(fake_module); + cached_type = (PyTypeObject*) PyObject_GetAttrString(fake_module, type->tp_name); + if (cached_type) { + if (!PyType_Check((PyObject*)cached_type)) { + PyErr_Format(PyExc_TypeError, + "Shared Cython type %.200s is not a type object", + type->tp_name); + goto bad; + } + if (cached_type->tp_basicsize != type->tp_basicsize) { + PyErr_Format(PyExc_TypeError, + "Shared Cython type %.200s has the wrong size, try recompiling", + type->tp_name); + goto bad; + } + } else { + if (!PyErr_ExceptionMatches(PyExc_AttributeError)) goto bad; + PyErr_Clear(); + if (PyType_Ready(type) < 0) goto bad; + if (PyObject_SetAttrString(fake_module, type->tp_name, (PyObject*) type) < 0) + goto bad; + Py_INCREF(type); + cached_type = type; + } +done: + Py_DECREF(fake_module); + return cached_type; +bad: + Py_XDECREF(cached_type); + cached_type = NULL; + goto done; +} + +static PyObject * +__Pyx_CyFunction_get_doc(__pyx_CyFunctionObject *op, CYTHON_UNUSED void *closure) +{ + if (unlikely(op->func_doc == NULL)) { + if (op->func.m_ml->ml_doc) { +#if PY_MAJOR_VERSION >= 3 + op->func_doc = PyUnicode_FromString(op->func.m_ml->ml_doc); +#else + op->func_doc = PyString_FromString(op->func.m_ml->ml_doc); +#endif + if (unlikely(op->func_doc == NULL)) + return NULL; + } else { + Py_INCREF(Py_None); + return Py_None; + } + } + Py_INCREF(op->func_doc); + return op->func_doc; +} +static int +__Pyx_CyFunction_set_doc(__pyx_CyFunctionObject *op, PyObject *value) +{ + PyObject *tmp = op->func_doc; + if (value == NULL) { + value = Py_None; + } + Py_INCREF(value); + op->func_doc = value; + Py_XDECREF(tmp); + return 0; +} +static PyObject * +__Pyx_CyFunction_get_name(__pyx_CyFunctionObject *op) +{ + if (unlikely(op->func_name == NULL)) { +#if PY_MAJOR_VERSION >= 3 + op->func_name = PyUnicode_InternFromString(op->func.m_ml->ml_name); +#else + op->func_name = PyString_InternFromString(op->func.m_ml->ml_name); +#endif + if (unlikely(op->func_name == NULL)) + return NULL; + } + Py_INCREF(op->func_name); + return op->func_name; +} +static int +__Pyx_CyFunction_set_name(__pyx_CyFunctionObject *op, PyObject *value) +{ + PyObject *tmp; +#if PY_MAJOR_VERSION >= 3 + if (unlikely(value == NULL || !PyUnicode_Check(value))) { +#else + if (unlikely(value == NULL || !PyString_Check(value))) { +#endif + PyErr_SetString(PyExc_TypeError, + "__name__ must be set to a string object"); + return -1; + } + tmp = op->func_name; + Py_INCREF(value); + op->func_name = value; + Py_XDECREF(tmp); + return 0; +} +static PyObject * +__Pyx_CyFunction_get_qualname(__pyx_CyFunctionObject *op) +{ + Py_INCREF(op->func_qualname); + return op->func_qualname; +} +static int +__Pyx_CyFunction_set_qualname(__pyx_CyFunctionObject *op, PyObject *value) +{ + PyObject *tmp; +#if PY_MAJOR_VERSION >= 3 + if (unlikely(value == NULL || !PyUnicode_Check(value))) { +#else + if (unlikely(value == NULL || !PyString_Check(value))) { +#endif + PyErr_SetString(PyExc_TypeError, + "__qualname__ must be set to a string object"); + return -1; + } + tmp = op->func_qualname; + Py_INCREF(value); + op->func_qualname = value; + Py_XDECREF(tmp); + return 0; +} +static PyObject * +__Pyx_CyFunction_get_self(__pyx_CyFunctionObject *m, CYTHON_UNUSED void *closure) +{ + PyObject *self; + self = m->func_closure; + if (self == NULL) + self = Py_None; + Py_INCREF(self); + return self; +} +static PyObject * +__Pyx_CyFunction_get_dict(__pyx_CyFunctionObject *op) +{ + if (unlikely(op->func_dict == NULL)) { + op->func_dict = PyDict_New(); + if (unlikely(op->func_dict == NULL)) + return NULL; + } + Py_INCREF(op->func_dict); + return op->func_dict; +} +static int +__Pyx_CyFunction_set_dict(__pyx_CyFunctionObject *op, PyObject *value) +{ + PyObject *tmp; + if (unlikely(value == NULL)) { + PyErr_SetString(PyExc_TypeError, + "function's dictionary may not be deleted"); + return -1; + } + if (unlikely(!PyDict_Check(value))) { + PyErr_SetString(PyExc_TypeError, + "setting function's dictionary to a non-dict"); + return -1; + } + tmp = op->func_dict; + Py_INCREF(value); + op->func_dict = value; + Py_XDECREF(tmp); + return 0; +} +static PyObject * +__Pyx_CyFunction_get_globals(__pyx_CyFunctionObject *op) +{ + Py_INCREF(op->func_globals); + return op->func_globals; +} +static PyObject * +__Pyx_CyFunction_get_closure(CYTHON_UNUSED __pyx_CyFunctionObject *op) +{ + Py_INCREF(Py_None); + return Py_None; +} +static PyObject * +__Pyx_CyFunction_get_code(__pyx_CyFunctionObject *op) +{ + PyObject* result = (op->func_code) ? op->func_code : Py_None; + Py_INCREF(result); + return result; +} +static int +__Pyx_CyFunction_init_defaults(__pyx_CyFunctionObject *op) { + PyObject *res = op->defaults_getter((PyObject *) op); + if (unlikely(!res)) + return -1; + op->defaults_tuple = PyTuple_GET_ITEM(res, 0); + Py_INCREF(op->defaults_tuple); + op->defaults_kwdict = PyTuple_GET_ITEM(res, 1); + Py_INCREF(op->defaults_kwdict); + Py_DECREF(res); + return 0; +} +static int +__Pyx_CyFunction_set_defaults(__pyx_CyFunctionObject *op, PyObject* value) { + PyObject* tmp; + if (!value) { + value = Py_None; + } else if (value != Py_None && !PyTuple_Check(value)) { + PyErr_SetString(PyExc_TypeError, + "__defaults__ must be set to a tuple object"); + return -1; + } + Py_INCREF(value); + tmp = op->defaults_tuple; + op->defaults_tuple = value; + Py_XDECREF(tmp); + return 0; +} +static PyObject * +__Pyx_CyFunction_get_defaults(__pyx_CyFunctionObject *op) { + PyObject* result = op->defaults_tuple; + if (unlikely(!result)) { + if (op->defaults_getter) { + if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; + result = op->defaults_tuple; + } else { + result = Py_None; + } + } + Py_INCREF(result); + return result; +} +static int +__Pyx_CyFunction_set_kwdefaults(__pyx_CyFunctionObject *op, PyObject* value) { + PyObject* tmp; + if (!value) { + value = Py_None; + } else if (value != Py_None && !PyDict_Check(value)) { + PyErr_SetString(PyExc_TypeError, + "__kwdefaults__ must be set to a dict object"); + return -1; + } + Py_INCREF(value); + tmp = op->defaults_kwdict; + op->defaults_kwdict = value; + Py_XDECREF(tmp); + return 0; +} +static PyObject * +__Pyx_CyFunction_get_kwdefaults(__pyx_CyFunctionObject *op) { + PyObject* result = op->defaults_kwdict; + if (unlikely(!result)) { + if (op->defaults_getter) { + if (__Pyx_CyFunction_init_defaults(op) < 0) return NULL; + result = op->defaults_kwdict; + } else { + result = Py_None; + } + } + Py_INCREF(result); + return result; +} +static int +__Pyx_CyFunction_set_annotations(__pyx_CyFunctionObject *op, PyObject* value) { + PyObject* tmp; + if (!value || value == Py_None) { + value = NULL; + } else if (!PyDict_Check(value)) { + PyErr_SetString(PyExc_TypeError, + "__annotations__ must be set to a dict object"); + return -1; + } + Py_XINCREF(value); + tmp = op->func_annotations; + op->func_annotations = value; + Py_XDECREF(tmp); + return 0; +} +static PyObject * +__Pyx_CyFunction_get_annotations(__pyx_CyFunctionObject *op) { + PyObject* result = op->func_annotations; + if (unlikely(!result)) { + result = PyDict_New(); + if (unlikely(!result)) return NULL; + op->func_annotations = result; + } + Py_INCREF(result); + return result; +} +static PyGetSetDef __pyx_CyFunction_getsets[] = { + {(char *) "func_doc", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, + {(char *) "__doc__", (getter)__Pyx_CyFunction_get_doc, (setter)__Pyx_CyFunction_set_doc, 0, 0}, + {(char *) "func_name", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, + {(char *) "__name__", (getter)__Pyx_CyFunction_get_name, (setter)__Pyx_CyFunction_set_name, 0, 0}, + {(char *) "__qualname__", (getter)__Pyx_CyFunction_get_qualname, (setter)__Pyx_CyFunction_set_qualname, 0, 0}, + {(char *) "__self__", (getter)__Pyx_CyFunction_get_self, 0, 0, 0}, + {(char *) "func_dict", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, + {(char *) "__dict__", (getter)__Pyx_CyFunction_get_dict, (setter)__Pyx_CyFunction_set_dict, 0, 0}, + {(char *) "func_globals", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, + {(char *) "__globals__", (getter)__Pyx_CyFunction_get_globals, 0, 0, 0}, + {(char *) "func_closure", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, + {(char *) "__closure__", (getter)__Pyx_CyFunction_get_closure, 0, 0, 0}, + {(char *) "func_code", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, + {(char *) "__code__", (getter)__Pyx_CyFunction_get_code, 0, 0, 0}, + {(char *) "func_defaults", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, + {(char *) "__defaults__", (getter)__Pyx_CyFunction_get_defaults, (setter)__Pyx_CyFunction_set_defaults, 0, 0}, + {(char *) "__kwdefaults__", (getter)__Pyx_CyFunction_get_kwdefaults, (setter)__Pyx_CyFunction_set_kwdefaults, 0, 0}, + {(char *) "__annotations__", (getter)__Pyx_CyFunction_get_annotations, (setter)__Pyx_CyFunction_set_annotations, 0, 0}, + {0, 0, 0, 0, 0} +}; +#ifndef PY_WRITE_RESTRICTED +#define PY_WRITE_RESTRICTED WRITE_RESTRICTED +#endif +static PyMemberDef __pyx_CyFunction_members[] = { + {(char *) "__module__", T_OBJECT, offsetof(__pyx_CyFunctionObject, func.m_module), PY_WRITE_RESTRICTED, 0}, + {0, 0, 0, 0, 0} +}; +static PyObject * +__Pyx_CyFunction_reduce(__pyx_CyFunctionObject *m, CYTHON_UNUSED PyObject *args) +{ +#if PY_MAJOR_VERSION >= 3 + return PyUnicode_FromString(m->func.m_ml->ml_name); +#else + return PyString_FromString(m->func.m_ml->ml_name); +#endif +} +static PyMethodDef __pyx_CyFunction_methods[] = { + {"__reduce__", (PyCFunction)__Pyx_CyFunction_reduce, METH_VARARGS, 0}, + {0, 0, 0, 0} +}; +#if PY_VERSION_HEX < 0x030500A0 +#define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func_weakreflist) +#else +#define __Pyx_CyFunction_weakreflist(cyfunc) ((cyfunc)->func.m_weakreflist) +#endif +static PyObject *__Pyx_CyFunction_New(PyTypeObject *type, PyMethodDef *ml, int flags, PyObject* qualname, + PyObject *closure, PyObject *module, PyObject* globals, PyObject* code) { + __pyx_CyFunctionObject *op = PyObject_GC_New(__pyx_CyFunctionObject, type); + if (op == NULL) + return NULL; + op->flags = flags; + __Pyx_CyFunction_weakreflist(op) = NULL; + op->func.m_ml = ml; + op->func.m_self = (PyObject *) op; + Py_XINCREF(closure); + op->func_closure = closure; + Py_XINCREF(module); + op->func.m_module = module; + op->func_dict = NULL; + op->func_name = NULL; + Py_INCREF(qualname); + op->func_qualname = qualname; + op->func_doc = NULL; + op->func_classobj = NULL; + op->func_globals = globals; + Py_INCREF(op->func_globals); + Py_XINCREF(code); + op->func_code = code; + op->defaults_pyobjects = 0; + op->defaults = NULL; + op->defaults_tuple = NULL; + op->defaults_kwdict = NULL; + op->defaults_getter = NULL; + op->func_annotations = NULL; + PyObject_GC_Track(op); + return (PyObject *) op; +} +static int +__Pyx_CyFunction_clear(__pyx_CyFunctionObject *m) +{ + Py_CLEAR(m->func_closure); + Py_CLEAR(m->func.m_module); + Py_CLEAR(m->func_dict); + Py_CLEAR(m->func_name); + Py_CLEAR(m->func_qualname); + Py_CLEAR(m->func_doc); + Py_CLEAR(m->func_globals); + Py_CLEAR(m->func_code); + Py_CLEAR(m->func_classobj); + Py_CLEAR(m->defaults_tuple); + Py_CLEAR(m->defaults_kwdict); + Py_CLEAR(m->func_annotations); + if (m->defaults) { + PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); + int i; + for (i = 0; i < m->defaults_pyobjects; i++) + Py_XDECREF(pydefaults[i]); + PyMem_Free(m->defaults); + m->defaults = NULL; + } + return 0; +} +static void __Pyx_CyFunction_dealloc(__pyx_CyFunctionObject *m) +{ + PyObject_GC_UnTrack(m); + if (__Pyx_CyFunction_weakreflist(m) != NULL) + PyObject_ClearWeakRefs((PyObject *) m); + __Pyx_CyFunction_clear(m); + PyObject_GC_Del(m); +} +static int __Pyx_CyFunction_traverse(__pyx_CyFunctionObject *m, visitproc visit, void *arg) +{ + Py_VISIT(m->func_closure); + Py_VISIT(m->func.m_module); + Py_VISIT(m->func_dict); + Py_VISIT(m->func_name); + Py_VISIT(m->func_qualname); + Py_VISIT(m->func_doc); + Py_VISIT(m->func_globals); + Py_VISIT(m->func_code); + Py_VISIT(m->func_classobj); + Py_VISIT(m->defaults_tuple); + Py_VISIT(m->defaults_kwdict); + if (m->defaults) { + PyObject **pydefaults = __Pyx_CyFunction_Defaults(PyObject *, m); + int i; + for (i = 0; i < m->defaults_pyobjects; i++) + Py_VISIT(pydefaults[i]); + } + return 0; +} +static PyObject *__Pyx_CyFunction_descr_get(PyObject *func, PyObject *obj, PyObject *type) +{ + __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; + if (m->flags & __Pyx_CYFUNCTION_STATICMETHOD) { + Py_INCREF(func); + return func; + } + if (m->flags & __Pyx_CYFUNCTION_CLASSMETHOD) { + if (type == NULL) + type = (PyObject *)(Py_TYPE(obj)); + return __Pyx_PyMethod_New(func, type, (PyObject *)(Py_TYPE(type))); + } + if (obj == Py_None) + obj = NULL; + return __Pyx_PyMethod_New(func, obj, type); +} +static PyObject* +__Pyx_CyFunction_repr(__pyx_CyFunctionObject *op) +{ +#if PY_MAJOR_VERSION >= 3 + return PyUnicode_FromFormat("<cyfunction %U at %p>", + op->func_qualname, (void *)op); +#else + return PyString_FromFormat("<cyfunction %s at %p>", + PyString_AsString(op->func_qualname), (void *)op); +#endif +} +#if CYTHON_COMPILING_IN_PYPY +static PyObject * __Pyx_CyFunction_Call(PyObject *func, PyObject *arg, PyObject *kw) { + PyCFunctionObject* f = (PyCFunctionObject*)func; + PyCFunction meth = PyCFunction_GET_FUNCTION(func); + PyObject *self = PyCFunction_GET_SELF(func); + Py_ssize_t size; + switch (PyCFunction_GET_FLAGS(func) & ~(METH_CLASS | METH_STATIC | METH_COEXIST)) { + case METH_VARARGS: + if (likely(kw == NULL) || PyDict_Size(kw) == 0) + return (*meth)(self, arg); + break; + case METH_VARARGS | METH_KEYWORDS: + return (*(PyCFunctionWithKeywords)meth)(self, arg, kw); + case METH_NOARGS: + if (likely(kw == NULL) || PyDict_Size(kw) == 0) { + size = PyTuple_GET_SIZE(arg); + if (size == 0) + return (*meth)(self, NULL); + PyErr_Format(PyExc_TypeError, + "%.200s() takes no arguments (%zd given)", + f->m_ml->ml_name, size); + return NULL; + } + break; + case METH_O: + if (likely(kw == NULL) || PyDict_Size(kw) == 0) { + size = PyTuple_GET_SIZE(arg); + if (size == 1) + return (*meth)(self, PyTuple_GET_ITEM(arg, 0)); + PyErr_Format(PyExc_TypeError, + "%.200s() takes exactly one argument (%zd given)", + f->m_ml->ml_name, size); + return NULL; + } + break; + default: + PyErr_SetString(PyExc_SystemError, "Bad call flags in " + "__Pyx_CyFunction_Call. METH_OLDARGS is no " + "longer supported!"); + return NULL; + } + PyErr_Format(PyExc_TypeError, "%.200s() takes no keyword arguments", + f->m_ml->ml_name); + return NULL; +} +#else +static PyObject * __Pyx_CyFunction_Call(PyObject *func, PyObject *arg, PyObject *kw) { + return PyCFunction_Call(func, arg, kw); +} +#endif +static PyTypeObject __pyx_CyFunctionType_type = { + PyVarObject_HEAD_INIT(0, 0) + "cython_function_or_method", + sizeof(__pyx_CyFunctionObject), + 0, + (destructor) __Pyx_CyFunction_dealloc, + 0, + 0, + 0, +#if PY_MAJOR_VERSION < 3 + 0, +#else + 0, +#endif + (reprfunc) __Pyx_CyFunction_repr, + 0, + 0, + 0, + 0, + __Pyx_CyFunction_Call, + 0, + 0, + 0, + 0, + Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC, + 0, + (traverseproc) __Pyx_CyFunction_traverse, + (inquiry) __Pyx_CyFunction_clear, + 0, +#if PY_VERSION_HEX < 0x030500A0 + offsetof(__pyx_CyFunctionObject, func_weakreflist), +#else + offsetof(PyCFunctionObject, m_weakreflist), +#endif + 0, + 0, + __pyx_CyFunction_methods, + __pyx_CyFunction_members, + __pyx_CyFunction_getsets, + 0, + 0, + __Pyx_CyFunction_descr_get, + 0, + offsetof(__pyx_CyFunctionObject, func_dict), + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, +#if PY_VERSION_HEX >= 0x030400a1 + 0, +#endif +}; +static int __Pyx_CyFunction_init(void) { +#if !CYTHON_COMPILING_IN_PYPY + __pyx_CyFunctionType_type.tp_call = PyCFunction_Call; +#endif + __pyx_CyFunctionType = __Pyx_FetchCommonType(&__pyx_CyFunctionType_type); + if (__pyx_CyFunctionType == NULL) { + return -1; + } + return 0; +} +static CYTHON_INLINE void *__Pyx_CyFunction_InitDefaults(PyObject *func, size_t size, int pyobjects) { + __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; + m->defaults = PyMem_Malloc(size); + if (!m->defaults) + return PyErr_NoMemory(); + memset(m->defaults, 0, size); + m->defaults_pyobjects = pyobjects; + return m->defaults; +} +static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsTuple(PyObject *func, PyObject *tuple) { + __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; + m->defaults_tuple = tuple; + Py_INCREF(tuple); +} +static CYTHON_INLINE void __Pyx_CyFunction_SetDefaultsKwDict(PyObject *func, PyObject *dict) { + __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; + m->defaults_kwdict = dict; + Py_INCREF(dict); +} +static CYTHON_INLINE void __Pyx_CyFunction_SetAnnotationsDict(PyObject *func, PyObject *dict) { + __pyx_CyFunctionObject *m = (__pyx_CyFunctionObject *) func; + m->func_annotations = dict; + Py_INCREF(dict); +} + +static int __pyx_bisect_code_objects(__Pyx_CodeObjectCacheEntry* entries, int count, int code_line) { + int start = 0, mid = 0, end = count - 1; + if (end >= 0 && code_line > entries[end].code_line) { + return count; + } + while (start < end) { + mid = (start + end) / 2; + if (code_line < entries[mid].code_line) { + end = mid; + } else if (code_line > entries[mid].code_line) { + start = mid + 1; + } else { + return mid; + } + } + if (code_line <= entries[mid].code_line) { + return mid; + } else { + return mid + 1; + } +} +static PyCodeObject *__pyx_find_code_object(int code_line) { + PyCodeObject* code_object; + int pos; + if (unlikely(!code_line) || unlikely(!__pyx_code_cache.entries)) { + return NULL; + } + pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); + if (unlikely(pos >= __pyx_code_cache.count) || unlikely(__pyx_code_cache.entries[pos].code_line != code_line)) { + return NULL; + } + code_object = __pyx_code_cache.entries[pos].code_object; + Py_INCREF(code_object); + return code_object; +} +static void __pyx_insert_code_object(int code_line, PyCodeObject* code_object) { + int pos, i; + __Pyx_CodeObjectCacheEntry* entries = __pyx_code_cache.entries; + if (unlikely(!code_line)) { + return; + } + if (unlikely(!entries)) { + entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Malloc(64*sizeof(__Pyx_CodeObjectCacheEntry)); + if (likely(entries)) { + __pyx_code_cache.entries = entries; + __pyx_code_cache.max_count = 64; + __pyx_code_cache.count = 1; + entries[0].code_line = code_line; + entries[0].code_object = code_object; + Py_INCREF(code_object); + } + return; + } + pos = __pyx_bisect_code_objects(__pyx_code_cache.entries, __pyx_code_cache.count, code_line); + if ((pos < __pyx_code_cache.count) && unlikely(__pyx_code_cache.entries[pos].code_line == code_line)) { + PyCodeObject* tmp = entries[pos].code_object; + entries[pos].code_object = code_object; + Py_DECREF(tmp); + return; + } + if (__pyx_code_cache.count == __pyx_code_cache.max_count) { + int new_max = __pyx_code_cache.max_count + 64; + entries = (__Pyx_CodeObjectCacheEntry*)PyMem_Realloc( + __pyx_code_cache.entries, (size_t)new_max*sizeof(__Pyx_CodeObjectCacheEntry)); + if (unlikely(!entries)) { + return; + } + __pyx_code_cache.entries = entries; + __pyx_code_cache.max_count = new_max; + } + for (i=__pyx_code_cache.count; i>pos; i--) { + entries[i] = entries[i-1]; + } + entries[pos].code_line = code_line; + entries[pos].code_object = code_object; + __pyx_code_cache.count++; + Py_INCREF(code_object); +} + +#include "compile.h" +#include "frameobject.h" +#include "traceback.h" +static PyCodeObject* __Pyx_CreateCodeObjectForTraceback( + const char *funcname, int c_line, + int py_line, const char *filename) { + PyCodeObject *py_code = 0; + PyObject *py_srcfile = 0; + PyObject *py_funcname = 0; + #if PY_MAJOR_VERSION < 3 + py_srcfile = PyString_FromString(filename); + #else + py_srcfile = PyUnicode_FromString(filename); + #endif + if (!py_srcfile) goto bad; + if (c_line) { + #if PY_MAJOR_VERSION < 3 + py_funcname = PyString_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); + #else + py_funcname = PyUnicode_FromFormat( "%s (%s:%d)", funcname, __pyx_cfilenm, c_line); + #endif + } + else { + #if PY_MAJOR_VERSION < 3 + py_funcname = PyString_FromString(funcname); + #else + py_funcname = PyUnicode_FromString(funcname); + #endif + } + if (!py_funcname) goto bad; + py_code = __Pyx_PyCode_New( + 0, + 0, + 0, + 0, + 0, + __pyx_empty_bytes, /*PyObject *code,*/ + __pyx_empty_tuple, /*PyObject *consts,*/ + __pyx_empty_tuple, /*PyObject *names,*/ + __pyx_empty_tuple, /*PyObject *varnames,*/ + __pyx_empty_tuple, /*PyObject *freevars,*/ + __pyx_empty_tuple, /*PyObject *cellvars,*/ + py_srcfile, /*PyObject *filename,*/ + py_funcname, /*PyObject *name,*/ + py_line, + __pyx_empty_bytes /*PyObject *lnotab*/ + ); + Py_DECREF(py_srcfile); + Py_DECREF(py_funcname); + return py_code; +bad: + Py_XDECREF(py_srcfile); + Py_XDECREF(py_funcname); + return NULL; +} +static void __Pyx_AddTraceback(const char *funcname, int c_line, + int py_line, const char *filename) { + PyCodeObject *py_code = 0; + PyFrameObject *py_frame = 0; + py_code = __pyx_find_code_object(c_line ? c_line : py_line); + if (!py_code) { + py_code = __Pyx_CreateCodeObjectForTraceback( + funcname, c_line, py_line, filename); + if (!py_code) goto bad; + __pyx_insert_code_object(c_line ? c_line : py_line, py_code); + } + py_frame = PyFrame_New( + PyThreadState_GET(), /*PyThreadState *tstate,*/ + py_code, /*PyCodeObject *code,*/ + __pyx_d, /*PyObject *globals,*/ + 0 /*PyObject *locals*/ + ); + if (!py_frame) goto bad; + py_frame->f_lineno = py_line; + PyTraceBack_Here(py_frame); +bad: + Py_XDECREF(py_code); + Py_XDECREF(py_frame); +} + +static PyObject *__Pyx_Import(PyObject *name, PyObject *from_list, int level) { + PyObject *empty_list = 0; + PyObject *module = 0; + PyObject *global_dict = 0; + PyObject *empty_dict = 0; + PyObject *list; + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_import; + py_import = __Pyx_PyObject_GetAttrStr(__pyx_b, __pyx_n_s_import); + if (!py_import) + goto bad; + #endif + if (from_list) + list = from_list; + else { + empty_list = PyList_New(0); + if (!empty_list) + goto bad; + list = empty_list; + } + global_dict = PyModule_GetDict(__pyx_m); + if (!global_dict) + goto bad; + empty_dict = PyDict_New(); + if (!empty_dict) + goto bad; + { + #if PY_MAJOR_VERSION >= 3 + if (level == -1) { + if (strchr(__Pyx_MODULE_NAME, '.')) { + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_level = PyInt_FromLong(1); + if (!py_level) + goto bad; + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, py_level, NULL); + Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, 1); + #endif + if (!module) { + if (!PyErr_ExceptionMatches(PyExc_ImportError)) + goto bad; + PyErr_Clear(); + } + } + level = 0; + } + #endif + if (!module) { + #if PY_VERSION_HEX < 0x03030000 + PyObject *py_level = PyInt_FromLong(level); + if (!py_level) + goto bad; + module = PyObject_CallFunctionObjArgs(py_import, + name, global_dict, empty_dict, list, py_level, NULL); + Py_DECREF(py_level); + #else + module = PyImport_ImportModuleLevelObject( + name, global_dict, empty_dict, list, level); + #endif + } + } +bad: + #if PY_VERSION_HEX < 0x03030000 + Py_XDECREF(py_import); + #endif + Py_XDECREF(empty_list); + Py_XDECREF(empty_dict); + return module; +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_long(long value) { + const long neg_one = (long) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(long) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(long) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(long) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(long) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(long), + little, !is_unsigned); + } +} + +#define __PYX_VERIFY_RETURN_INT(target_type, func_type, func_value) \ + { \ + func_type value = func_value; \ + if (sizeof(target_type) < sizeof(func_type)) { \ + if (unlikely(value != (func_type) (target_type) value)) { \ + func_type zero = 0; \ + if (is_unsigned && unlikely(value < zero)) \ + goto raise_neg_overflow; \ + else \ + goto raise_overflow; \ + } \ + } \ + return (target_type) value; \ + } + +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + #include "longintrepr.h" + #endif +#endif + +static CYTHON_INLINE int __Pyx_PyInt_As_int(PyObject *x) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(int) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyInt_AS_LONG(x)) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + goto raise_neg_overflow; + } + return (int) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: __PYX_VERIFY_RETURN_INT(int, digit, ((PyLongObject*)x)->ob_digit[0]); + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + goto raise_neg_overflow; + } + if (sizeof(int) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long, PyLong_AsUnsignedLong(x)) + } else if (sizeof(int) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(int, unsigned long long, PyLong_AsUnsignedLongLong(x)) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: __PYX_VERIFY_RETURN_INT(int, digit, +(((PyLongObject*)x)->ob_digit[0])); + case -1: __PYX_VERIFY_RETURN_INT(int, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); + } + #endif +#endif + if (sizeof(int) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(int, long, PyLong_AsLong(x)) + } else if (sizeof(int) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(int, long long, PyLong_AsLongLong(x)) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + int val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (int) -1; + } + } else { + int val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (int) -1; + val = __Pyx_PyInt_As_int(tmp); + Py_DECREF(tmp); + return val; + } +raise_overflow: + PyErr_SetString(PyExc_OverflowError, + "value too large to convert to int"); + return (int) -1; +raise_neg_overflow: + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to int"); + return (int) -1; +} + +static CYTHON_INLINE PyObject* __Pyx_PyInt_From_int(int value) { + const int neg_one = (int) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; + if (is_unsigned) { + if (sizeof(int) < sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(unsigned long)) { + return PyLong_FromUnsignedLong((unsigned long) value); + } else if (sizeof(int) <= sizeof(unsigned long long)) { + return PyLong_FromUnsignedLongLong((unsigned long long) value); + } + } else { + if (sizeof(int) <= sizeof(long)) { + return PyInt_FromLong((long) value); + } else if (sizeof(int) <= sizeof(long long)) { + return PyLong_FromLongLong((long long) value); + } + } + { + int one = 1; int little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&value; + return _PyLong_FromByteArray(bytes, sizeof(int), + little, !is_unsigned); + } +} + +static CYTHON_INLINE long __Pyx_PyInt_As_long(PyObject *x) { + const long neg_one = (long) -1, const_zero = 0; + const int is_unsigned = neg_one > const_zero; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_Check(x))) { + if (sizeof(long) < sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyInt_AS_LONG(x)) + } else { + long val = PyInt_AS_LONG(x); + if (is_unsigned && unlikely(val < 0)) { + goto raise_neg_overflow; + } + return (long) val; + } + } else +#endif + if (likely(PyLong_Check(x))) { + if (is_unsigned) { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: __PYX_VERIFY_RETURN_INT(long, digit, ((PyLongObject*)x)->ob_digit[0]); + } + #endif +#endif + if (unlikely(Py_SIZE(x) < 0)) { + goto raise_neg_overflow; + } + if (sizeof(long) <= sizeof(unsigned long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long, PyLong_AsUnsignedLong(x)) + } else if (sizeof(long) <= sizeof(unsigned long long)) { + __PYX_VERIFY_RETURN_INT(long, unsigned long long, PyLong_AsUnsignedLongLong(x)) + } + } else { +#if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(x)) { + case 0: return 0; + case 1: __PYX_VERIFY_RETURN_INT(long, digit, +(((PyLongObject*)x)->ob_digit[0])); + case -1: __PYX_VERIFY_RETURN_INT(long, sdigit, -(sdigit) ((PyLongObject*)x)->ob_digit[0]); + } + #endif +#endif + if (sizeof(long) <= sizeof(long)) { + __PYX_VERIFY_RETURN_INT(long, long, PyLong_AsLong(x)) + } else if (sizeof(long) <= sizeof(long long)) { + __PYX_VERIFY_RETURN_INT(long, long long, PyLong_AsLongLong(x)) + } + } + { +#if CYTHON_COMPILING_IN_PYPY && !defined(_PyLong_AsByteArray) + PyErr_SetString(PyExc_RuntimeError, + "_PyLong_AsByteArray() not available in PyPy, cannot convert large numbers"); +#else + long val; + PyObject *v = __Pyx_PyNumber_Int(x); + #if PY_MAJOR_VERSION < 3 + if (likely(v) && !PyLong_Check(v)) { + PyObject *tmp = v; + v = PyNumber_Long(tmp); + Py_DECREF(tmp); + } + #endif + if (likely(v)) { + int one = 1; int is_little = (int)*(unsigned char *)&one; + unsigned char *bytes = (unsigned char *)&val; + int ret = _PyLong_AsByteArray((PyLongObject *)v, + bytes, sizeof(val), + is_little, !is_unsigned); + Py_DECREF(v); + if (likely(!ret)) + return val; + } +#endif + return (long) -1; + } + } else { + long val; + PyObject *tmp = __Pyx_PyNumber_Int(x); + if (!tmp) return (long) -1; + val = __Pyx_PyInt_As_long(tmp); + Py_DECREF(tmp); + return val; + } +raise_overflow: + PyErr_SetString(PyExc_OverflowError, + "value too large to convert to long"); + return (long) -1; +raise_neg_overflow: + PyErr_SetString(PyExc_OverflowError, + "can't convert negative value to long"); + return (long) -1; +} + +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { + return ::std::complex< float >(x, y); + } + #else + static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { + return x + y*(__pyx_t_float_complex)_Complex_I; + } + #endif +#else + static CYTHON_INLINE __pyx_t_float_complex __pyx_t_float_complex_from_parts(float x, float y) { + __pyx_t_float_complex z; + z.real = x; + z.imag = y; + return z; + } +#endif + +#if CYTHON_CCOMPLEX +#else + static CYTHON_INLINE int __Pyx_c_eqf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + return (a.real == b.real) && (a.imag == b.imag); + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_sumf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + z.real = a.real + b.real; + z.imag = a.imag + b.imag; + return z; + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_difff(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + z.real = a.real - b.real; + z.imag = a.imag - b.imag; + return z; + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_prodf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + z.real = a.real * b.real - a.imag * b.imag; + z.imag = a.real * b.imag + a.imag * b.real; + return z; + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_quotf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + float denom = b.real * b.real + b.imag * b.imag; + z.real = (a.real * b.real + a.imag * b.imag) / denom; + z.imag = (a.imag * b.real - a.real * b.imag) / denom; + return z; + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_negf(__pyx_t_float_complex a) { + __pyx_t_float_complex z; + z.real = -a.real; + z.imag = -a.imag; + return z; + } + static CYTHON_INLINE int __Pyx_c_is_zerof(__pyx_t_float_complex a) { + return (a.real == 0) && (a.imag == 0); + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_conjf(__pyx_t_float_complex a) { + __pyx_t_float_complex z; + z.real = a.real; + z.imag = -a.imag; + return z; + } + #if 1 + static CYTHON_INLINE float __Pyx_c_absf(__pyx_t_float_complex z) { + #if !defined(HAVE_HYPOT) || defined(_MSC_VER) + return sqrtf(z.real*z.real + z.imag*z.imag); + #else + return hypotf(z.real, z.imag); + #endif + } + static CYTHON_INLINE __pyx_t_float_complex __Pyx_c_powf(__pyx_t_float_complex a, __pyx_t_float_complex b) { + __pyx_t_float_complex z; + float r, lnr, theta, z_r, z_theta; + if (b.imag == 0 && b.real == (int)b.real) { + if (b.real < 0) { + float denom = a.real * a.real + a.imag * a.imag; + a.real = a.real / denom; + a.imag = -a.imag / denom; + b.real = -b.real; + } + switch ((int)b.real) { + case 0: + z.real = 1; + z.imag = 0; + return z; + case 1: + return a; + case 2: + z = __Pyx_c_prodf(a, a); + return __Pyx_c_prodf(a, a); + case 3: + z = __Pyx_c_prodf(a, a); + return __Pyx_c_prodf(z, a); + case 4: + z = __Pyx_c_prodf(a, a); + return __Pyx_c_prodf(z, z); + } + } + if (a.imag == 0) { + if (a.real == 0) { + return a; + } + r = a.real; + theta = 0; + } else { + r = __Pyx_c_absf(a); + theta = atan2f(a.imag, a.real); + } + lnr = logf(r); + z_r = expf(lnr * b.real - theta * b.imag); + z_theta = theta * b.real + lnr * b.imag; + z.real = z_r * cosf(z_theta); + z.imag = z_r * sinf(z_theta); + return z; + } + #endif +#endif + +#if CYTHON_CCOMPLEX + #ifdef __cplusplus + static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { + return ::std::complex< double >(x, y); + } + #else + static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { + return x + y*(__pyx_t_double_complex)_Complex_I; + } + #endif +#else + static CYTHON_INLINE __pyx_t_double_complex __pyx_t_double_complex_from_parts(double x, double y) { + __pyx_t_double_complex z; + z.real = x; + z.imag = y; + return z; + } +#endif + +#if CYTHON_CCOMPLEX +#else + static CYTHON_INLINE int __Pyx_c_eq(__pyx_t_double_complex a, __pyx_t_double_complex b) { + return (a.real == b.real) && (a.imag == b.imag); + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_sum(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + z.real = a.real + b.real; + z.imag = a.imag + b.imag; + return z; + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_diff(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + z.real = a.real - b.real; + z.imag = a.imag - b.imag; + return z; + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_prod(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + z.real = a.real * b.real - a.imag * b.imag; + z.imag = a.real * b.imag + a.imag * b.real; + return z; + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_quot(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + double denom = b.real * b.real + b.imag * b.imag; + z.real = (a.real * b.real + a.imag * b.imag) / denom; + z.imag = (a.imag * b.real - a.real * b.imag) / denom; + return z; + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_neg(__pyx_t_double_complex a) { + __pyx_t_double_complex z; + z.real = -a.real; + z.imag = -a.imag; + return z; + } + static CYTHON_INLINE int __Pyx_c_is_zero(__pyx_t_double_complex a) { + return (a.real == 0) && (a.imag == 0); + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_conj(__pyx_t_double_complex a) { + __pyx_t_double_complex z; + z.real = a.real; + z.imag = -a.imag; + return z; + } + #if 1 + static CYTHON_INLINE double __Pyx_c_abs(__pyx_t_double_complex z) { + #if !defined(HAVE_HYPOT) || defined(_MSC_VER) + return sqrt(z.real*z.real + z.imag*z.imag); + #else + return hypot(z.real, z.imag); + #endif + } + static CYTHON_INLINE __pyx_t_double_complex __Pyx_c_pow(__pyx_t_double_complex a, __pyx_t_double_complex b) { + __pyx_t_double_complex z; + double r, lnr, theta, z_r, z_theta; + if (b.imag == 0 && b.real == (int)b.real) { + if (b.real < 0) { + double denom = a.real * a.real + a.imag * a.imag; + a.real = a.real / denom; + a.imag = -a.imag / denom; + b.real = -b.real; + } + switch ((int)b.real) { + case 0: + z.real = 1; + z.imag = 0; + return z; + case 1: + return a; + case 2: + z = __Pyx_c_prod(a, a); + return __Pyx_c_prod(a, a); + case 3: + z = __Pyx_c_prod(a, a); + return __Pyx_c_prod(z, a); + case 4: + z = __Pyx_c_prod(a, a); + return __Pyx_c_prod(z, z); + } + } + if (a.imag == 0) { + if (a.real == 0) { + return a; + } + r = a.real; + theta = 0; + } else { + r = __Pyx_c_abs(a); + theta = atan2(a.imag, a.real); + } + lnr = log(r); + z_r = exp(lnr * b.real - theta * b.imag); + z_theta = theta * b.real + lnr * b.imag; + z.real = z_r * cos(z_theta); + z.imag = z_r * sin(z_theta); + return z; + } + #endif +#endif + +static CYTHON_INLINE void __Pyx_ExceptionSwap(PyObject **type, PyObject **value, PyObject **tb) { + PyObject *tmp_type, *tmp_value, *tmp_tb; +#if CYTHON_COMPILING_IN_CPYTHON + PyThreadState *tstate = PyThreadState_GET(); + tmp_type = tstate->exc_type; + tmp_value = tstate->exc_value; + tmp_tb = tstate->exc_traceback; + tstate->exc_type = *type; + tstate->exc_value = *value; + tstate->exc_traceback = *tb; +#else + PyErr_GetExcInfo(&tmp_type, &tmp_value, &tmp_tb); + PyErr_SetExcInfo(*type, *value, *tb); +#endif + *type = tmp_type; + *value = tmp_value; + *tb = tmp_tb; +} + +static PyObject *__Pyx_Generator_Next(PyObject *self); +static PyObject *__Pyx_Generator_Send(PyObject *self, PyObject *value); +static PyObject *__Pyx_Generator_Close(PyObject *self); +static PyObject *__Pyx_Generator_Throw(PyObject *gen, PyObject *args); +static PyTypeObject *__pyx_GeneratorType = 0; +#define __Pyx_Generator_CheckExact(obj) (Py_TYPE(obj) == __pyx_GeneratorType) +#define __Pyx_Generator_Undelegate(gen) Py_CLEAR((gen)->yieldfrom) +#if 1 || PY_VERSION_HEX < 0x030300B0 +static int __Pyx_PyGen_FetchStopIterationValue(PyObject **pvalue) { + PyObject *et, *ev, *tb; + PyObject *value = NULL; + __Pyx_ErrFetch(&et, &ev, &tb); + if (!et) { + Py_XDECREF(tb); + Py_XDECREF(ev); + Py_INCREF(Py_None); + *pvalue = Py_None; + return 0; + } + if (unlikely(et != PyExc_StopIteration) && + unlikely(!PyErr_GivenExceptionMatches(et, PyExc_StopIteration))) { + __Pyx_ErrRestore(et, ev, tb); + return -1; + } + if (likely(et == PyExc_StopIteration)) { + if (likely(!ev) || !PyObject_IsInstance(ev, PyExc_StopIteration)) { + if (!ev) { + Py_INCREF(Py_None); + ev = Py_None; + } + Py_XDECREF(tb); + Py_DECREF(et); + *pvalue = ev; + return 0; + } + } + PyErr_NormalizeException(&et, &ev, &tb); + if (unlikely(!PyObject_IsInstance(ev, PyExc_StopIteration))) { + __Pyx_ErrRestore(et, ev, tb); + return -1; + } + Py_XDECREF(tb); + Py_DECREF(et); +#if PY_VERSION_HEX >= 0x030300A0 + value = ((PyStopIterationObject *)ev)->value; + Py_INCREF(value); + Py_DECREF(ev); +#else + { + PyObject* args = PyObject_GetAttr(ev, __pyx_n_s_args); + Py_DECREF(ev); + if (likely(args)) { + value = PyObject_GetItem(args, 0); + Py_DECREF(args); + } + if (unlikely(!value)) { + __Pyx_ErrRestore(NULL, NULL, NULL); + Py_INCREF(Py_None); + value = Py_None; + } + } +#endif + *pvalue = value; + return 0; +} +#endif +static CYTHON_INLINE +void __Pyx_Generator_ExceptionClear(__pyx_GeneratorObject *self) { + PyObject *exc_type = self->exc_type; + PyObject *exc_value = self->exc_value; + PyObject *exc_traceback = self->exc_traceback; + self->exc_type = NULL; + self->exc_value = NULL; + self->exc_traceback = NULL; + Py_XDECREF(exc_type); + Py_XDECREF(exc_value); + Py_XDECREF(exc_traceback); +} +static CYTHON_INLINE +int __Pyx_Generator_CheckRunning(__pyx_GeneratorObject *gen) { + if (unlikely(gen->is_running)) { + PyErr_SetString(PyExc_ValueError, + "generator already executing"); + return 1; + } + return 0; +} +static CYTHON_INLINE +PyObject *__Pyx_Generator_SendEx(__pyx_GeneratorObject *self, PyObject *value) { + PyObject *retval; + assert(!self->is_running); + if (unlikely(self->resume_label == 0)) { + if (unlikely(value && value != Py_None)) { + PyErr_SetString(PyExc_TypeError, + "can't send non-None value to a " + "just-started generator"); + return NULL; + } + } + if (unlikely(self->resume_label == -1)) { + PyErr_SetNone(PyExc_StopIteration); + return NULL; + } + if (value) { +#if CYTHON_COMPILING_IN_PYPY +#else + if (self->exc_traceback) { + PyThreadState *tstate = PyThreadState_GET(); + PyTracebackObject *tb = (PyTracebackObject *) self->exc_traceback; + PyFrameObject *f = tb->tb_frame; + Py_XINCREF(tstate->frame); + assert(f->f_back == NULL); + f->f_back = tstate->frame; + } +#endif + __Pyx_ExceptionSwap(&self->exc_type, &self->exc_value, + &self->exc_traceback); + } else { + __Pyx_Generator_ExceptionClear(self); + } + self->is_running = 1; + retval = self->body((PyObject *) self, value); + self->is_running = 0; + if (retval) { + __Pyx_ExceptionSwap(&self->exc_type, &self->exc_value, + &self->exc_traceback); +#if CYTHON_COMPILING_IN_PYPY +#else + if (self->exc_traceback) { + PyTracebackObject *tb = (PyTracebackObject *) self->exc_traceback; + PyFrameObject *f = tb->tb_frame; + Py_CLEAR(f->f_back); + } +#endif + } else { + __Pyx_Generator_ExceptionClear(self); + } + return retval; +} +static CYTHON_INLINE +PyObject *__Pyx_Generator_FinishDelegation(__pyx_GeneratorObject *gen) { + PyObject *ret; + PyObject *val = NULL; + __Pyx_Generator_Undelegate(gen); + __Pyx_PyGen_FetchStopIterationValue(&val); + ret = __Pyx_Generator_SendEx(gen, val); + Py_XDECREF(val); + return ret; +} +static PyObject *__Pyx_Generator_Next(PyObject *self) { + __pyx_GeneratorObject *gen = (__pyx_GeneratorObject*) self; + PyObject *yf = gen->yieldfrom; + if (unlikely(__Pyx_Generator_CheckRunning(gen))) + return NULL; + if (yf) { + PyObject *ret; + gen->is_running = 1; + ret = Py_TYPE(yf)->tp_iternext(yf); + gen->is_running = 0; + if (likely(ret)) { + return ret; + } + return __Pyx_Generator_FinishDelegation(gen); + } + return __Pyx_Generator_SendEx(gen, Py_None); +} +static PyObject *__Pyx_Generator_Send(PyObject *self, PyObject *value) { + __pyx_GeneratorObject *gen = (__pyx_GeneratorObject*) self; + PyObject *yf = gen->yieldfrom; + if (unlikely(__Pyx_Generator_CheckRunning(gen))) + return NULL; + if (yf) { + PyObject *ret; + gen->is_running = 1; + if (__Pyx_Generator_CheckExact(yf)) { + ret = __Pyx_Generator_Send(yf, value); + } else { + if (value == Py_None) + ret = PyIter_Next(yf); + else + ret = __Pyx_PyObject_CallMethod1(yf, __pyx_n_s_send, value); + } + gen->is_running = 0; + if (likely(ret)) { + return ret; + } + return __Pyx_Generator_FinishDelegation(gen); + } + return __Pyx_Generator_SendEx(gen, value); +} +static int __Pyx_Generator_CloseIter(__pyx_GeneratorObject *gen, PyObject *yf) { + PyObject *retval = NULL; + int err = 0; + if (__Pyx_Generator_CheckExact(yf)) { + retval = __Pyx_Generator_Close(yf); + if (!retval) + return -1; + } else { + PyObject *meth; + gen->is_running = 1; + meth = PyObject_GetAttr(yf, __pyx_n_s_close); + if (unlikely(!meth)) { + if (!PyErr_ExceptionMatches(PyExc_AttributeError)) { + PyErr_WriteUnraisable(yf); + } + PyErr_Clear(); + } else { + retval = PyObject_CallFunction(meth, NULL); + Py_DECREF(meth); + if (!retval) + err = -1; + } + gen->is_running = 0; + } + Py_XDECREF(retval); + return err; +} +static PyObject *__Pyx_Generator_Close(PyObject *self) { + __pyx_GeneratorObject *gen = (__pyx_GeneratorObject *) self; + PyObject *retval, *raised_exception; + PyObject *yf = gen->yieldfrom; + int err = 0; + if (unlikely(__Pyx_Generator_CheckRunning(gen))) + return NULL; + if (yf) { + Py_INCREF(yf); + err = __Pyx_Generator_CloseIter(gen, yf); + __Pyx_Generator_Undelegate(gen); + Py_DECREF(yf); + } + if (err == 0) + PyErr_SetNone(PyExc_GeneratorExit); + retval = __Pyx_Generator_SendEx(gen, NULL); + if (retval) { + Py_DECREF(retval); + PyErr_SetString(PyExc_RuntimeError, + "generator ignored GeneratorExit"); + return NULL; + } + raised_exception = PyErr_Occurred(); + if (!raised_exception + || raised_exception == PyExc_StopIteration + || raised_exception == PyExc_GeneratorExit + || PyErr_GivenExceptionMatches(raised_exception, PyExc_GeneratorExit) + || PyErr_GivenExceptionMatches(raised_exception, PyExc_StopIteration)) + { + if (raised_exception) PyErr_Clear(); + Py_INCREF(Py_None); + return Py_None; + } + return NULL; +} +static PyObject *__Pyx_Generator_Throw(PyObject *self, PyObject *args) { + __pyx_GeneratorObject *gen = (__pyx_GeneratorObject *) self; + PyObject *typ; + PyObject *tb = NULL; + PyObject *val = NULL; + PyObject *yf = gen->yieldfrom; + if (!PyArg_UnpackTuple(args, (char *)"throw", 1, 3, &typ, &val, &tb)) + return NULL; + if (unlikely(__Pyx_Generator_CheckRunning(gen))) + return NULL; + if (yf) { + PyObject *ret; + Py_INCREF(yf); + if (PyErr_GivenExceptionMatches(typ, PyExc_GeneratorExit)) { + int err = __Pyx_Generator_CloseIter(gen, yf); + Py_DECREF(yf); + __Pyx_Generator_Undelegate(gen); + if (err < 0) + return __Pyx_Generator_SendEx(gen, NULL); + goto throw_here; + } + gen->is_running = 1; + if (__Pyx_Generator_CheckExact(yf)) { + ret = __Pyx_Generator_Throw(yf, args); + } else { + PyObject *meth = PyObject_GetAttr(yf, __pyx_n_s_throw); + if (unlikely(!meth)) { + Py_DECREF(yf); + if (!PyErr_ExceptionMatches(PyExc_AttributeError)) { + gen->is_running = 0; + return NULL; + } + PyErr_Clear(); + __Pyx_Generator_Undelegate(gen); + gen->is_running = 0; + goto throw_here; + } + ret = PyObject_CallObject(meth, args); + Py_DECREF(meth); + } + gen->is_running = 0; + Py_DECREF(yf); + if (!ret) { + ret = __Pyx_Generator_FinishDelegation(gen); + } + return ret; + } +throw_here: + __Pyx_Raise(typ, val, tb, NULL); + return __Pyx_Generator_SendEx(gen, NULL); +} +static int __Pyx_Generator_traverse(PyObject *self, visitproc visit, void *arg) { + __pyx_GeneratorObject *gen = (__pyx_GeneratorObject *) self; + Py_VISIT(gen->closure); + Py_VISIT(gen->classobj); + Py_VISIT(gen->yieldfrom); + Py_VISIT(gen->exc_type); + Py_VISIT(gen->exc_value); + Py_VISIT(gen->exc_traceback); + return 0; +} +static int __Pyx_Generator_clear(PyObject *self) { + __pyx_GeneratorObject *gen = (__pyx_GeneratorObject *) self; + Py_CLEAR(gen->closure); + Py_CLEAR(gen->classobj); + Py_CLEAR(gen->yieldfrom); + Py_CLEAR(gen->exc_type); + Py_CLEAR(gen->exc_value); + Py_CLEAR(gen->exc_traceback); + Py_CLEAR(gen->gi_name); + Py_CLEAR(gen->gi_qualname); + return 0; +} +static void __Pyx_Generator_dealloc(PyObject *self) { + __pyx_GeneratorObject *gen = (__pyx_GeneratorObject *) self; + PyObject_GC_UnTrack(gen); + if (gen->gi_weakreflist != NULL) + PyObject_ClearWeakRefs(self); + if (gen->resume_label > 0) { + PyObject_GC_Track(self); +#if PY_VERSION_HEX >= 0x030400a1 + if (PyObject_CallFinalizerFromDealloc(self)) +#else + Py_TYPE(gen)->tp_del(self); + if (self->ob_refcnt > 0) +#endif + { + return; + } + PyObject_GC_UnTrack(self); + } + __Pyx_Generator_clear(self); + PyObject_GC_Del(gen); +} +static void __Pyx_Generator_del(PyObject *self) { + PyObject *res; + PyObject *error_type, *error_value, *error_traceback; + __pyx_GeneratorObject *gen = (__pyx_GeneratorObject *) self; + if (gen->resume_label <= 0) + return ; +#if PY_VERSION_HEX < 0x030400a1 + assert(self->ob_refcnt == 0); + self->ob_refcnt = 1; +#endif + __Pyx_ErrFetch(&error_type, &error_value, &error_traceback); + res = __Pyx_Generator_Close(self); + if (res == NULL) + PyErr_WriteUnraisable(self); + else + Py_DECREF(res); + __Pyx_ErrRestore(error_type, error_value, error_traceback); +#if PY_VERSION_HEX < 0x030400a1 + assert(self->ob_refcnt > 0); + if (--self->ob_refcnt == 0) { + return; + } + { + Py_ssize_t refcnt = self->ob_refcnt; + _Py_NewReference(self); + self->ob_refcnt = refcnt; + } +#if CYTHON_COMPILING_IN_CPYTHON + assert(PyType_IS_GC(self->ob_type) && + _Py_AS_GC(self)->gc.gc_refs != _PyGC_REFS_UNTRACKED); + _Py_DEC_REFTOTAL; +#endif +#ifdef COUNT_ALLOCS + --Py_TYPE(self)->tp_frees; + --Py_TYPE(self)->tp_allocs; +#endif +#endif +} +static PyObject * +__Pyx_Generator_get_name(__pyx_GeneratorObject *self) +{ + Py_INCREF(self->gi_name); + return self->gi_name; +} +static int +__Pyx_Generator_set_name(__pyx_GeneratorObject *self, PyObject *value) +{ + PyObject *tmp; +#if PY_MAJOR_VERSION >= 3 + if (unlikely(value == NULL || !PyUnicode_Check(value))) { +#else + if (unlikely(value == NULL || !PyString_Check(value))) { +#endif + PyErr_SetString(PyExc_TypeError, + "__name__ must be set to a string object"); + return -1; + } + tmp = self->gi_name; + Py_INCREF(value); + self->gi_name = value; + Py_XDECREF(tmp); + return 0; +} +static PyObject * +__Pyx_Generator_get_qualname(__pyx_GeneratorObject *self) +{ + Py_INCREF(self->gi_qualname); + return self->gi_qualname; +} +static int +__Pyx_Generator_set_qualname(__pyx_GeneratorObject *self, PyObject *value) +{ + PyObject *tmp; +#if PY_MAJOR_VERSION >= 3 + if (unlikely(value == NULL || !PyUnicode_Check(value))) { +#else + if (unlikely(value == NULL || !PyString_Check(value))) { +#endif + PyErr_SetString(PyExc_TypeError, + "__qualname__ must be set to a string object"); + return -1; + } + tmp = self->gi_qualname; + Py_INCREF(value); + self->gi_qualname = value; + Py_XDECREF(tmp); + return 0; +} +static PyGetSetDef __pyx_Generator_getsets[] = { + {(char *) "__name__", (getter)__Pyx_Generator_get_name, (setter)__Pyx_Generator_set_name, + (char*) PyDoc_STR("name of the generator"), 0}, + {(char *) "__qualname__", (getter)__Pyx_Generator_get_qualname, (setter)__Pyx_Generator_set_qualname, + (char*) PyDoc_STR("qualified name of the generator"), 0}, + {0, 0, 0, 0, 0} +}; +static PyMemberDef __pyx_Generator_memberlist[] = { + {(char *) "gi_running", T_BOOL, offsetof(__pyx_GeneratorObject, is_running), READONLY, NULL}, + {0, 0, 0, 0, 0} +}; +static PyMethodDef __pyx_Generator_methods[] = { + {"send", (PyCFunction) __Pyx_Generator_Send, METH_O, 0}, + {"throw", (PyCFunction) __Pyx_Generator_Throw, METH_VARARGS, 0}, + {"close", (PyCFunction) __Pyx_Generator_Close, METH_NOARGS, 0}, + {0, 0, 0, 0} +}; +static PyTypeObject __pyx_GeneratorType_type = { + PyVarObject_HEAD_INIT(0, 0) + "generator", + sizeof(__pyx_GeneratorObject), + 0, + (destructor) __Pyx_Generator_dealloc, + 0, + 0, + 0, +#if PY_MAJOR_VERSION < 3 + 0, +#else + 0, +#endif + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + Py_TPFLAGS_DEFAULT | Py_TPFLAGS_HAVE_GC | Py_TPFLAGS_HAVE_FINALIZE, + 0, + (traverseproc) __Pyx_Generator_traverse, + 0, + 0, + offsetof(__pyx_GeneratorObject, gi_weakreflist), + 0, + (iternextfunc) __Pyx_Generator_Next, + __pyx_Generator_methods, + __pyx_Generator_memberlist, + __pyx_Generator_getsets, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, + 0, +#if PY_VERSION_HEX >= 0x030400a1 + 0, +#else + __Pyx_Generator_del, +#endif + 0, +#if PY_VERSION_HEX >= 0x030400a1 + __Pyx_Generator_del, +#endif +}; +static __pyx_GeneratorObject *__Pyx_Generator_New(__pyx_generator_body_t body, + PyObject *closure, PyObject *name, PyObject *qualname) { + __pyx_GeneratorObject *gen = + PyObject_GC_New(__pyx_GeneratorObject, &__pyx_GeneratorType_type); + if (gen == NULL) + return NULL; + gen->body = body; + gen->closure = closure; + Py_XINCREF(closure); + gen->is_running = 0; + gen->resume_label = 0; + gen->classobj = NULL; + gen->yieldfrom = NULL; + gen->exc_type = NULL; + gen->exc_value = NULL; + gen->exc_traceback = NULL; + gen->gi_weakreflist = NULL; + Py_XINCREF(qualname); + gen->gi_qualname = qualname; + Py_XINCREF(name); + gen->gi_name = name; + PyObject_GC_Track(gen); + return gen; +} +static int __pyx_Generator_init(void) { + __pyx_GeneratorType_type.tp_getattro = PyObject_GenericGetAttr; + __pyx_GeneratorType_type.tp_iter = PyObject_SelfIter; + __pyx_GeneratorType = __Pyx_FetchCommonType(&__pyx_GeneratorType_type); + if (__pyx_GeneratorType == NULL) { + return -1; + } + return 0; +} + +static int __Pyx_check_binary_version(void) { + char ctversion[4], rtversion[4]; + PyOS_snprintf(ctversion, 4, "%d.%d", PY_MAJOR_VERSION, PY_MINOR_VERSION); + PyOS_snprintf(rtversion, 4, "%s", Py_GetVersion()); + if (ctversion[0] != rtversion[0] || ctversion[2] != rtversion[2]) { + char message[200]; + PyOS_snprintf(message, sizeof(message), + "compiletime version %s of module '%.100s' " + "does not match runtime version %s", + ctversion, __Pyx_MODULE_NAME, rtversion); + return PyErr_WarnEx(NULL, message, 1); + } + return 0; +} + +#ifndef __PYX_HAVE_RT_ImportModule +#define __PYX_HAVE_RT_ImportModule +static PyObject *__Pyx_ImportModule(const char *name) { + PyObject *py_name = 0; + PyObject *py_module = 0; + py_name = __Pyx_PyIdentifier_FromString(name); + if (!py_name) + goto bad; + py_module = PyImport_Import(py_name); + Py_DECREF(py_name); + return py_module; +bad: + Py_XDECREF(py_name); + return 0; +} +#endif + +#ifndef __PYX_HAVE_RT_ImportType +#define __PYX_HAVE_RT_ImportType +static PyTypeObject *__Pyx_ImportType(const char *module_name, const char *class_name, + size_t size, int strict) +{ + PyObject *py_module = 0; + PyObject *result = 0; + PyObject *py_name = 0; + char warning[200]; + Py_ssize_t basicsize; +#ifdef Py_LIMITED_API + PyObject *py_basicsize; +#endif + py_module = __Pyx_ImportModule(module_name); + if (!py_module) + goto bad; + py_name = __Pyx_PyIdentifier_FromString(class_name); + if (!py_name) + goto bad; + result = PyObject_GetAttr(py_module, py_name); + Py_DECREF(py_name); + py_name = 0; + Py_DECREF(py_module); + py_module = 0; + if (!result) + goto bad; + if (!PyType_Check(result)) { + PyErr_Format(PyExc_TypeError, + "%.200s.%.200s is not a type object", + module_name, class_name); + goto bad; + } +#ifndef Py_LIMITED_API + basicsize = ((PyTypeObject *)result)->tp_basicsize; +#else + py_basicsize = PyObject_GetAttrString(result, "__basicsize__"); + if (!py_basicsize) + goto bad; + basicsize = PyLong_AsSsize_t(py_basicsize); + Py_DECREF(py_basicsize); + py_basicsize = 0; + if (basicsize == (Py_ssize_t)-1 && PyErr_Occurred()) + goto bad; +#endif + if (!strict && (size_t)basicsize > size) { + PyOS_snprintf(warning, sizeof(warning), + "%s.%s size changed, may indicate binary incompatibility", + module_name, class_name); + if (PyErr_WarnEx(NULL, warning, 0) < 0) goto bad; + } + else if ((size_t)basicsize != size) { + PyErr_Format(PyExc_ValueError, + "%.200s.%.200s has the wrong size, try recompiling", + module_name, class_name); + goto bad; + } + return (PyTypeObject *)result; +bad: + Py_XDECREF(py_module); + Py_XDECREF(result); + return NULL; +} +#endif + +static int __Pyx_InitStrings(__Pyx_StringTabEntry *t) { + while (t->p) { + #if PY_MAJOR_VERSION < 3 + if (t->is_unicode) { + *t->p = PyUnicode_DecodeUTF8(t->s, t->n - 1, NULL); + } else if (t->intern) { + *t->p = PyString_InternFromString(t->s); + } else { + *t->p = PyString_FromStringAndSize(t->s, t->n - 1); + } + #else + if (t->is_unicode | t->is_str) { + if (t->intern) { + *t->p = PyUnicode_InternFromString(t->s); + } else if (t->encoding) { + *t->p = PyUnicode_Decode(t->s, t->n - 1, t->encoding, NULL); + } else { + *t->p = PyUnicode_FromStringAndSize(t->s, t->n - 1); + } + } else { + *t->p = PyBytes_FromStringAndSize(t->s, t->n - 1); + } + #endif + if (!*t->p) + return -1; + ++t; + } + return 0; +} + +static CYTHON_INLINE PyObject* __Pyx_PyUnicode_FromString(const char* c_str) { + return __Pyx_PyUnicode_FromStringAndSize(c_str, (Py_ssize_t)strlen(c_str)); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsString(PyObject* o) { + Py_ssize_t ignore; + return __Pyx_PyObject_AsStringAndSize(o, &ignore); +} +static CYTHON_INLINE char* __Pyx_PyObject_AsStringAndSize(PyObject* o, Py_ssize_t *length) { +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII || __PYX_DEFAULT_STRING_ENCODING_IS_DEFAULT + if ( +#if PY_MAJOR_VERSION < 3 && __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + __Pyx_sys_getdefaultencoding_not_ascii && +#endif + PyUnicode_Check(o)) { +#if PY_VERSION_HEX < 0x03030000 + char* defenc_c; + PyObject* defenc = _PyUnicode_AsDefaultEncodedString(o, NULL); + if (!defenc) return NULL; + defenc_c = PyBytes_AS_STRING(defenc); +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + { + char* end = defenc_c + PyBytes_GET_SIZE(defenc); + char* c; + for (c = defenc_c; c < end; c++) { + if ((unsigned char) (*c) >= 128) { + PyUnicode_AsASCIIString(o); + return NULL; + } + } + } +#endif + *length = PyBytes_GET_SIZE(defenc); + return defenc_c; +#else + if (__Pyx_PyUnicode_READY(o) == -1) return NULL; +#if __PYX_DEFAULT_STRING_ENCODING_IS_ASCII + if (PyUnicode_IS_ASCII(o)) { + *length = PyUnicode_GET_LENGTH(o); + return PyUnicode_AsUTF8(o); + } else { + PyUnicode_AsASCIIString(o); + return NULL; + } +#else + return PyUnicode_AsUTF8AndSize(o, length); +#endif +#endif + } else +#endif +#if !CYTHON_COMPILING_IN_PYPY + if (PyByteArray_Check(o)) { + *length = PyByteArray_GET_SIZE(o); + return PyByteArray_AS_STRING(o); + } else +#endif + { + char* result; + int r = PyBytes_AsStringAndSize(o, &result, length); + if (unlikely(r < 0)) { + return NULL; + } else { + return result; + } + } +} +static CYTHON_INLINE int __Pyx_PyObject_IsTrue(PyObject* x) { + int is_true = x == Py_True; + if (is_true | (x == Py_False) | (x == Py_None)) return is_true; + else return PyObject_IsTrue(x); +} +static CYTHON_INLINE PyObject* __Pyx_PyNumber_Int(PyObject* x) { + PyNumberMethods *m; + const char *name = NULL; + PyObject *res = NULL; +#if PY_MAJOR_VERSION < 3 + if (PyInt_Check(x) || PyLong_Check(x)) +#else + if (PyLong_Check(x)) +#endif + return Py_INCREF(x), x; + m = Py_TYPE(x)->tp_as_number; +#if PY_MAJOR_VERSION < 3 + if (m && m->nb_int) { + name = "int"; + res = PyNumber_Int(x); + } + else if (m && m->nb_long) { + name = "long"; + res = PyNumber_Long(x); + } +#else + if (m && m->nb_int) { + name = "int"; + res = PyNumber_Long(x); + } +#endif + if (res) { +#if PY_MAJOR_VERSION < 3 + if (!PyInt_Check(res) && !PyLong_Check(res)) { +#else + if (!PyLong_Check(res)) { +#endif + PyErr_Format(PyExc_TypeError, + "__%.4s__ returned non-%.4s (type %.200s)", + name, name, Py_TYPE(res)->tp_name); + Py_DECREF(res); + return NULL; + } + } + else if (!PyErr_Occurred()) { + PyErr_SetString(PyExc_TypeError, + "an integer is required"); + } + return res; +} +static CYTHON_INLINE Py_ssize_t __Pyx_PyIndex_AsSsize_t(PyObject* b) { + Py_ssize_t ival; + PyObject *x; +#if PY_MAJOR_VERSION < 3 + if (likely(PyInt_CheckExact(b))) + return PyInt_AS_LONG(b); +#endif + if (likely(PyLong_CheckExact(b))) { + #if CYTHON_COMPILING_IN_CPYTHON && PY_MAJOR_VERSION >= 3 + #if CYTHON_USE_PYLONG_INTERNALS + switch (Py_SIZE(b)) { + case -1: return -(sdigit)((PyLongObject*)b)->ob_digit[0]; + case 0: return 0; + case 1: return ((PyLongObject*)b)->ob_digit[0]; + } + #endif + #endif + return PyLong_AsSsize_t(b); + } + x = PyNumber_Index(b); + if (!x) return -1; + ival = PyInt_AsSsize_t(x); + Py_DECREF(x); + return ival; +} +static CYTHON_INLINE PyObject * __Pyx_PyInt_FromSize_t(size_t ival) { + return PyInt_FromSize_t(ival); +} + + +#endif /* Py_PYTHON_H */ diff --git a/silx/io/specfile/specfile.pyx b/silx/io/specfile/specfile.pyx new file mode 100644 index 0000000..a465aa6 --- /dev/null +++ b/silx/io/specfile/specfile.pyx @@ -0,0 +1,1273 @@ +# coding: utf-8 +# /*########################################################################## +# Copyright (C) 2016-2017 European Synchrotron Radiation Facility +# +# Permission is hereby granted, free of charge, to any person obtaining a copy +# of this software and associated documentation files (the "Software"), to deal +# in the Software without restriction, including without limitation the rights +# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell +# copies of the Software, and to permit persons to whom the Software is +# furnished to do so, subject to the following conditions: +# +# The above copyright notice and this permission notice shall be included in +# all copies or substantial portions of the Software. +# +# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER +# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, +# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN +# THE SOFTWARE. +# +# ############################################################################*/ +""" +This module is a cython binding to wrap the C SpecFile library, to access +SpecFile data within a python program. + +Documentation for the original C library SpecFile can be found on the ESRF +website: +`The manual for the SpecFile Library <http://www.esrf.eu/files/live/sites/www/files/Instrumentation/software/beamline-control/BLISS/documentation/SpecFileManual.pdf>`_ + +Examples +======== + +Start by importing :class:`SpecFile` and instantiate it: + +.. code-block:: python + + from silx.io.specfile import SpecFile + + sf = SpecFile("test.dat") + +A :class:`SpecFile` instance can be accessed like a dictionary to obtain a +:class:`Scan` instance. + +If the key is a string representing two values +separated by a dot (e.g. ``"1.2"``), they will be treated as the scan number +(``#S`` header line) and the scan order:: + + # get second occurrence of scan "#S 1" + myscan = sf["1.2"] + + # access scan data as a numpy array + nlines, ncolumns = myscan.data.shape + +If the key is an integer, it will be treated as a 0-based index:: + + first_scan = sf[0] + second_scan = sf[1] + +It is also possible to browse through all scans using :class:`SpecFile` as +an iterator:: + + for scan in sf: + print(scan.scan_header_dict['S']) + +MCA spectra can be selectively loaded using an instance of :class:`MCA` +provided by :class:`Scan`:: + + # Only one MCA spectrum is loaded in memory + second_mca = first_scan.mca[1] + + # Iterating trough all MCA spectra in a scan: + for mca_data in first_scan.mca: + print(sum(mca_data)) + +Classes +======= + +- :class:`SpecFile` +- :class:`Scan` +- :class:`MCA` + +Exceptions +========== + +- :class:`SfError` +- :class:`SfErrMemoryAlloc` +- :class:`SfErrFileOpen` +- :class:`SfErrFileClose` +- :class:`SfErrFileRead` +- :class:`SfErrFileWrite` +- :class:`SfErrLineNotFound` +- :class:`SfErrScanNotFound` +- :class:`SfErrHeaderNotFound` +- :class:`SfErrLabelNotFound` +- :class:`SfErrMotorNotFound` +- :class:`SfErrPositionNotFound` +- :class:`SfErrLineEmpty` +- :class:`SfErrUserNotFound` +- :class:`SfErrColNotFound` +- :class:`SfErrMcaNotFound` + +""" + +__authors__ = ["P. Knobel"] +__license__ = "MIT" +__date__ = "27/09/2016" + +import os.path +import logging +import numpy +import re +import sys + +logging.basicConfig() +_logger = logging.getLogger(__name__) + +cimport numpy +cimport cython +from libc.stdlib cimport free + +cimport specfile_wrapper + +# hack to avoid C compiler warnings about unused functions in the NumPy header files +# Sources: Cython test suite. +cdef extern from *: + bint FALSE "0" + void import_array() + void import_umath() + +if FALSE: + import_array() + import_umath() + +numpy.import_array() + + +SF_ERR_NO_ERRORS = 0 +SF_ERR_FILE_OPEN = 2 +SF_ERR_SCAN_NOT_FOUND = 7 + + +# custom errors +class SfError(Exception): + """Base exception inherited by all exceptions raised when a + C function from the legacy SpecFile library returns an error + code. + """ + pass + +class SfErrMemoryAlloc(SfError): pass +class SfErrFileOpen(SfError): pass +class SfErrFileClose(SfError): pass +class SfErrFileRead(SfError): pass +class SfErrFileWrite(SfError): pass +class SfErrLineNotFound(SfError): pass +class SfErrScanNotFound(SfError): pass +class SfErrHeaderNotFound(SfError): pass +class SfErrLabelNotFound(SfError): pass +class SfErrMotorNotFound(SfError): pass +class SfErrPositionNotFound(SfError): pass +class SfErrLineEmpty(SfError): pass +class SfErrUserNotFound(SfError): pass +class SfErrColNotFound(SfError): pass +class SfErrMcaNotFound(SfError): pass + + +ERRORS = { + 1: SfErrMemoryAlloc, + 2: SfErrFileOpen, + 3: SfErrFileClose, + 4: SfErrFileRead, + 5: SfErrFileWrite, + 6: SfErrLineNotFound, + 7: SfErrScanNotFound, + 8: SfErrHeaderNotFound, + 9: SfErrLabelNotFound, + 10: SfErrMotorNotFound, + 11: SfErrPositionNotFound, + 12: SfErrLineEmpty, + 13: SfErrUserNotFound, + 14: SfErrColNotFound, + 15: SfErrMcaNotFound, +} + + +class SfNoMcaError(SfError): + """Custom exception raised when ``SfNoMca()`` returns ``-1`` + """ + pass + + +class MCA(object): + """ + + :param scan: Parent Scan instance + :type scan: :class:`Scan` + + :var calibration: MCA calibration :math:`(a, b, c)` (as in + :math:`a + b x + c x²`) from ``#@CALIB`` scan header. + :type calibration: list of 3 floats, default ``[0., 1., 0.]`` + :var channels: MCA channels list from ``#@CHANN`` scan header. + In the absence of a ``#@CHANN`` header, this attribute is a list + ``[0, …, N-1]`` where ``N`` is the length of the first spectrum. + In the absence of MCA spectra, this attribute defaults to ``None``. + :type channels: list of int + + This class provides access to Multi-Channel Analysis data. A :class:`MCA` + instance can be indexed to access 1D numpy arrays representing single + MCA spectra. + + To create a :class:`MCA` instance, you must provide a parent :class:`Scan` + instance, which in turn will provide a reference to the original + :class:`SpecFile` instance:: + + sf = SpecFile("/path/to/specfile.dat") + scan2 = Scan(sf, scan_index=2) + mcas_in_scan2 = MCA(scan2) + for i in len(mcas_in_scan2): + mca_data = mcas_in_scan2[i] + ... # do some something with mca_data (1D numpy array) + + A more pythonic way to do the same work, without having to explicitly + instantiate ``scan`` and ``mcas_in_scan``, would be:: + + sf = SpecFile("specfilename.dat") + # scan2 from previous example can be referred to as sf[2] + # mcas_in_scan2 from previous example can be referred to as scan2.mca + for mca_data in sf[2].mca: + ... # do some something with mca_data (1D numpy array) + + """ + def __init__(self, scan): + self._scan = scan + + # Header dict + self._header = scan.mca_header_dict + + self.calibration = [] + """List of lists of calibration values, + one list of 3 floats per MCA device or a single list applying to + all devices """ + self._parse_calibration() + + self.channels = [] + """List of lists of channels, + one list of integers per MCA device or a single list applying to + all devices""" + self._parse_channels() + + def _parse_channels(self): + """Fill :attr:`channels`""" + # Channels list + if "CHANN" in self._header: + chann_lines = self._header["CHANN"].split("\n") + all_chann_values = [chann_line.split() for chann_line in chann_lines] + for one_line_chann_values in all_chann_values: + length, start, stop, increment = map(int, one_line_chann_values) + self.channels.append(list(range(start, stop + 1, increment))) + elif len(self): + # in the absence of #@CHANN, use shape of first MCA + length = self[0].shape[0] + start, stop, increment = (0, length - 1, 1) + self.channels.append(list(range(start, stop + 1, increment))) + + def _parse_calibration(self): + """Fill :attr:`calibration`""" + # Channels list + if "CALIB" in self._header: + calib_lines = self._header["CALIB"].split("\n") + all_calib_values = [calib_line.split() for calib_line in calib_lines] + for one_line_calib_values in all_calib_values: + self.calibration.append(list(map(float, one_line_calib_values))) + else: + # in the absence of #@calib, use default + self.calibration.append([0., 1., 0.]) + + def __len__(self): + """ + + :return: Number of mca in Scan + :rtype: int + """ + return self._scan._specfile.number_of_mca(self._scan.index) + + def __getitem__(self, key): + """Return a single MCA data line + + :param key: 0-based index of MCA within Scan + :type key: int + + :return: Single MCA + :rtype: 1D numpy array + """ + if not len(self): + raise IndexError("No MCA spectrum found in this scan") + + if isinstance(key, int): + mca_index = key + # allow negative index, like lists + if mca_index < 0: + mca_index = len(self) + mca_index + else: + raise TypeError("MCA index should be an integer (%s provided)" % + (type(key))) + + if not 0 <= mca_index < len(self): + msg = "MCA index must be in range 0-%d" % (len(self) - 1) + raise IndexError(msg) + + return self._scan._specfile.get_mca(self._scan.index, + mca_index) + + def __iter__(self): + """Return the next MCA data line each time this method is called. + + :return: Single MCA + :rtype: 1D numpy array + """ + for mca_index in range(len(self)): + yield self._scan._specfile.get_mca(self._scan.index, mca_index) + + +def _add_or_concatenate(dictionary, key, value): + """If key doesn't exist in dictionary, create a new ``key: value`` pair. + Else append/concatenate the new value to the existing one + """ + try: + if not key in dictionary: + dictionary[key] = value + else: + dictionary[key] += "\n" + value + except TypeError: + raise TypeError("Parameter value must be a string.") + + +class Scan(object): + """ + + :param specfile: Parent SpecFile from which this scan is extracted. + :type specfile: :class:`SpecFile` + :param scan_index: Unique index defining the scan in the SpecFile + :type scan_index: int + + Interface to access a SpecFile scan + + A scan is a block of descriptive header lines followed by a 2D data array. + + Following three ways of accessing a scan are equivalent:: + + sf = SpecFile("/path/to/specfile.dat") + + # Explicit class instantiation + scan2 = Scan(sf, scan_index=2) + + # 0-based index on a SpecFile object + scan2 = sf[2] + + # Using a "n.m" key (scan number starting with 1, scan order) + scan2 = sf["3.1"] + """ + def __init__(self, specfile, scan_index): + self._specfile = specfile + + self._index = scan_index + self._number = specfile.number(scan_index) + self._order = specfile.order(scan_index) + + self._scan_header_lines = self._specfile.scan_header(self._index) + self._file_header_lines = self._specfile.file_header(self._index) + + if self._file_header_lines == self._scan_header_lines: + self._file_header_lines = [] + self._header = self._file_header_lines + self._scan_header_lines + + self._scan_header_dict = {} + self._mca_header_dict = {} + for line in self._scan_header_lines: + match = re.search(r"#(\w+) *(.*)", line) + match_mca = re.search(r"#@(\w+) *(.*)", line) + if match: + hkey = match.group(1).lstrip("#").strip() + hvalue = match.group(2).strip() + _add_or_concatenate(self._scan_header_dict, hkey, hvalue) + elif match_mca: + hkey = match_mca.group(1).lstrip("#").strip() + hvalue = match_mca.group(2).strip() + _add_or_concatenate(self._mca_header_dict, hkey, hvalue) + else: + # this shouldn't happen + _logger.warning("Unable to parse scan header line " + line) + + self._labels = [] + if self.record_exists_in_hdr('L'): + try: + self._labels = self._specfile.labels(self._index) + except SfErrLineNotFound: + # SpecFile.labels raises an IndexError when encountering + # a Scan with no data, even if the header exists. + L_header = re.sub(r" {2,}", " ", # max. 2 spaces + self._scan_header_dict["L"]) + self._labels = L_header.split(" ") + + + self._file_header_dict = {} + for line in self._file_header_lines: + match = re.search(r"#(\w+) *(.*)", line) + if match: + # header type + hkey = match.group(1).lstrip("#").strip() + hvalue = match.group(2).strip() + _add_or_concatenate(self._file_header_dict, hkey, hvalue) + else: + _logger.warning("Unable to parse file header line " + line) + + self._motor_names = self._specfile.motor_names(self._index) + self._motor_positions = self._specfile.motor_positions(self._index) + + self._data = None + self._mca = None + + @cython.embedsignature(False) + @property + def index(self): + """Unique scan index 0 - len(specfile)-1 + + This attribute is implemented as a read-only property as changing + its value may cause nasty side-effects (such as loading data from a + different scan without updating the header accordingly.""" + return self._index + + @cython.embedsignature(False) + @property + def number(self): + """First value on #S line (as int)""" + return self._number + + @cython.embedsignature(False) + @property + def order(self): + """Order can be > 1 if the same number is repeated in a specfile""" + return self._order + + @cython.embedsignature(False) + @property + def header(self): + """List of raw header lines (as a list of strings). + + This includes the file header, the scan header and possibly a MCA + header. + """ + return self._header + + @cython.embedsignature(False) + @property + def scan_header(self): + """List of raw scan header lines (as a list of strings). + """ + return self._scan_header_lines + + @cython.embedsignature(False) + @property + def file_header(self): + """List of raw file header lines (as a list of strings). + """ + return self._file_header_lines + + @cython.embedsignature(False) + @property + def scan_header_dict(self): + """ + Dictionary of scan header strings, keys without the leading``#`` + (e.g. ``scan_header_dict["S"]``). + Note: this does not include MCA header lines starting with ``#@``. + """ + return self._scan_header_dict + + @cython.embedsignature(False) + @property + def mca_header_dict(self): + """ + Dictionary of MCA header strings, keys without the leading ``#@`` + (e.g. ``mca_header_dict["CALIB"]``). + """ + return self._mca_header_dict + + @cython.embedsignature(False) + @property + def file_header_dict(self): + """ + Dictionary of file header strings, keys without the leading ``#`` + (e.g. ``file_header_dict["F"]``). + """ + return self._file_header_dict + + @cython.embedsignature(False) + @property + def labels(self): + """ + List of data column headers from ``#L`` scan header + """ + return self._labels + + @cython.embedsignature(False) + @property + def data(self): + """Scan data as a 2D numpy.ndarray with the usual attributes + (e.g. data.shape). + + The first index is the detector, the second index is the sample index. + """ + if self._data is None: + self._data = numpy.transpose(self._specfile.data(self._index)) + + return self._data + + @cython.embedsignature(False) + @property + def mca(self): + """MCA data in this scan. + + Each multichannel analysis is a 1D numpy array. Metadata about + MCA data is to be found in :py:attr:`mca_header`. + + :rtype: :class:`MCA` + """ + if self._mca is None: + self._mca = MCA(self) + return self._mca + + @cython.embedsignature(False) + @property + def motor_names(self): + """List of motor names from the ``#O`` file header line. + """ + return self._motor_names + + @cython.embedsignature(False) + @property + def motor_positions(self): + """List of motor positions as floats from the ``#P`` scan header line. + """ + return self._motor_positions + + def record_exists_in_hdr(self, record): + """Check whether a scan header line exists. + + This should be used before attempting to retrieve header information + using a C function that may crash with a *segmentation fault* if the + header isn't defined in the SpecFile. + + :param record: single upper case letter corresponding to the + header you want to test (e.g. ``L`` for labels) + :type record: str + + :return: True or False + :rtype: boolean + """ + for line in self._header: + if line.startswith("#" + record): + return True + return False + + def data_line(self, line_index): + """Returns data for a given line of this scan. + + .. note:: + + A data line returned by this method, corresponds to a data line + in the original specfile (a series of data points, one per + detector). In the :attr:`data` array, this line index corresponds + to the index in the second dimension (~ column) of the array. + + :param line_index: Index of data line to retrieve (starting with 0) + :type line_index: int + + :return: Line data as a 1D array of doubles + :rtype: numpy.ndarray + """ + # attribute data corresponds to a transposed version of the original + # specfile data (where detectors correspond to columns) + return self.data[:, line_index] + + def data_column_by_name(self, label): + """Returns a data column + + :param label: Label of data column to retrieve, as defined on the + ``#L`` line of the scan header. + :type label: str + + :return: Line data as a 1D array of doubles + :rtype: numpy.ndarray + """ + try: + ret = self._specfile.data_column_by_name(self._index, label) + except SfErrLineNotFound: + # Could be a "#C Scan aborted after 0 points" + _logger.warning("Cannot get data column %s in scan %d.%d", + label, self.number, self.order) + ret = numpy.empty((0, ), numpy.double) + return ret + + + def motor_position_by_name(self, name): + """Returns the position for a given motor + + :param name: Name of motor, as defined on the ``#O`` line of the + file header. + :type name: str + + :return: Motor position + :rtype: float + """ + return self._specfile.motor_position_by_name(self._index, name) + + +def _string_to_char_star(string_): + """Convert a string to ASCII encoded bytes when using python3""" + if sys.version.startswith("3") and not isinstance(string_, bytes): + return bytes(string_, "ascii") + return string_ + + +def is_specfile(filename): + """Test if a file is a SPEC file, by checking if one of the first two + lines starts with *#F* (SPEC file header) or *#S* (scan header). + + :param str filename: File path + :return: *True* if file is a SPEC file, *False* if it is not a SPEC file + :rtype: bool + """ + if not os.path.isfile(filename): + return False + # test for presence of #S or #F in first two lines + f = open(filename) + for i, line in enumerate(f): + if line.startswith("#S ") or line.startswith("#F "): + f.close() + return True + if i >= 10: + break + f.close() + return False + + +cdef class SpecFile(object): + """ + + :param filename: Path of the SpecFile to read + + This class wraps the main data and header access functions of the C + SpecFile library. + """ + + cdef: + specfile_wrapper.SpecFileHandle *handle + str filename + int __open_failed + + def __cinit__(self, filename): + cdef int error = SF_ERR_NO_ERRORS + self.__open_failed = 0 + + if is_specfile(filename): + filename = _string_to_char_star(filename) + self.handle = specfile_wrapper.SfOpen(filename, &error) + else: + self.__open_failed = 1 + self._handle_error(SF_ERR_FILE_OPEN) + if error: + self.__open_failed = 1 + self._handle_error(error) + + def __init__(self, filename): + if not isinstance(filename, str): + # encode unicode to str in python 2 + if sys.version_info[0] < 3: + self.filename = filename.encode() + # decode bytes to str in python 3 + elif sys.version_info[0] >= 3: + self.filename = filename.decode() + else: + self.filename = filename + + def __dealloc__(self): + """Destructor: Calls SfClose(self.handle)""" + #SfClose makes a segmentation fault if file failed to open + if not self.__open_failed: + if specfile_wrapper.SfClose(self.handle): + _logger.warning("Error while closing SpecFile") + + def __len__(self): + """Return the number of scans in the SpecFile + """ + return specfile_wrapper.SfScanNo(self.handle) + + def __iter__(self): + """Return the next :class:`Scan` in a SpecFile each time this method + is called. + + This usually happens when the python built-in function ``next()`` is + called with a :class:`SpecFile` instance as a parameter, or when a + :class:`SpecFile` instance is used as an iterator (e.g. in a ``for`` + loop). + """ + for scan_index in range(len(self)): + yield Scan(self, scan_index) + + def __getitem__(self, key): + """Return a :class:`Scan` object. + + This special method is called when a :class:`SpecFile` instance is + accessed as a dictionary (e.g. ``sf[key]``). + + :param key: 0-based scan index or ``"n.m"`` key, where ``n`` is the scan + number defined on the ``#S`` header line and ``m`` is the order + :type key: int or str + + :return: Scan defined by its 0-based index or its ``"n.m"`` key + :rtype: :class:`Scan` + """ + msg = "The scan identification key can be an integer representing " + msg += "the unique scan index or a string 'N.M' with N being the scan" + msg += " number and M the order (eg '2.3')." + + if isinstance(key, int): + scan_index = key + # allow negative index, like lists + if scan_index < 0: + scan_index = len(self) + scan_index + else: + try: + (number, order) = map(int, key.split(".")) + scan_index = self.index(number, order) + except (ValueError, SfErrScanNotFound, KeyError): + # int() can raise a value error + raise KeyError(msg + "\nValid keys: '" + + "', '".join( self.keys()) + "'") + except AttributeError: + # e.g. "AttrErr: 'float' object has no attribute 'split'" + raise TypeError(msg) + + if not 0 <= scan_index < len(self): + msg = "Scan index must be in range 0-%d" % (len(self) - 1) + raise IndexError(msg) + + return Scan(self, scan_index) + + def keys(self): + """Returns list of scan keys (eg ``['1.1', '2.1',...]``). + + :return: list of scan keys + :rtype: list of strings + """ + ret_list = [] + list_of_numbers = self._list() + count = {} + + for number in list_of_numbers: + if not number in count: + count[number] = 1 + else: + count[number] += 1 + ret_list.append(u'%d.%d' % (number, count[number])) + + return ret_list + + def __contains__(self, key): + """Return ``True`` if ``key`` is a valid scan key. + Valid keys can be a string such as ``"1.1"`` or a 0-based scan index. + """ + return key in (self.keys() + list(range(len(self)))) + + def _get_error_string(self, error_code): + """Returns the error message corresponding to the error code. + + :param code: Error code + :type code: int + :return: Human readable error message + :rtype: str + """ + return (<bytes> specfile_wrapper.SfError(error_code)).decode() + + def _handle_error(self, error_code): + """Inspect error code, raise adequate error type if necessary. + + :param code: Error code + :type code: int + """ + error_message = self._get_error_string(error_code) + if error_code in ERRORS: + raise ERRORS[error_code](error_message) + + def index(self, scan_number, scan_order=1): + """Returns scan index from scan number and order. + + :param scan_number: Scan number (possibly non-unique). + :type scan_number: int + :param scan_order: Scan order. + :type scan_order: int default 1 + + :return: Unique scan index + :rtype: int + + + Scan indices are increasing from ``0`` to ``len(self)-1`` in the + order in which they appear in the file. + Scan numbers are defined by users and are not necessarily unique. + The scan order for a given scan number increments each time the scan + number appers in a given file. + """ + idx = specfile_wrapper.SfIndex(self.handle, scan_number, scan_order) + if idx == -1: + self._handle_error(SF_ERR_SCAN_NOT_FOUND) + return idx - 1 + + def number(self, scan_index): + """Returns scan number from scan index. + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: User defined scan number. + :rtype: int + """ + idx = specfile_wrapper.SfNumber(self.handle, scan_index + 1) + if idx == -1: + self._handle_error(SF_ERR_SCAN_NOT_FOUND) + return idx + + def order(self, scan_index): + """Returns scan order from scan index. + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: Scan order (sequential number incrementing each time a + non-unique occurrence of a scan number is encountered). + :rtype: int + """ + ordr = specfile_wrapper.SfOrder(self.handle, scan_index + 1) + if ordr == -1: + self._handle_error(SF_ERR_SCAN_NOT_FOUND) + return ordr + + def _list(self): + """see documentation of :meth:`list` + """ + cdef: + long *scan_numbers + int error = SF_ERR_NO_ERRORS + + scan_numbers = specfile_wrapper.SfList(self.handle, &error) + self._handle_error(error) + + ret_list = [] + for i in range(len(self)): + ret_list.append(scan_numbers[i]) + + free(scan_numbers) + return ret_list + + def list(self): + """Returns list (1D numpy array) of scan numbers in SpecFile. + + :return: list of scan numbers (from `` #S`` lines) in the same order + as in the original SpecFile (e.g ``[1, 1, 2, 3, …]``). + :rtype: numpy array + """ + # this method is overloaded in specfilewrapper to output a string + # representation of the list + return self._list() + + def data(self, scan_index): + """Returns data for the specified scan index. + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: Complete scan data as a 2D array of doubles + :rtype: numpy.ndarray + """ + cdef: + double** mydata + long* data_info + int i, j + int error = SF_ERR_NO_ERRORS + long nlines, ncolumns, regular + + sfdata_error = specfile_wrapper.SfData(self.handle, + scan_index + 1, + &mydata, + &data_info, + &error) + self._handle_error(error) + + if <long>data_info != 0: + nlines = data_info[0] + ncolumns = data_info[1] + regular = data_info[2] + else: + nlines = 0 + ncolumns = 0 + regular = 0 + + cdef numpy.ndarray ret_array = numpy.empty((nlines, ncolumns), + dtype=numpy.double) + for i in range(nlines): + for j in range(ncolumns): + ret_array[i, j] = mydata[i][j] + + specfile_wrapper.freeArrNZ(<void ***>&mydata, nlines) + free(data_info) + return ret_array + + def data_column_by_name(self, scan_index, label): + """Returns data column for the specified scan index and column label. + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + :param label: Label of data column, as defined in the ``#L`` line + of the scan header. + :type label: str + + :return: Data column as a 1D array of doubles + :rtype: numpy.ndarray + """ + cdef: + double* data_column + long i, nlines + int error = SF_ERR_NO_ERRORS + + label = _string_to_char_star(label) + + nlines = specfile_wrapper.SfDataColByName(self.handle, + scan_index + 1, + label, + &data_column, + &error) + self._handle_error(error) + + cdef numpy.ndarray ret_array = numpy.empty((nlines,), + dtype=numpy.double) + for i in range(nlines): + ret_array[i] = data_column[i] + + free(data_column) + return ret_array + + def scan_header(self, scan_index): + """Return list of scan header lines. + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: List of raw scan header lines + :rtype: list of str + """ + cdef: + char** lines + int error = SF_ERR_NO_ERRORS + + nlines = specfile_wrapper.SfHeader(self.handle, + scan_index + 1, + "", # no pattern matching + &lines, + &error) + + self._handle_error(error) + + lines_list = [] + for i in range(nlines): + line = <bytes>lines[i].decode() + lines_list.append(line) + + specfile_wrapper.freeArrNZ(<void***>&lines, nlines) + return lines_list + + def file_header(self, scan_index=0): + """Return list of file header lines. + + A file header contains all lines between a ``#F`` header line and + a ``#S`` header line (start of scan). We need to specify a scan + number because there can be more than one file header in a given file. + A file header applies to all subsequent scans, until a new file + header is defined. + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: List of raw file header lines + :rtype: list of str + """ + cdef: + char** lines + int error = SF_ERR_NO_ERRORS + + nlines = specfile_wrapper.SfFileHeader(self.handle, + scan_index + 1, + "", # no pattern matching + &lines, + &error) + self._handle_error(error) + + lines_list = [] + for i in range(nlines): + line = <bytes>lines[i].decode() + lines_list.append(line) + + specfile_wrapper.freeArrNZ(<void***>&lines, nlines) + return lines_list + + def columns(self, scan_index): + """Return number of columns in a scan from the ``#N`` header line + (without ``#N`` and scan number) + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: Number of columns in scan from ``#N`` line + :rtype: int + """ + cdef: + int error = SF_ERR_NO_ERRORS + + ncolumns = specfile_wrapper.SfNoColumns(self.handle, + scan_index + 1, + &error) + self._handle_error(error) + + return ncolumns + + def command(self, scan_index): + """Return ``#S`` line (without ``#S`` and scan number) + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: S line + :rtype: str + """ + cdef: + int error = SF_ERR_NO_ERRORS + + s_record = <bytes> specfile_wrapper.SfCommand(self.handle, + scan_index + 1, + &error) + self._handle_error(error) + + return s_record.decode() + + def date(self, scan_index=0): + """Return date from ``#D`` line + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: Date from ``#D`` line + :rtype: str + """ + cdef: + int error = SF_ERR_NO_ERRORS + + d_line = <bytes> specfile_wrapper.SfDate(self.handle, + scan_index + 1, + &error) + self._handle_error(error) + + return d_line.decode() + + def labels(self, scan_index): + """Return all labels from ``#L`` line + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: All labels from ``#L`` line + :rtype: list of strings + """ + cdef: + char** all_labels + int error = SF_ERR_NO_ERRORS + + nlabels = specfile_wrapper.SfAllLabels(self.handle, + scan_index + 1, + &all_labels, + &error) + self._handle_error(error) + + labels_list = [] + for i in range(nlabels): + labels_list.append(<bytes>all_labels[i].decode()) + + specfile_wrapper.freeArrNZ(<void***>&all_labels, nlabels) + return labels_list + + def motor_names(self, scan_index=0): + """Return all motor names from ``#O`` lines + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``.If not specified, defaults to 0 (meaning the + function returns motors names associated with the first scan). + This parameter makes a difference only if there are more than + on file header in the file, in which case the file header applies + to all following scans until a new file header appears. + :type scan_index: int + + :return: All motor names + :rtype: list of strings + """ + cdef: + char** all_motors + int error = SF_ERR_NO_ERRORS + + nmotors = specfile_wrapper.SfAllMotors(self.handle, + scan_index + 1, + &all_motors, + &error) + self._handle_error(error) + + motors_list = [] + for i in range(nmotors): + motors_list.append(<bytes>all_motors[i].decode()) + + specfile_wrapper.freeArrNZ(<void***>&all_motors, nmotors) + return motors_list + + def motor_positions(self, scan_index): + """Return all motor positions + + :param scan_index: Unique scan index between ``0`` + and ``len(self)-1``. + :type scan_index: int + + :return: All motor positions + :rtype: list of double + """ + cdef: + double* motor_positions + int error = SF_ERR_NO_ERRORS + + nmotors = specfile_wrapper.SfAllMotorPos(self.handle, + scan_index + 1, + &motor_positions, + &error) + self._handle_error(error) + + motor_positions_list = [] + for i in range(nmotors): + motor_positions_list.append(motor_positions[i]) + + free(motor_positions) + return motor_positions_list + + def motor_position_by_name(self, scan_index, name): + """Return motor position + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: Specified motor position + :rtype: double + """ + cdef: + int error = SF_ERR_NO_ERRORS + + name = _string_to_char_star(name) + + motor_position = specfile_wrapper.SfMotorPosByName(self.handle, + scan_index + 1, + name, + &error) + self._handle_error(error) + + return motor_position + + def number_of_mca(self, scan_index): + """Return number of mca spectra in a scan. + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: Number of mca spectra. + :rtype: int + """ + cdef: + int error = SF_ERR_NO_ERRORS + + num_mca = specfile_wrapper.SfNoMca(self.handle, + scan_index + 1, + &error) + # error code updating isn't implemented in SfNoMCA + if num_mca == -1: + raise SfNoMcaError("Failed to retrieve number of MCA " + + "(SfNoMca returned -1)") + return num_mca + + def mca_calibration(self, scan_index): + """Return MCA calibration in the form :math:`a + b x + c x²` + + Raise a KeyError if there is no ``@CALIB`` line in the scan header. + + :param scan_index: Unique scan index between ``0`` and + ``len(self)-1``. + :type scan_index: int + + :return: MCA calibration as a list of 3 values :math:`(a, b, c)` + :rtype: list of floats + """ + cdef: + int error = SF_ERR_NO_ERRORS + double* mca_calib + + mca_calib_error = specfile_wrapper.SfMcaCalib(self.handle, + scan_index + 1, + &mca_calib, + &error) + + # error code updating isn't implemented in SfMcaCalib + if mca_calib_error: + raise KeyError("MCA calibration line (@CALIB) not found") + + mca_calib_list = [] + for i in range(3): + mca_calib_list.append(mca_calib[i]) + + free(mca_calib) + return mca_calib_list + + def get_mca(self, scan_index, mca_index): + """Return one MCA spectrum + + :param scan_index: Unique scan index between ``0`` and ``len(self)-1``. + :type scan_index: int + :param mca_index: Index of MCA in the scan + :type mca_index: int + + :return: MCA spectrum + :rtype: 1D numpy array + """ + cdef: + int error = SF_ERR_NO_ERRORS + double* mca_data + long len_mca + + len_mca = specfile_wrapper.SfGetMca(self.handle, + scan_index + 1, + mca_index + 1, + &mca_data, + &error) + self._handle_error(error) + + + cdef numpy.ndarray ret_array = numpy.empty((len_mca,), + dtype=numpy.double) + for i in range(len_mca): + ret_array[i] = mca_data[i] + + free(mca_data) + return ret_array diff --git a/silx/io/specfile/specfile_wrapper.pxd b/silx/io/specfile/specfile_wrapper.pxd new file mode 100644 index 0000000..6770f7e --- /dev/null +++ b/silx/io/specfile/specfile_wrapper.pxd @@ -0,0 +1,77 @@ +# coding: utf-8 +# /*########################################################################## +# Copyright (C) 2016 European Synchrotron Radiation Facility +# +# Permission is hereby granted, free of charge, to any person obtaining a copy +# of this software and associated documentation files (the "Software"), to deal +# in the Software without restriction, including without limitation the rights +# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell +# copies of the Software, and to permit persons to whom the Software is +# furnished to do so, subject to the following conditions: +# +# The above copyright notice and this permission notice shall be included in +# all copies or substantial portions of the Software. +# +# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR +# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, +# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE +# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER +# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, +# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN +# THE SOFTWARE. +# +# ############################################################################*/ + +__authors__ = ["P. Knobel"] +__license__ = "MIT" +__date__ = "17/03/2016" + +cimport cython + +cdef extern from "SpecFileCython.h": + struct _SpecFile: + pass +# Renaming struct because we have too many SpecFile items (files, classes…) +ctypedef _SpecFile SpecFileHandle + +cdef extern from "SpecFileCython.h": + # sfinit + SpecFileHandle* SfOpen(char*, int*) + int SfClose(SpecFileHandle*) + char* SfError(int) + + # sfindex + long* SfList(SpecFileHandle*, int*) + long SfScanNo(SpecFileHandle*) + long SfIndex(SpecFileHandle*, long, long) + long SfNumber(SpecFileHandle*, long) + long SfOrder(SpecFileHandle*, long) + + # sfdata + int SfData(SpecFileHandle*, long, double***, long**, int*) + long SfDataLine(SpecFileHandle*, long, long, double**, int*) + long SfDataColByName(SpecFileHandle*, long, char*, double**, int*) + + # sfheader + #char* SfTitle(SpecFileHandle*, long, int*) + long SfHeader(SpecFileHandle*, long, char*, char***, int*) + long SfFileHeader(SpecFileHandle*, long, char*, char***, int*) + char* SfCommand(SpecFileHandle*, long, int*) + long SfNoColumns(SpecFileHandle*, long, int*) + char* SfDate(SpecFileHandle*, long, int*) + + # sflabel + long SfAllLabels(SpecFileHandle*, long, char***, int*) + char* SfLabel(SpecFileHandle*, long, long, int *) + long SfAllMotors(SpecFileHandle*, long, char***, int*) + long SfAllMotorPos(SpecFileHandle*, long, double**, int*) + double SfMotorPosByName(SpecFileHandle*, long, char*, int*) + + # sftools + void freeArrNZ(void***, long) + + # sfmca + long SfNoMca(SpecFileHandle*, long, int*) + int SfGetMca(SpecFileHandle*, long, long , double**, int*) + long SfMcaCalib(SpecFileHandle*, long, double**, int*) + diff --git a/silx/io/specfile/src/locale_management.c b/silx/io/specfile/src/locale_management.c new file mode 100644 index 0000000..1e6a196 --- /dev/null +++ b/silx/io/specfile/src/locale_management.c @@ -0,0 +1,64 @@ +#/*########################################################################## +# Copyright (C) 2012-2013 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +#include <locale_management.h> +#include <stdlib.h> + +#ifdef _GNU_SOURCE +#include <xlocale.h> +#include <locale.h> +#else +#ifdef PYMCA_POSIX +#else +#ifdef SPECFILE_POSIX +#include <locale.h> +#endif +#endif +#endif + +#include <string.h> + +double PyMcaAtof(const char * inputString) +{ +#ifdef _GNU_SOURCE + double result; + locale_t newLocale; + newLocale = newlocale(LC_NUMERIC_MASK, "C", NULL); + result = strtod_l(inputString, NULL, newLocale); + freelocale(newLocale); + return result; +#else +#ifdef PYMCA_POSIX + return atof(inputString); +#else +#ifdef SPECFILE_POSIX + char *currentLocaleBuffer; + char *restoredLocaleBuffer; + char localeBuffer[21]; + double result; + currentLocaleBuffer = setlocale(LC_NUMERIC, NULL); + strcpy(localeBuffer, currentLocaleBuffer); + setlocale(LC_NUMERIC, "C\0"); + result = atof(inputString); + restoredLocaleBuffer = setlocale(LC_NUMERIC, localeBuffer); + return(result); +#else + return atof(inputString); +#endif +#endif +#endif +} diff --git a/silx/io/specfile/src/sfdata.c b/silx/io/specfile/src/sfdata.c new file mode 100644 index 0000000..229f4e6 --- /dev/null +++ b/silx/io/specfile/src/sfdata.c @@ -0,0 +1,775 @@ +#/*########################################################################## +# Copyright (C) 2004-2014 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/************************************************************************ + * + * File: sfdata.c + * + * Project: SpecFile library + * + * Description: Functions for getting data + * + * Author: V.Rey + * + * Date: $Date: 2005/07/04 15:02:38 $ + * + ************************************************************************/ +/* + * Log: $Log: sfdata.c,v $ + * Log: Revision 1.8 2005/07/04 15:02:38 ahoms + * Log: Fixed memory leak in SfNoDataLines + * Log: + * Log: Revision 1.7 2004/01/20 09:23:50 sole + * Log: Small change in sfdata (ptr < (to-1)) changed to (ptr <= (to-1)) + * Log: + * Log: Revision 1.6 2003/03/06 16:56:40 sole + * Log: Check if to is beyond the scan size in SfData (still not finished but it seems to solve a crash) + * Log: + * Log: Revision 1.5 2002/12/09 13:04:05 sole + * Log: Added a check in SfNoDataLines + * Log: + * Log: Revision 1.4 2002/11/13 15:02:38 sole + * Log: Removed some printing in SfData + * Log: + * Log: Revision 1.3 2002/11/12 16:22:07 sole + * Log: WARNING: Developing version - Improved MCA reading and reading properly the end of the file. + * Log: + * Log: Revision 1.2 2002/11/12 13:15:52 sole + * Log: 1st version from Armando. The idea behind is to take the last line only if it ends with \n + * Log: + * Log: Revision 3.0 2000/12/20 14:17:19 rey + * Log: Python version available + * Log: + * Revision 2.1 2000/07/31 19:05:11 19:05:11 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + * + */ +#include <SpecFile.h> +#include <SpecFileP.h> +#include <locale_management.h> + +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX +#include <locale.h> +#endif +#endif + +#include <ctype.h> +/* + * Define macro + */ +#define isnumber(this) ( isdigit(this) || this == '-' || this == '+' || this == '.' || this == 'E' || this == 'e') + +/* + * Mca continuation character + */ +#define MCA_CONT '\\' +#define D_INFO 3 + +/* + * Declarations + */ +DllExport long SfNoDataLines ( SpecFile *sf, long index, int *error ); +DllExport int SfData ( SpecFile *sf, long index, double ***retdata, + long **retinfo, int *error ); +DllExport long SfDataAsString ( SpecFile *sf, long index, + char ***data, int *error ); +DllExport long SfDataLine ( SpecFile *sf, long index, long line, + double **data_line, int *error ); +DllExport long SfDataCol ( SpecFile *sf, long index, long col, + double **data_col, int *error ); +DllExport long SfDataColByName( SpecFile *sf, long index, + char *label, double **data_col, int *error ); + + +/********************************************************************* + * Function: long SfNoDataLines( sf, index, error ) + * + * Description: Gets number of data lines in a scan + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * Number of data lines , + * ( -1 ) => errors. + * Possible errors: + * SF_ERR_SCAN_NOT_FOUND + * + *********************************************************************/ +DllExport long +SfNoDataLines( SpecFile *sf, long index, int *error ) +{ + long *dinfo = NULL; + double **data = NULL; + long nrlines = 0; + int ret, i; + + ret = SfData(sf,index,&data,&dinfo,error); + + if (ret == -1) { + return(-1); + } + if (dinfo == (long *) NULL){ + return(-1); + } + if (dinfo[ROW] < 0){ + printf("Negative number of points!\n"); + /*free(dinfo);*/ + return(-1); + } + + nrlines = dinfo[ROW]; + + /* now free all stuff that SfData allocated */ + for (i = 0; i < nrlines; i++) + free(data[i]); + free(data); + free(dinfo); + + return nrlines; +} + + + +/********************************************************************* + * Function: int SfData(sf, index, data, data_info, error) + * + * Description: Gets data. + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) Data array + * (4) Data info : [0] => no_lines + * [1] => no_columns + * [2] = ( 0 ) => regular + * ( 1 ) => not regular ! + * (5) error number + * Returns: + * ( 0 ) => OK + * ( -1 ) => errors occured + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * SF_ERR_FILE_READ + * SF_ERR_SCAN_NOT_FOUND + * SF_ERR_LINE_NOT_FOUND + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport int +SfData( SpecFile *sf, long index, double ***retdata, long **retinfo, int *error ) +{ + long *dinfo = NULL; + double **data = NULL; + double *dataline = NULL; + long headersize; + + char *ptr, + *from, + *to; + + char strval[100]; + double val; + double valline[512]; + long cols, + maxcol=512; + long rows; + int i; +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + char *currentLocaleBuffer; + char localeBuffer[21]; +#endif +#endif + + if (index <= 0 ){ + return(-1); + } + + if (sfSetCurrent(sf,index,error) == -1 ) + return(-1); + + + /* + * Copy if already there + */ + if (sf->data_info != (long *)NULL) { + dinfo = ( long * ) malloc ( sizeof(long) * D_INFO); + dinfo[ROW] = sf->data_info[ROW]; + dinfo[COL] = sf->data_info[COL]; + dinfo[REG] = sf->data_info[REG]; + data = ( double **) malloc ( sizeof(double *) * dinfo[ROW]); + for (i=0;i<dinfo[ROW];i++) { + data[i] = (double *)malloc (sizeof(double) * dinfo[COL]); + memcpy(data[i],sf->data[i],sizeof(double) * dinfo[COL]); + } + *retdata = data; + *retinfo = dinfo; + return(0); + } + /* + * else do the job + */ + + if ( ((SpecScan *)sf->current->contents)->data_offset == -1 ) { + *retdata = data; + *retinfo = dinfo; + return(-1); + } + + headersize = ((SpecScan *)sf->current->contents)->data_offset + - ((SpecScan *)sf->current->contents)->offset; + + from = sf->scanbuffer + headersize; + to = sf->scanbuffer + ((SpecScan *)sf->current->contents)->size; + if (to > sf->scanbuffer+sf->scansize){ + /* the -32 found "experimentaly" */ + ptr = sf->scanbuffer+sf->scansize - 32; + while (*ptr != '\n') ptr--; + to=ptr; + /*printf("I let it crash ...\n");*/ + } + i=0; + ptr = from; + rows = -1; + cols = -1; + /* + * Alloc memory + */ + if ( (data = (double **) malloc (sizeof(double *)) ) == (double **)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + return(-1); + } + + if ( (dinfo = (long *) malloc(sizeof(long) * D_INFO) ) == (long *)NULL) { + free(data); + *error = SF_ERR_MEMORY_ALLOC; + return(-1); + } + ptr = from; + dinfo[ROW] = dinfo[COL] = dinfo[REG] = 0; +if(0){ + /* + * first characters of buffer + */ + while (*ptr == ' ') ptr++; /* get rid of empty spaces */ + + if (*ptr == '@') { + /* + * read all mca block: go while in buffer ( ptr < to - 1 ) + * and while a newline is preceded by a slash + */ + for ( ptr = ptr + 2; + (*ptr != '\n' || (*(ptr-1) == MCA_CONT)) && ptr < to ; + ptr++); + } + if ( *ptr == '#') { /* Comment --> pass one line */ + for (ptr = ptr + 1; *ptr != '\n';ptr++); + } + + /* + * continue + */ + ptr++; +} +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + currentLocaleBuffer = setlocale(LC_NUMERIC, NULL); + strcpy(localeBuffer, currentLocaleBuffer); + setlocale(LC_NUMERIC, "C\0"); +#endif +#endif + for ( ; ptr < to; ptr++) { + /* get a complete line */ + i=0; + cols=0; + /*I should be at the start of a line */ + while(*(ptr) != '\n'){ + if (*(ptr-1) == '\n'){ + /*I am at the start of a line */ + while(*ptr == '#'){ + if (ptr >= to) + break; + for (ptr = ptr; ptr < to;ptr++){ + if (*ptr == '\n'){ + break; + } + }; + /* on exit is equal to newline */ + if (ptr < to) { + ptr++; + } + } + if (*ptr == '@') { + /* + * read all mca block: go while in buffer ( ptr < to - 1 ) + * and while a newline is preceded by a slash + */ + for ( ptr = ptr + 2; + (*ptr != '\n' || (*(ptr-1) == MCA_CONT)) && ptr < to ; + ptr++); + if (ptr >= to){ + break; + } + } + while(*ptr == '#'){ + if (ptr >= to) + break; + for (ptr = ptr; ptr < to;ptr++){ + if (*ptr == '\n'){ + break; + } + }; + /* on exit is equal to newline */ + if (ptr < to) { + ptr++; + } + } + /* first characters of buffer + */ + while (*ptr == ' ' && ptr < to) ptr++; /* get rid of empty spaces */ + } + /* + * in the middle of a line + */ + if (*ptr == ' ' || *ptr == '\t' ) { + strval[i] = '\0'; + i = 0; + val = PyMcaAtof(strval); + valline[cols] = val; + cols++; + if (cols >= maxcol) return(-1); + while(*(ptr+1) == ' ' || *(ptr+1) == '\t') ptr++; + } else { + if isnumber(*ptr){ + strval[i] = *ptr; + i++; + } + } + if (ptr >= (to-1)){ + break; + } + ptr++; + } + if ((*(ptr)== '\n') && (i != 0)){ + strval[i] = '\0'; + val = PyMcaAtof(strval); + valline[cols] = val; + cols++; + if (cols >= maxcol) return(-1); + /*while(*(ptr+1) == ' ' || *(ptr+1) == '\t') ptr++;*/ + } + /*printf("%c",*ptr);*/ + /* diffract31 crash -> changed from i!=0 to i==0 */ + /*cols>0 necessary scan 59 of 31oct98 */ + if ((ptr < to) && (cols >0)) { + rows++; + /*cols++;*/ + if (cols >= maxcol) return(-1); + /* printf("Adding a new row, nrows = %ld, ncols= %ld\n",rows,cols);*/ + /*printf("info col = %d cols = %d\n", dinfo[COL], cols);*/ + if (dinfo[COL] != 0 && cols != dinfo[COL]) { + ; + /*diffract31 crash -> nextline uncommented */ + dinfo[REG] = 1; + } else { + dinfo[COL] = cols; + } + if(dinfo[COL]==cols){ + dataline = (double *)malloc(sizeof(double) * cols); + memcpy(dataline,valline,sizeof(double) * cols); + data = (double **) realloc ( data, sizeof(double) * (rows+1)); + data[rows] = dataline; + dinfo[ROW]=rows+1; + }else{ + printf("Error on scan %d line %d\n", (int) index, (int) (rows+1)); + /* just ignore the line instead of stopping there with a + break; */ + rows--; + } + } + } + +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + setlocale(LC_NUMERIC, localeBuffer); +#endif +#endif + /* + * make a copy in specfile structure + */ + if ( dinfo[ROW] != 0 && dinfo[REG] == 0) { + if (sf->data_info != (long *)NULL){ + printf("I should not be here!/n"); + sf->data_info[ROW] = dinfo[ROW]; + sf->data_info[COL] = dinfo[COL]; + sf->data_info[REG] = dinfo[REG]; + for (i=0;i<dinfo[ROW];i++) { + sf->data[i]= (double *)realloc (sf->data[i],sizeof(double) * dinfo[COL]); + if (sf->data[i] == (double *) NULL){ + printf("Realloc problem"); + return (-1); + } + memcpy(sf->data[i],data[i],sizeof(double) * dinfo[COL]); + } + *retdata = data; + *retinfo = dinfo; + return(0); + }else{ + sf->data_info = ( long * ) malloc ( sizeof(long) * D_INFO); + sf->data_info[ROW] = dinfo[ROW]; + sf->data_info[COL] = dinfo[COL]; + sf->data_info[REG] = dinfo[REG]; + sf->data = ( double **) malloc ( sizeof(double *) * dinfo[ROW]); + if (sf->data == (double **) NULL){ + printf("malloc1 problem"); + return (-1); + } + for (i=0;i<dinfo[ROW];i++) { + sf->data[i] = (double *)malloc (sizeof(double) * dinfo[COL]); + if (sf->data[i] == (double *) NULL){ + printf("malloc2 problem"); + return (-1); + } + memcpy(sf->data[i],data[i],sizeof(double) * dinfo[COL]); + } + } + } else { + if (dinfo[REG] == 0) { + ; + /*printf("Not Freeing data:!\n");*/ + /* I can be in the case of an mca without scan points */ + /*free(data); + return(-1);*/ + } + } + *retinfo = dinfo; + *retdata = data; + return( 0 ); +} + + +DllExport long +SfDataCol ( SpecFile *sf, long index, long col, double **retdata, int *error ) +{ + double *datacol=NULL; + + long *dinfo = NULL; + double **data = NULL; + + long selection; + int i,ret; + + ret = SfData(sf,index,&data,&dinfo,error); + + if (ret == -1) { + *error = SF_ERR_COL_NOT_FOUND; + *retdata = datacol; + return(-1); + } + + if (col < 0) { + selection = dinfo[COL] + col; + } else { + selection = col - 1; + } +if (selection > dinfo[COL] - 1) { +selection=dinfo[COL] - 1; +} + if ( selection < 0 || selection > dinfo[COL] - 1) { + *error = SF_ERR_COL_NOT_FOUND; + if ( dinfo != (long *)NULL) { + freeArrNZ((void ***)&data,dinfo[ROW]); + } + free(dinfo); + return(-1); + } + + datacol = (double *) malloc( sizeof(double) * dinfo[ROW]); + if (datacol == (double *)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + if ( dinfo != (long *)NULL) + freeArrNZ((void ***)&data,dinfo[ROW]); + free(dinfo); + return(-1); + } + + for (i=0;i<dinfo[ROW];i++) { + datacol[i] = data[i][selection]; + } + + ret = dinfo[ROW]; + + if ( dinfo != (long *)NULL) + freeArrNZ((void ***)&data,dinfo[ROW]); + free(dinfo); + + *retdata = datacol; + return(ret); +} + + +DllExport long +SfDataLine( SpecFile *sf, long index, long line, double **retdata, int *error ) +{ + double *datarow=NULL; + + long *dinfo = NULL; + double **data = NULL; + + long selection; + int ret; + + ret = SfData(sf,index,&data,&dinfo,error); + + if (ret == -1) { + *error = SF_ERR_LINE_NOT_FOUND; + *retdata = datarow; + return(-1); + } + + if (line < 0) { + selection = dinfo[ROW] + line; + } else { + selection = line - 1; + } + + if ( selection < 0 || selection > dinfo[ROW] - 1) { + *error = SF_ERR_LINE_NOT_FOUND; + if ( dinfo != (long *)NULL) { + freeArrNZ((void ***)&data,dinfo[ROW]); + } + free(dinfo); + return(-1); + } + + datarow = (double *) malloc( sizeof(double) * dinfo[COL]); + if (datarow == (double *)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + if ( dinfo != (long *)NULL) + freeArrNZ((void ***)&data,dinfo[ROW]); + free(dinfo); + return(-1); + } + + + memcpy(datarow,data[selection],sizeof(double) * dinfo[COL]); + + ret = dinfo[COL]; + + if ( dinfo != (long *)NULL) + freeArrNZ((void ***)&data,dinfo[ROW]); + free(dinfo); + + *retdata = datarow; + return(ret); +} + + +DllExport long +SfDataColByName( SpecFile *sf, long index, char *label, double **retdata, int *error ) +{ + + double *datacol; + + long *dinfo = NULL; + double **data = NULL; + + int i,ret; + + char **labels = NULL; + + long nb_lab, + idx; + + short tofree=0; + + if ( sfSetCurrent(sf,index,error) == -1) { + *retdata = (double *)NULL; + return(-1); + } + + if ( sf->no_labels != -1 ) { + nb_lab = sf->no_labels; + labels = sf->labels; + } else { + nb_lab = SfAllLabels(sf,index,&labels,error); + tofree = 1; + } + + if ( nb_lab == 0 || nb_lab == -1) { + *retdata = (double *)NULL; + return(-1); + } + + for (idx=0;idx<nb_lab;idx++) + if (!strcmp(label,labels[idx])) break; + + if ( idx == nb_lab ) { + if (tofree) freeArrNZ((void ***)&labels,nb_lab); + *error = SF_ERR_COL_NOT_FOUND; + *retdata = (double *)NULL; + return(-1); + } + + ret = SfData(sf,index,&data,&dinfo,error); + + if (ret == -1) { + *retdata = (double *)NULL; + return(-1); + } + + datacol = (double *) malloc( sizeof(double) * dinfo[ROW]); + if (datacol == (double *)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + if ( dinfo != (long *)NULL) + freeArrNZ((void ***)&data,dinfo[ROW]); + free(dinfo); + *retdata = (double *)NULL; + return(-1); + } + + for (i=0;i<dinfo[ROW];i++) { + datacol[i] = data[i][idx]; + } + + ret = dinfo[ROW]; + + if ( dinfo != (long *)NULL) + freeArrNZ((void ***)&data,dinfo[ROW]); + free(dinfo); + + *retdata = datacol; + + return(ret); +} + + +DllExport long +SfDataAsString( SpecFile *sf, long index, char ***retdata, int *error ) +{ + char **data=NULL; + char oneline[300]; + + char *from, + *to, + *ptr, + *dataline; + + long headersize,rows; + int i; + + if (sfSetCurrent(sf,index,error) == -1 ) + return(-1); + + if ( ((SpecScan *)sf->current->contents)->data_offset == -1 ) { + *retdata = data; + return(-1); + } + + data = (char **) malloc (sizeof(char *)); + + headersize = ((SpecScan *)sf->current->contents)->data_offset + - ((SpecScan *)sf->current->contents)->offset; + + from = sf->scanbuffer + headersize; + to = sf->scanbuffer + ((SpecScan *)sf->current->contents)->size; + + rows = -1; + i = 0; + + /* + * first characters of buffer + */ + + ptr = from; + + if (isnumber(*ptr)) { + rows++; + oneline[i] = *ptr; + i++; + } else if (*ptr == '@') { + /* + * read all mca block: go while in buffer ( ptr < to - 1 ) + * and while a newline is preceded by a slash + */ + for ( ptr = ptr + 2; + (*(ptr+1) != '\n' || (*ptr == MCA_CONT)) && ptr < to - 1 ; + ptr++); + } + + /* + * continue + */ + ptr++; + + for ( ; ptr < to - 1; ptr++) { + /* + * check for lines and for mca + */ + if ( *(ptr-1) == '\n' ) { + + if ( i != 0 ) { + oneline[i-1] = '\0'; + i = 0; + + dataline = (char *)strdup(oneline); + data = (char **) realloc ( data, sizeof(char *) * (rows +1)); + data[rows] = dataline; + } + + if ( *ptr == '@') { /* Mca --> pass it all */ + for ( ptr = ptr + 2; + (*ptr != '\n' || (*(ptr-1) == MCA_CONT)) && ptr < to ; + ptr++); + } else if ( *ptr == '#') { /* Comment --> pass one line */ + for (ptr = ptr + 1; *ptr != '\n';ptr++); + } else if ( isnumber(*ptr) ) { + rows++; + oneline[i] = *ptr; + i++; + } + } else { + if (rows == -1) continue; + + oneline[i] = *ptr; + i++; + } + } + + /* + * last line + */ + + if (rows != -1 && i) { + oneline[i-1] = '\0'; + dataline = (char *)strdup(oneline); + data = (char **) realloc ( data, sizeof(char *) * (rows+1)); + data[rows] = dataline; + } + + *retdata = data; + return(rows+1); +} diff --git a/silx/io/specfile/src/sfheader.c b/silx/io/specfile/src/sfheader.c new file mode 100644 index 0000000..424eb08 --- /dev/null +++ b/silx/io/specfile/src/sfheader.c @@ -0,0 +1,787 @@ +#/*########################################################################## +# Copyright (C) 2004-2016 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/************************************************************************ + * + * File: sfheader.c + * + * Project: SpecFile library + * + * Description: Functions to access file and scan headers + * + * Author: V.Rey + * + * Date: $Date: 2002/11/20 09:01:29 $ + * + ************************************************************************/ +/* + * Log: $Log: sfheader.c,v $ + * Log: Revision 1.3 2002/11/20 09:01:29 sole + * Log: Added free(line); in SfTitle + * Log: + * Log: Revision 1.2 2002/11/14 16:18:48 sole + * Log: stupid bug removed + * Log: + * Log: Revision 1.1 2002/11/14 15:25:39 sole + * Log: Initial revision + * Log: + * Log: Revision 3.0 2000/12/20 14:17:19 rey + * Log: Python version available + * Log: + * Revision 2.1 2000/07/31 19:05:09 19:05:09 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + */ +#include <SpecFile.h> +#include <SpecFileP.h> + +/* + * Function Declaration + */ +DllExport char * SfCommand ( SpecFile *sf, long index, int *error ); +DllExport long SfNoColumns ( SpecFile *sf, long index, int *error ); +DllExport char * SfDate ( SpecFile *sf, long index, int *error ); +DllExport double * SfHKL ( SpecFile *sf, long index, int *error ); + +DllExport long SfEpoch ( SpecFile *sf, long index, int *error ); +DllExport char * SfUser ( SpecFile *sf, long index, int *error ); +DllExport char * SfTitle ( SpecFile *sf, long index, int *error ); +DllExport char * SfFileDate ( SpecFile *sf, long index, int *error ); +DllExport long SfNoHeaderBefore ( SpecFile *sf, long index, int *error ); +DllExport long SfGeometry ( SpecFile *sf, long index, + char ***lines, int *error); +DllExport long SfHeader ( SpecFile *sf, long index, char *string, + char ***lines, int *error); +DllExport long SfFileHeader ( SpecFile *sf, long index, char *string, + char ***lines, int *error); + +int sfGetHeaderLine ( SpecFile *sf, int from, char character, + char **buf,int *error); +/* + * Internal functions + */ +static char *sfFindWord ( char *line, char *word, int *error ); +static long sfFindLines ( char *from, char *to,char *string, + char ***lines,int *error); +static char *sfOneLine ( char *from, char *end, int *error); + + +/********************************************************************* + * Function: char *SfCommand( sf, index, error ) + * + * Description: Reads '#S' line ( without #S and scan number ). + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * String pointer, + * NULL => errors. + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * SF_ERR_FILE_READ + * SF_ERR_SCAN_NOT_FOUND + * SF_ERR_LINE_NOT_FOUND + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport char * +SfCommand( SpecFile *sf, long index, int *error ) +{ + char *ret_line=NULL; + long cnt,start,length; + char *ptr; + + /* + * Choose scan + */ + if (sfSetCurrent(sf,index,error) == -1) + return(ret_line); + + cnt = 3; + for ( ptr = sf->scanbuffer + cnt; *ptr != ' ' ; ptr++,cnt++); + for ( ptr = sf->scanbuffer + cnt; *ptr == ' ' || *ptr == '\t'; ptr++,cnt++); + + start = cnt; + for ( ptr = sf->scanbuffer + cnt; *ptr != '\n' ; ptr++,cnt++); + + length = cnt - start; + + /* + * Return the rest . + */ + ret_line = (char *) malloc ( sizeof(char) * ( length + 1) ); + if (ret_line == (char *)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + return(ret_line); + } + + ptr = sf->scanbuffer + start; + memcpy(ret_line,ptr,sizeof(char) * length ); + ret_line[length] = '\0'; + + return( ret_line ); +} + + +/********************************************************************* + * Function: long SfNoColumns( sf, index, error ) + * + * Description: Gets number of columns in a scan + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * Number of scan columns.(From #N line !) + * ( -1 ) if errors occured. + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => readHeader() + * SF_ERR_LINE_NOT_FOUND + * SF_ERR_FILE_READ + * SF_ERR_SCAN_NOT_FOUND + * + *********************************************************************/ +DllExport long +SfNoColumns( SpecFile *sf, long index, int *error ) +{ + long col = -1; + char *buf=NULL; + + if ( sfSetCurrent(sf,index,error) == -1) + return(-1); + + if ( sfGetHeaderLine( sf, FROM_SCAN, SF_COLUMNS, &buf, error) == -1) + return(-1); + col = atol( buf ); + free(buf); + return( col ); +} + + +/********************************************************************* + * Function: char *SfDate( sf, index, error ) + * + * Description: Gets date from scan header + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * Date.(From #D line !), + * NULL => errors. + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => readHeader() + * SF_ERR_LINE_NOT_FOUND + * SF_ERR_FILE_READ + * SF_ERR_SCAN_NOT_FOUND + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport char * +SfDate(SpecFile *sf, long index, int *error ) +{ + char *line=NULL; + + if ( sfSetCurrent(sf,index,error) == -1 ) + return(line); + + if ( sfGetHeaderLine( sf, FROM_SCAN, SF_DATE, &line, error)) + return((char *)NULL); + + return( line ); +} + + +/********************************************************************* + * Function: double *SfHKL( sf, index, error ) + * + * Description: Reads '#Q' line. + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * Poiter to a 3x1 dbl. array( HKL[0]=HKL[H]=H_value, + * HKL[1]=HKL[K]=K_value, + * HKL[2]=HKL[L]=L_value. + * NULL => errors. + * + * Possible errors: + * SF_ERR_LINE_EMPTY + * SF_ERR_FILE_READ + * SF_ERR_SCAN_NOT_FOUND + * SF_ERR_LINE_NOT_FOUND + * SF_ERR_MEMORY_ALLOC | => mulstrtod() + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport double * +SfHKL( SpecFile *sf, long index, int *error ) +{ + char *line=NULL; + double *HKL = NULL; + long i; + + if ( sfSetCurrent(sf,index,error) == -1 ) + return((double *)NULL); + + if ( sfGetHeaderLine( sf, FROM_SCAN, SF_RECIP_SPACE, &line, error) == -1 ) + return((double *)NULL); + + /* + * Convert into double . + */ + i = mulstrtod( line, &HKL, error ); + free(line); + + if ( i < 0) + return( (double *)NULL ); + + if ( i != 3 ) { + *error = SF_ERR_LINE_EMPTY; + free( HKL ); + return( (double *)NULL ); + } + + return( HKL ); +} + + +/********************************************************************* + * Function: long SfEpoch( sf, index, error ) + * + * Description: Gets epoch from the last file header. + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * Epoch.(From #E line !) + * ( -1 ) if errors occured. + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => readHeader() + * SF_ERR_LINE_NOT_FOUND + * SF_ERR_FILE_READ + * SF_ERR_HEADER_NOT_FOUND + * SF_ERR_SCAN_NOT_FOUND + * + *********************************************************************/ +DllExport long +SfEpoch( SpecFile *sf, long index, int *error ) +{ + char *buf=NULL; + long epoch = -1; + + if ( sfSetCurrent(sf,index,error) == -1 ) + return(-1); + + if ( sfGetHeaderLine(sf,FROM_FILE,SF_EPOCH,&buf,error) == -1 ) + return(-1); + + epoch = atol( buf ); + free(buf); + + return( epoch ); +} + + +/********************************************************************* + * Function: char SfFileDate( sf, index, error ) + * + * Description: Gets date from the last file header + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * Date.(From #D line !) + * NULL => errors. + * + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => readHeader() + * SF_ERR_LINE_NOT_FOUND + * SF_ERR_LINE_EMPTY + * SF_ERR_FILE_READ + * SF_ERR_HEADER_NOT_FOUND + * SF_ERR_SCAN_NOT_FOUND + * + *********************************************************************/ +DllExport char * +SfFileDate( SpecFile *sf, long index, int *error ) +{ + char *date = NULL; + + if ( sfSetCurrent(sf,index,error) == -1 ) + return((char *)NULL); + + if ( sfGetHeaderLine(sf,FROM_FILE,SF_DATE,&date,error) == -1 ) + return((char *)NULL); + + return( date ); +} + + +/********************************************************************* + * Function: long SfNoHeaderBefore( sf, index, error ) + * + * Description: Gets number of scan header lines before data. + * + * Parameters: + * Input : (1) File pointer + * (2) Scan index + * Output: + * (3) error number + * Returns: + * Number of scan header lines before data , + * ( -1 ) => errors. + * Possible errors: + * SF_ERR_SCAN_NOT_FOUND + * + *********************************************************************/ +DllExport long +SfNoHeaderBefore( SpecFile *sf, long index, int *error ) +{ + if ( sfSetCurrent(sf,index,error) == -1 ) + return(-1); + + /* + * Obsolete... give some reasonable! + */ + return(-1); +} + + +/********************************************************************* + * Function: char *SfUser( sf, index, error ) + * + * Description: Gets spec user information from the last file header + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * User.(From 1st #C line !) + * Possible errors: + * SF_ERR_MEMORY_ALLOC ||=> findWordInLine() + * SF_ERR_LINE_NOT_FOUND | + * SF_ERR_FILE_READ | + * SF_ERR_SCAN_NOT_FOUND | => getFirstFileC() + * SF_ERR_HEADER_NOT_FOUND | + * SF_ERR_USER_NOT_FOUND + * + *********************************************************************/ +DllExport char * +SfUser( SpecFile *sf, long index, int *error ) +{ + + char *line=NULL; + char *user; + char word[] = "User ="; + + if (sfSetCurrent(sf,index,error) == -1) + return((char *)NULL); + + if (sfGetHeaderLine( sf, FROM_FILE, SF_COMMENT, &line, error) == -1) + return((char *)NULL); + + /* + * Find user. + */ + user = sfFindWord( line, word, error ); + + if ( user == (char *) NULL) { + *error = SF_ERR_USER_NOT_FOUND; + return((char *)NULL); + } + + free(line); + return( user ); +} + + +/********************************************************************* + * Function: long SfTitle( sf, index, error ) + * + * Description: Gets spec title information from the last file header + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * Title.(From 1st #C line !) + * NULL => errors. + * Possible errors: + * SF_ERR_LINE_EMPTY + * SF_ERR_MEMORY_ALLOC + * SF_ERR_LINE_NOT_FOUND | + * SF_ERR_FILE_READ | + * SF_ERR_SCAN_NOT_FOUND | => getFirstFileC() + * SF_ERR_HEADER_NOT_FOUND | + * + *********************************************************************/ +DllExport char * +SfTitle( SpecFile *sf, long index, int *error ) +{ + char *line=NULL; + char *title; + char *ptr; + long i; + + if (sfSetCurrent(sf,index,error) == -1) + return((char *)NULL); + + if (sfGetHeaderLine( sf, FROM_FILE, SF_COMMENT, &line, error) == -1) + return((char *)NULL); + + /* + * Get title.( first word ) + */ + ptr = line; + + for ( i=0,ptr=line ; *ptr!='\t' && *ptr!='\n' && *ptr!='\0' ; i++ ) { + if ( *ptr==' ' ) { + if ( *(++ptr)==' ' ) { + break; + } else ptr--; + } + ptr++; + } + + if ( i==0 ) { + *error = SF_ERR_LINE_EMPTY; + return( (char *)NULL ); + } + + title = (char *)malloc( sizeof(char) * ( i+1 ) ); + + if ( title == (char *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return( title ); + } + + memcpy( title, line, sizeof(char) * i ); + /* Next line added by Armando, it may be wrong */ + free(line); + title[i] = '\0'; + + return( title ); +} + + +DllExport long +SfGeometry ( SpecFile *sf, long index, char ***lines, int *error) +{ + char string[] = " \0"; + + string[0] = SF_GEOMETRY; + + return(SfHeader(sf,index,string,lines,error)); +} + + +DllExport long +SfHeader ( SpecFile *sf, long index, char *string, char ***lines, int *error) +{ + char *headbuf, + *endheader; + + long nb_found; + + if (sfSetCurrent(sf,index,error) == -1) + return(-1); + + headbuf = sf->scanbuffer; + endheader = sf->scanbuffer + sf->scansize; + + nb_found = sfFindLines(headbuf, endheader,string, lines,error); + + if (nb_found == 0) { + return SfFileHeader(sf,index,string,lines,error); + } else { + return nb_found; + } +} + + + +DllExport long +SfFileHeader ( SpecFile *sf, long index, char *string, char ***lines, int *error) +{ + char *headbuf, + *endheader; + + if (sfSetCurrent(sf,index,error) == -1) + return(-1); + if (sf->filebuffersize > 0) + { + headbuf = sf->filebuffer; + endheader = sf->filebuffer + sf->filebuffersize; + + return(sfFindLines(headbuf,endheader,string,lines,error)); + } + else + { + return 0; + } +} + + +static long +sfFindLines(char *from,char *to,char *string,char ***ret,int *error) +{ + char **lines; + long found; + unsigned long j; + char *ptr; + short all=0; + + found = 0; + ptr = from; + + if ( string == (char *) NULL || strlen(string) == 0) + all = 1; + + /* + * Allocate memory for an array of strings + */ + if ( (lines = (char **)malloc( sizeof(char *) )) == (char **)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return ( -1 ); + } + + /* + * First line + */ + if ( ptr[0] == '#' ) { + if ( all ) { + lines = (char **) realloc ( lines, (found+1) * sizeof(char *) ); + lines[found] = sfOneLine(ptr,to,error); + found++; + } else if ( ptr[1] == string[0]) { + for ( j=0; j < strlen(string) && ptr+j< to;j++) + if ( ptr[j+1] != string[j]) break; + if ( j == strlen(string)) { + lines = (char **) realloc ( lines, (found+1) * sizeof(char *) ); + lines[found] = sfOneLine(ptr,to,error); + found++; + } + } + } + + /* + * The rest + */ + for ( ptr = from + 1;ptr < to - 1;ptr++) { + if ( *(ptr - 1) == '\n' && *ptr == '#' ) { + if ( all ) { + lines = (char **) realloc ( lines, (found+1) * sizeof(char *) ); + lines[found] = sfOneLine(ptr,to,error); + found++; + } else if ( *(ptr+1) == string[0]) { + for ( j=0; j < strlen(string) && (ptr + j) < to;j++) + if ( ptr[j+1] != string[j]) break; + if ( j == strlen(string)) { + lines = (char **) realloc ( lines, (found+1) * sizeof(char *) ); + lines[found] = sfOneLine(ptr,to,error); + found++; + } + } + } + } + + if (found) *ret = lines; + else free(lines); + + return(found); +} + + +/********************************************************************* + * Function: char *sfGetHeaderLine( SpecFile *sf, sf_char, end, error ) + * + * Description: Gets one '#sf_char' line. + * + * Parameters: + * Input : (1) File pointer + * (2) sf_character + * (3) end ( where to stop the search ) + * Output: + * (4) error number + * Returns: + * Pointer to the line , + * NULL in case of errors. + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * SF_ERR_FILE_READ | => findLine() + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +int +sfGetHeaderLine( SpecFile *sf, int from , char sf_char, char **buf, int *error) +{ + + char *ptr,*headbuf; + char *endheader; + int found; + + found = 0; + + if ( from == FROM_SCAN ) { + headbuf = sf->scanbuffer; + endheader = sf->scanbuffer + sf->scanheadersize; + } else if ( from == FROM_FILE ) { + if ( sf->filebuffersize == 0 ) { + *error = SF_ERR_LINE_NOT_FOUND; + return(-1); + } + headbuf = sf->filebuffer; + endheader = sf->filebuffer + sf->filebuffersize; + } else { + *error = SF_ERR_LINE_NOT_FOUND; + return(-1); + } + + if ( headbuf[0] == '#' && headbuf[1] == sf_char) { + found = 1; + ptr = headbuf; + } else { + for ( ptr = headbuf + 1;ptr < endheader - 1;ptr++) { + if ( *(ptr - 1) == '\n' && *ptr == '#' && *(ptr+1) == sf_char) { + found = 1; + break; + } + } + } + + if (!found) { + *error = SF_ERR_LINE_NOT_FOUND; + return(-1); + } + + /* + * Beginning of the thing after '#X ' + */ + ptr = ptr + 3; + + *buf = sfOneLine(ptr,endheader,error); + + return( 0 ); +} + +static char * +sfOneLine(char *from,char *end,int *error) +{ + static char linebuf[5000]; + + char *ptr,*buf; + long i; + + ptr = from; + + for(i=0;*ptr != '\n' && ptr < end;ptr++,i++) { + linebuf[i] = *ptr; + } + + linebuf[i]='\0'; + + buf = (char *) malloc ( i+1 ); + + if (buf == ( char * ) NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return((char *)NULL); + } + strcpy(buf,(char *)linebuf); + + return(buf); +} + + +/********************************************************************* + * Function: char *sfFindWord( line, word, error ) + * + * Description: Looks for 'word' in given line and returns a + * copy of the rest of the line after the found word . + * + * Parameters: + * Input : (1) Line pointer + * (2) Word pointer + * Output: + * (3) error number + * Returns: + * Rest of the line after word. + * NULL => not found. + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * + *********************************************************************/ +static char * +sfFindWord( char *line, char *word, int *error ) +{ + char *ret; + + line = strstr( line, word ); + + if ( line == (char *)NULL ) { + return( line ); + } + + line += strlen( word ); + + /* + * Delete blanks. + */ + while ( *line == ' ' || *line == '\t' ) line++; + + /* + * Copy the rest. + */ + ret = (char *)malloc( sizeof(char) * ( 1 + strlen( line )) ); + + if ( ret == (char *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return(ret); + } + + memcpy( ret, line, sizeof(char) * ( 1 + strlen( line )) ); + + return( ret ); +} + diff --git a/silx/io/specfile/src/sfindex.c b/silx/io/specfile/src/sfindex.c new file mode 100644 index 0000000..fd0c7c3 --- /dev/null +++ b/silx/io/specfile/src/sfindex.c @@ -0,0 +1,551 @@ +#/*########################################################################## +# Copyright (C) 2004-2013 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/************************************************************************ + * + * File: sfindex.c + * + * Project: SpecFile library + * + * Description: functions for scan numbering + * + * Author: V.Rey + * + * Date: $Date: 2004/05/12 16:56:47 $ + * + ************************************************************************/ +/* + * Log: $Log: sfindex.c,v $ + * Log: Revision 1.2 2004/05/12 16:56:47 sole + * Log: Support for windows + * Log: + * Log: Revision 1.1 2003/03/06 16:59:05 sole + * Log: Initial revision + * Log: + * Log: Revision 3.0 2000/12/20 14:17:19 rey + * Log: Python version available + * Log: + * Revision 2.1 2000/07/31 19:05:15 19:05:15 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + */ +/* + * File: sfindex.c + * + * Description: + * + * Project: + * + * Author: Vicente Rey Bakaikoa + * + * Date: March 2000 + */ +/* + * $Log: sfindex.c,v $ + * Revision 1.2 2004/05/12 16:56:47 sole + * Support for windows + * + * Revision 1.1 2003/03/06 16:59:05 sole + * Initial revision + * + * Revision 3.0 2000/12/20 14:17:19 rey + * Python version available + * + * Revision 2.1 2000/07/31 19:05:15 19:05:15 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:26:55 13:26:55 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + * + */ + +#include <SpecFile.h> +#include <SpecFileP.h> +#ifdef WIN32 +#include <stdio.h> +#include <stdlib.h> +#else +#include <unistd.h> +#endif +#include <ctype.h> + +#define ON_COMMENT 0 +#define ON_ABO 1 +#define ON_RES 2 +/* + * Declarations + */ +DllExport long * SfList ( SpecFile *sf, int *error ); +DllExport long SfIndexes ( SpecFile *sf, long number, long **idxlist ); +DllExport long SfIndex ( SpecFile *sf, long number, long order ); +DllExport long SfCondList ( SpecFile *sf, long cond, long **scan_list, + int *error ); +DllExport long SfScanNo ( SpecFile *sf ); +DllExport int SfNumberOrder ( SpecFile *sf, long index, long *number, + long *order ); +DllExport long SfNumber ( SpecFile *sf, long index ); +DllExport long SfOrder ( SpecFile *sf, long index ); + +/* + * Internal Functions + */ +static int checkAborted( SpecFile *sf, ObjectList *ptr, int *error ); + + +/********************************************************************* + * Function: long *SfList( sf, error ) + * + * Description: Creates an array with all scan numbers. + * + * Parameters: + * Input : SpecFile pointer + * Returns: + * Array with scan numbers. + * NULL if errors occured. + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport long * +SfList( SpecFile *sf, int *error ) +{ + register ObjectList *ptr; + long *scan_list; + long i = 0; + + scan_list = (long *)malloc( sizeof(long) * (sf->no_scans) ); + + if ( scan_list == (long *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return( scan_list ); + } + + for ( ptr=sf->list.first ; ptr ; ptr=ptr->next ,i++) { + scan_list[i] = ( ((SpecScan *)(ptr->contents))->scan_no ); + } + /*printf("scanlist[%li] = %li\n",i-1,scan_list[i-1]);*/ + return( scan_list ); +} + + +/********************************************************************* + * Function: long SfIndexes( sf, number , idxlist) + * + * Description: Creates an array with all indexes with the same scan + * number. + * + * Parameters: + * Input : SpecFile pointer + * scan number + * Output : array with scan indexes + * Returns: + * Number of indexes found + * Possible errors: + * None possible + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport long +SfIndexes( SpecFile *sf, long number, long **idxlist ) +{ + ObjectList *ptr; + long i; + long *indexes; + long *arr; + + i = 0; + indexes = (long *)malloc(sf->no_scans * sizeof(long)); + + for (ptr = sf->list.first; ptr; ptr=ptr->next ) { + if ( number == ((SpecScan *)(ptr->contents))->scan_no) { + indexes[i] = ((SpecScan *)(ptr->contents))->index; + i++; + } + } + + if (i == 0) + arr = (long *) NULL; + else { + arr = (long *)malloc(sizeof(long) * i); + memcpy(arr,indexes,sizeof(long) * i); + } + + *idxlist = arr; + free(indexes); + return( i ); +} + + +/********************************************************************* + * Function: long SfIndex( sf, number, order ) + * + * Description: Gets scan index from scan number and order. + * + * Parameters: + * Input : (1) Scan number + * (2) Scan order + * Returns: + * Index number. + * (-1) if not found. + * + *********************************************************************/ +DllExport long +SfIndex( SpecFile *sf, long number, long order ) +{ + ObjectList *ptr; + + ptr = findScanByNo( &(sf->list), number, order ); + if ( ptr != (ObjectList *)NULL ) + return( ((SpecScan *)(ptr->contents))->index ); + + return( -1 ); +} + + +/********************************************************************* + * Function: long SfCondList( sf, cond, scan_list, error ) + * + * Description: Creates an array with all scan numbers. + * + * Parameters: + * Input : (1) SpecFile pointer + * (2) Condition : 0 => not aborted scans ( NOT_ABORTED ) + * -1 => aborted scans ( ABORTED ) + * nn => more than 'nn' data lines + * Output: (3) Scan list + * (4) error code + * Returns: + * Number of found scans. + * ( -1 ) if errors occured. + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport long +SfCondList( SpecFile *sf, long cond, long **scan_list, int *error ) +{ + register ObjectList *ptr; + long *list; + long i = 0; + int retcheck; + long index; + + *scan_list = (long *)NULL; + + list = (long *)malloc( sizeof(long) * (sf->no_scans) ); + + if ( list == (long *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return( -1 ); + } + + /* + * Aborted scans . + */ + if ( cond < 0 ) { /* aborted scans */ + for ( ptr=sf->list.first ; ptr ; ptr=ptr->next ) { + + retcheck = checkAborted( sf, ptr, error ); + + if ( retcheck < 0 ) { + free( list ); + return( -1 ); + } else if ( retcheck > 0) { + list[i] = ( ((SpecScan *)(ptr->contents))->scan_no ); + i++; + } + } + } else if ( cond == 0 ) { /* not aborted scans */ + for ( ptr=sf->list.first ; ptr ; ptr=ptr->next ) { + + retcheck = checkAborted( sf, ptr, error ); + + if ( retcheck < 0 ) { + free( list ); + return( -1 ); + } else if ( retcheck == 0 ) { + list[i] = ( ((SpecScan *)(ptr->contents))->scan_no ); + i++; + } + } + } else { /* cond > 0 - more than n data_lines */ + for ( ptr=sf->list.first ; ptr ; ptr=ptr->next ) { + + index = ( ((SpecScan *)(ptr->contents))->index ); + if ( SfNoDataLines(sf,index,error) <= cond ) continue; + + list[i] = ( ((SpecScan *)(ptr->contents))->scan_no ); + i++; + } + } + + *scan_list = ( long * ) malloc ( i * sizeof(long)); + + if ( *scan_list == (long *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return( -1 ); + } + + memcpy(*scan_list,list, i * sizeof(long)); + free(list); + + return( i ); +} + + +/********************************************************************* + * Function: long SfScanNo( sf ) + * + * Description: Gets number of scans. + * + * Parameters: + * Input :(1) SpecFile pointer + * Returns: + * Number of scans. + * + *********************************************************************/ +DllExport long +SfScanNo( SpecFile *sf ) +{ + return( sf->no_scans ); +} + + +/********************************************************************* + * Function: int SfNumberOrder( sf, index, number, order ) + * + * Description: Gets scan number and order from index. + * + * Parameters: + * Input : + * (1) SpecFile pointer + * (2) Scan index + * Output: + * (3) Scan number + * (4) Scan order + * Returns: + * ( -1 ) => not found + * ( 0 ) => found + * + *********************************************************************/ +DllExport int +SfNumberOrder( SpecFile *sf, long index, long *number, long *order ) +{ + register ObjectList *list; + + *number = -1; + *order = -1; + + /* + * Find scan . + */ + list = findScanByIndex( &(sf->list), index ); + if ( list == (ObjectList *)NULL ) return( -1 ); + + *number = ((SpecScan *)list->contents)->scan_no; + *order = ((SpecScan *)list->contents)->order; + + return( 0 ); +} + + +/********************************************************************* + * Function: long SfNumber( sf, index ) + * + * Description: Gets scan number from index. + * + * Parameters: + * Input : (1) SpecFile pointer + * (2) Scan index + * Returns: + * Scan number. + * ( -1 ) => not found + * + *********************************************************************/ +DllExport long +SfNumber( SpecFile *sf, long index ) +{ + register ObjectList *list; + + /* + * Find scan . + */ + list = findScanByIndex( &(sf->list), index ); + if ( list == (ObjectList *)NULL ) return( -1 ); + + return( ((SpecScan *)list->contents)->scan_no ); +} + + +/********************************************************************* + * Function: long SfOrder( sf, index ) + * + * Description: Gets scan order from index. + * + * Parameters: + * Input : (1) SpecFile pointer + * (2) Scan index + * Returns: + * Scan order. + * ( -1 ) => not found + * + *********************************************************************/ +DllExport long +SfOrder( SpecFile *sf, long index ) +{ + register ObjectList *list; + + + /* + * Find scan . + */ + list = findScanByIndex( &(sf->list), index ); + if ( list == (ObjectList *)NULL ) return( -1 ); + + return( ((SpecScan *)list->contents)->order ); +} + +/********************************************************************* + * Function: int checkAborted( sf, ptr, error ) + * + * Description: Checks if scan was aborted or not . + * + * Parameters: + * Input : (1) SpecScan pointer + * (2) Pointer to the scan + * Output: (3) Error number + * Returns: + * (-1 ) : error + * ( 0 ) : not aborted + * ( 1 ) : aborted + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => readHeader() + * SF_ERR_FILE_READ + * + *********************************************************************/ +static int +checkAborted( SpecFile *sf, ObjectList *ptr, int *error ) +{ + long nbytes; + long data_lines,size,from; + SpecScan *scan; + char *buffer,*cptr,next; + int state=ON_COMMENT; + int aborted=0; + long index; + + scan = ptr->contents; + index = scan->index; + + data_lines = SfNoDataLines(sf,index,error); + + if ( scan->hdafter_offset == -1 && data_lines > 0) { + return(0); + } else if ( data_lines <= 0 ) { + /* + * maybe aborted on first point + * we have to all to know ( but no data anyway ) + */ + size = scan->size; + from = scan->offset; + } else { + size = scan->last - scan->hdafter_offset; + from = scan->hdafter_offset; + } + + lseek(sf->fd,from,SEEK_SET); + buffer = ( char * ) malloc (size); + nbytes = read(sf->fd,buffer,size); + + if (nbytes == -1 ) { + *error = SF_ERR_FILE_READ; + return(-1); + } + + if (buffer[0] == '#' && buffer[1] == 'C') { + state = ON_COMMENT; + } + + for ( cptr = buffer + 1; cptr < buffer + nbytes - 1; cptr++) { + /* + * Comment line + */ + if ( *cptr == '#' && *(cptr+1) == 'C' && *(cptr-1) == '\n') { + state = ON_COMMENT; + } + /* + * Check aborted + */ + if ( *(cptr-1) == 'a' && *cptr == 'b' && *(cptr+1) == 'o') { + if ( state == ON_COMMENT ) { + state = ON_ABO; + } + } + if ( *(cptr-1) == 'r' && *cptr == 't' && *(cptr+1) == 'e') { + if ( state == ON_ABO) { + aborted = 1; + } + } + /* + * Check resume line + */ + if ( *(cptr-1) == 'r' && *cptr == 'e' && *(cptr+1) == 's') { + if ( state == ON_COMMENT ) { + state = ON_RES; + } + } + if ( *(cptr-1) == 'u' && *cptr == 'm' && *(cptr+1) == 'e') { + if ( state == ON_RES) { + aborted = 0; + } + } + + /* + * If data line... aborted is aborted + */ + if ( *cptr == '\n' ) { + next = *(cptr+1); + if (isdigit(next) || next == '+' || next == '-' || next == '@') { + aborted = 0; + } + } + } + free(buffer); + return(aborted); + +/* + * To be implemented + * - return 0 = not aborted + * - return 1 = aborted + * - return -1 = error + * + * implementation: read whole scan + * - go to header after offset + * - read all till end of scan with size + * - search for a line with a) #C ( comment ) then "aborted" + */ + return( 0 ); +} diff --git a/silx/io/specfile/src/sfinit.c b/silx/io/specfile/src/sfinit.c new file mode 100644 index 0000000..6f88078 --- /dev/null +++ b/silx/io/specfile/src/sfinit.c @@ -0,0 +1,827 @@ +#/*########################################################################## +# Copyright (C) 2004-2013 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/************************************************************************ + * + * File: sfinit.c + * + * Project: SpecFile library + * + * Description: Initialization routines ( open/update/close ) + * + * Author: V.Rey + * + * Date: $Date: 2005/05/25 13:01:32 $ + * + ************************************************************************/ +/* + * Log: $Log: sfinit.c,v $ + * Log: Revision 1.5 2005/05/25 13:01:32 sole + * Log: Back to revision 1.3 + * Log: + * Log: Revision 1.3 2004/05/12 16:57:32 sole + * Log: windows support + * Log: + * Log: Revision 1.2 2002/11/12 13:23:43 sole + * Log: Version with added support for the new sf->updating flag + * Log: + * Log: Revision 3.0 2000/12/20 14:17:19 rey + * Log: Python version available + * Log: + * Log: Revision 2.2 2000/12/20 12:12:08 rey + * Log: bug corrected with SfAllMotors + * Log: + * Revision 2.1 2000/07/31 19:04:42 19:04:42 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + */ +/* + * File: sfinit.c + * + * Description: This file implements basic routines on SPEC datafiles + * SfOpen / SfClose / SfError + * + * SfUpdate is kept but it is obsolete + * + * Version: 2.0 + * + * Date: March 2000 + * + * Author: Vicente REY + * + * Copyright: E.S.R.F. European Synchrotron Radiation Facility (c) 2000 + */ +/* + * $Log: sfinit.c,v $ + * Revision 1.5 2005/05/25 13:01:32 sole + * Back to revision 1.3 + * + * Revision 1.3 2004/05/12 16:57:32 sole + * windows support + * + * Revision 1.2 2002/11/12 13:23:43 sole + * Version with added support for the new sf->updating flag + * + * Revision 3.0 2000/12/20 14:17:19 rey + * Python version available + * + * Revision 2.2 2000/12/20 12:12:08 rey + * bug corrected with SfAllMotors + * + * Revision 2.1 2000/07/31 19:04:42 19:04:42 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:27:19 13:27:19 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + * + * + *********************************************************************/ +#include <sys/types.h> +#include <sys/stat.h> +#include <errno.h> +#include <fcntl.h> +#include <ctype.h> + +#ifdef WIN32 +#include <stdio.h> +#include <stdlib.h> +#else +#include <unistd.h> +#endif + +#include <SpecFile.h> +#include <SpecFileP.h> + +/* + * Defines + */ + +#define ANY 0 +#define NEWLINE 1 +#define COMMENT 2 + +#define SF_ISFX ".sfI" + +#define SF_INIT 0 +#define SF_READY 1 +#define SF_MODIFIED 2 + +/* + * Function declaration + */ + +DllExport SpecFile * SfOpen ( char *name,int *error); +DllExport SpecFile * SfOpen2 ( int fd, char *name,int *error); +DllExport int SfClose ( SpecFile *sf); +DllExport short SfUpdate ( SpecFile *sf, int *error); +DllExport char * SfError ( int error); + + +#ifdef linux +char SF_SIGNATURE[] = "Linux 2ruru Sf2.0"; +#else +char SF_SIGNATURE[] = "2ruru Sf2.0"; +#endif + +/* + * Internal functions + */ +static short statusEnd ( char c2, char c1); +static void sfStartBuffer ( SpecFile *sf, SfCursor *cursor, short status,char c0, char c1,int *error); +static void sfNewLine ( SpecFile *sf, SfCursor *cursor, char c0,char c1,int *error); +static void sfHeaderLine ( SpecFile *sf, SfCursor *cursor, char c,int *error); +static void sfNewBlock ( SpecFile *sf, SfCursor *cursor, short how,int *error); +static void sfSaveScan ( SpecFile *sf, SfCursor *cursor, int *error); +static void sfAssignScanNumbers (SpecFile *sf); +static void sfReadFile ( SpecFile *sf, SfCursor *cursor, int *error); +static void sfResumeRead ( SpecFile *sf, SfCursor *cursor, int *error); +#ifdef SPECFILE_USE_INDEX_FILE +static short sfOpenIndex ( SpecFile *sf, SfCursor *cursor, int *error); +static short sfReadIndex ( int sfi, SpecFile *sf, SfCursor *cursor, int *error); +static void sfWriteIndex ( SpecFile *sf, SfCursor *cursor, int *error); +#endif + +/* + * errors + */ +typedef struct _errors { + int code; + char *message; +} sf_errors ; + +static +sf_errors errors[]={ +{ SF_ERR_MEMORY_ALLOC , "Memory allocation error ( SpecFile )" }, +{ SF_ERR_FILE_OPEN , "File open error ( SpecFile )" }, +{ SF_ERR_FILE_CLOSE , "File close error ( SpecFile )" }, +{ SF_ERR_FILE_READ , "File read error ( SpecFile )" }, +{ SF_ERR_FILE_WRITE , "File write error ( SpecFile )" }, +{ SF_ERR_LINE_NOT_FOUND , "Line not found error ( SpecFile )" }, +{ SF_ERR_SCAN_NOT_FOUND , "Scan not found error ( SpecFile )" }, +{ SF_ERR_HEADER_NOT_FOUND , "Header not found error ( SpecFile )" }, +{ SF_ERR_LABEL_NOT_FOUND , "Label not found error ( SpecFile )" }, +{ SF_ERR_MOTOR_NOT_FOUND , "Motor not found error ( SpecFile )" }, +{ SF_ERR_POSITION_NOT_FOUND , "Position not found error ( SpecFile )" }, +{ SF_ERR_LINE_EMPTY , "Line empty or wrong data error ( SpecFile )"}, +{ SF_ERR_USER_NOT_FOUND , "User not found error ( SpecFile )" }, +{ SF_ERR_COL_NOT_FOUND , "Column not found error ( SpecFile )" }, +{ SF_ERR_MCA_NOT_FOUND , "Mca not found ( SpecFile )" }, +/* MUST be always the last one : */ +{ SF_ERR_NO_ERRORS , "OK ( SpecFile )" }, +}; + + + + + +/********************************************************************* + * Function: SpecFile *SfOpen( name, error) + * + * Description: Opens connection to Spec data file. + * Creates index list in memory. + * + * Parameters: + * Input : + * (1) Filename + * Output: + * (2) error number + * Returns: + * SpecFile pointer. + * NULL if not successful. + * + * Possible errors: + * SF_ERR_FILE_OPEN + * SF_ERR_MEMORY_ALLOC + * + *********************************************************************/ + +DllExport SpecFile * +SfOpen(char *name, int *error) { + + int fd; + fd = open(name,SF_OPENFLAG); + return (SfOpen2(fd, name, error)); +} + + + +/********************************************************************* + * Function: SpecFile *SfOpen2( fd, name, error) + * + * Description: Opens connection to Spec data file. + * Creates index list in memory. + * + * Parameters: + * Input : + * (1) Integer file handle + * (2) Filename + * Output: + * (3) error number + * Returns: + * SpecFile pointer. + * NULL if not successful. + * + * Possible errors: + * SF_ERR_FILE_OPEN + * SF_ERR_MEMORY_ALLOC + * + *********************************************************************/ + +DllExport SpecFile * +SfOpen2(int fd, char *name,int *error) { + SpecFile *sf; + short idxret; + SfCursor cursor; + struct stat mystat; + + if ( fd == -1 ) { + *error = SF_ERR_FILE_OPEN; + return ( (SpecFile *) NULL ); + } + + /* + * Init specfile strucure + */ +#ifdef _WINDOWS + static HANDLE hglb; + hglb = GlobalAlloc(GPTR,sizeof(SpecFile)); + sf = (SpecFile * ) GlobalLock(hglb); +#else + sf = (SpecFile *) malloc ( sizeof(SpecFile )); +#endif + stat(name,&mystat); + + sf->fd = fd; + sf->m_time = mystat.st_mtime; + sf->sfname = (char *)strdup(name); + + sf->list.first = (ObjectList *)NULL; + sf->list.last = (ObjectList *)NULL; + sf->no_scans = 0; + sf->current = (ObjectList *)NULL; + sf->scanbuffer = (char *)NULL; + sf->scanheadersize = 0; + sf->filebuffer = (char *)NULL; + sf->filebuffersize = 0; + + sf->no_labels = -1; + sf->labels = (char **)NULL; + sf->no_motor_names = -1; + sf->motor_names = (char **)NULL; + sf->no_motor_pos = -1; + sf->motor_pos = (double *)NULL; + sf->data = (double **)NULL; + sf->data_info = (long *)NULL; + sf->updating = 0; + + /* + * Init cursor + */ + cursor.bytecnt = 0; + cursor.cursor = 0; + cursor.scanno = 0; + cursor.hdafoffset = -1; + cursor.dataoffset = -1; + cursor.mcaspectra = 0; + cursor.what = 0; + cursor.data = 0; + cursor.file_header = 0; + + +#ifdef SPECFILE_USE_INDEX_FILE + /* + * Check if index file + * open it and continue from there + */ + idxret = sfOpenIndex(sf,&cursor,error); +#else + idxret = SF_INIT; +#endif + + switch(idxret) { + case SF_MODIFIED: + sfResumeRead(sf,&cursor,error); + sfReadFile(sf,&cursor,error); + break; + + case SF_INIT: + sfReadFile(sf,&cursor,error); + break; + + case SF_READY: + break; + + default: + break; + } + + sf->cursor = cursor; + + /* + * Once is all done assign scan numbers and orders + */ + sfAssignScanNumbers(sf); + +#ifdef SPECFILE_USE_INDEX_FILE + if (idxret != SF_READY) sfWriteIndex(sf,&cursor,error); +#endif + return(sf); +} + + + + +/********************************************************************* + * + * Function: int SfClose( sf ) + * + * Description: Closes a file previously opened with SfOpen() + * and frees all memory . + * Parameters: + * Input: + * File pointer + * Returns: + * 0 : close successful + * -1 : errors occured + * + *********************************************************************/ +DllExport int +SfClose( SpecFile *sf ) +{ + register ObjectList *ptr; + register ObjectList *prevptr; + + freeAllData(sf); + + for( ptr=sf->list.last ; ptr ; ptr=prevptr ) { + free( (SpecScan *)ptr->contents ); + prevptr = ptr->prev; + free( (ObjectList *)ptr ); + } + + free ((char *)sf->sfname); + if (sf->scanbuffer != NULL) + free ((char *)sf->scanbuffer); + + if (sf->filebuffer != NULL) + free ((char *)sf->filebuffer); + + if( close(sf->fd) ) { + return( -1 ) ; + } + + free ( sf ); + sf = (SpecFile *)NULL; + + return ( 0 ); +} + + +/********************************************************************* + * + * Function: short SfUpdate( sf, error ) + * + * Description: Updates connection to Spec data file . + * Appends to index list in memory. + * + * Parameters: + * Input : + * (1) sf (pointer to the index list in memory) + * Output: + * (2) error number + * Returns: + * ( 0 ) => Nothing done. + * ( 1 ) => File was updated + * + * Possible errors: + * SF_ERR_FILE_OPEN + * SF_ERR_MEMORY_ALLOC + * + *********************************************************************/ +DllExport short +SfUpdate ( SpecFile *sf, int *error ) +{ + struct stat mystat; + long mtime; + /*printf("In SfUpdate\n"); + __asm("int3");*/ + stat(sf->sfname,&mystat); + + mtime = mystat.st_mtime; + + if (sf->m_time != mtime) { + sfResumeRead (sf,&(sf->cursor),error); + sfReadFile (sf,&(sf->cursor),error); + + sf->m_time = mtime; + sfAssignScanNumbers(sf); +#ifdef SPECFILE_USE_INDEX_FILE + sfWriteIndex (sf,&(sf->cursor),error); +#endif + return(1); + }else{ + return(0); + } +} + + +/********************************************************************* + * + * Function: char *SfError( code ) + * + * Description: Returns the message associated with error 'code'. + * + * Parameters: + * Input : error code + * + *********************************************************************/ +DllExport char * +SfError(int code ) { + int i; + + for ( i=0 ; errors[i].code!=0 ; i++ ) { + if ( errors[i].code == code ) break; + } + return( errors[i].message ); +} + + +static void +sfReadFile(SpecFile *sf,SfCursor *cursor,int *error) { + + int fd; + + char *buffer,*ptr; + + long size,bytesread; + + short status; + + fd = sf->fd; + + size = 1024*1024; + + + if ( (buffer = (char *) malloc(size)) == NULL ) { + /* + * Try smaller buffer + */ + size = 128 * 128; + if ( (buffer = (char *) malloc(size)) == NULL ) { + /* + * Uhmmm + */ + *error = SF_ERR_MEMORY_ALLOC; + free(sf->sfname); + free(sf); + sf = (SpecFile *)NULL; + return; + } + } + + status = NEWLINE; + while ((bytesread = read(fd,buffer,size)) > 0 ) { + + sfStartBuffer(sf,cursor,status,buffer[0],buffer[1],error); + + cursor->bytecnt++; + for (ptr=buffer+1;ptr < buffer + bytesread -1; ptr++,cursor->bytecnt++) { + if (*(ptr-1) == '\n' ) { + sfNewLine(sf,cursor,*ptr,*(ptr+1),error); + } + } + + cursor->bytecnt++; + status = statusEnd(buffer[bytesread-2],buffer[bytesread-1]); + } + + free(buffer); + + sf->no_scans = cursor->scanno; + /* + * Save last + */ + sfSaveScan(sf,cursor,error); + + return; + +} + + +static void +sfResumeRead ( SpecFile *sf, SfCursor *cursor, int *error) { + cursor->bytecnt = cursor->cursor; + cursor->what = 0; + cursor->hdafoffset = -1; + cursor->dataoffset = -1; + cursor->mcaspectra = 0; + cursor->data = 0; + cursor->scanno--; + sf->updating = 1; + lseek(sf->fd,cursor->bytecnt,SEEK_SET); + return; +} + + +#ifdef SPECFILE_USE_INDEX_FILE +static short +sfOpenIndex ( SpecFile *sf, SfCursor *cursor, int *error) { + char *idxname; + short namelength; + int sfi; + + namelength = strlen(sf->sfname) + strlen(SF_ISFX) + 1; + + idxname = (char *)malloc(sizeof(char) * namelength); + + sprintf(idxname,"%s%s",sf->sfname,SF_ISFX); + + if ((sfi = open(idxname,SF_OPENFLAG)) == -1) { + free(idxname); + return(SF_INIT); + } else { + free(idxname); + return(sfReadIndex(sfi,sf,cursor,error)); + } +} + + +static short +sfReadIndex ( int sfi, SpecFile *sf, SfCursor *cursor, int *error) { + SfCursor filecurs; + char buffer[200]; + long bytesread,i=0; + SpecScan scan; + short modif = 0; + long mtime; + + /* + * read signature + */ + bytesread = read(sfi,buffer,sizeof(SF_SIGNATURE)); + if (strcmp(buffer,SF_SIGNATURE) || bytesread == 0 ) { + return(SF_INIT); + } + + /* + * read cursor and specfile structure + */ + if ( read(sfi,&mtime, sizeof(long)) == 0) return(SF_INIT); + if ( read(sfi,&filecurs, sizeof(SfCursor)) == 0) return(SF_INIT); + + if (sf->m_time != mtime) modif = 1; + + while(read(sfi,&scan, sizeof(SpecScan))) { + addToList(&(sf->list), (void *)&scan, (long)sizeof(SpecScan)); + i++; + } + sf->no_scans = i; + + memcpy(cursor,&filecurs,sizeof(SfCursor)); + + if (modif) return(SF_MODIFIED); + + return(SF_READY); +} + + +static void +sfWriteIndex ( SpecFile *sf, SfCursor *cursor, int *error) { + + int fdi; + char *idxname; + short namelength; + ObjectList *obj; + long mtime; + + namelength = strlen(sf->sfname) + strlen(SF_ISFX) + 1; + + idxname = (char *)malloc(sizeof(char) * namelength); + + sprintf(idxname,"%s%s",sf->sfname,SF_ISFX); + + /* if ((fdi = open(idxname,SF_WRITEFLAG,SF_UMASK)) == -1) { */ + if ((fdi = open(idxname,O_CREAT | O_WRONLY,SF_UMASK)) == -1) { + printf(" - cannot open. Error: (%d)\n",errno); + free(idxname); + return; + } else { + mtime = sf->m_time; + write(fdi,SF_SIGNATURE,sizeof(SF_SIGNATURE)); + /* + * Swap bytes for linux + */ + write(fdi, (void *) &mtime, sizeof(long)); + write(fdi, (void *) cursor, sizeof(SfCursor)); + for( obj = sf->list.first; obj ; obj = obj->next) + write(fdi,(void *) obj->contents, sizeof(SpecScan)); + close(fdi); + free(idxname); + return; + } +} +#endif + + +/***************************************************************************** + * + * Function: static void sfStartBuffer() + * + * Description: start analyzing file buffer and takes into account the last + * bytes of previous reading as defined in variable status + * + *****************************************************************************/ +static void +sfStartBuffer(SpecFile *sf,SfCursor *cursor,short status,char c0,char c1,int *error) { + + if ( status == ANY ) { + return; + } else if ( status == NEWLINE ) { + sfNewLine(sf,cursor,c0,c1,error); + } else if ( status == COMMENT ) { + cursor->bytecnt--; + sfHeaderLine(sf,cursor,c0,error); + cursor->bytecnt++; + } + +} + + +/******************************************************************************* + * + * Function: static void statusEnd() + * + * Description: ends analysis of file buffer and returns a variable + * indicating staus ( last character is COMMENT,NEWLINE of ANY ) + * + *******************************************************************************/ +static short +statusEnd(char c2,char c1) { + + if (c2=='\n' && c1=='#') { + return(COMMENT); + } else if (c1=='\n') { + return(NEWLINE); + } else { + return(ANY); + } +} + + +static void +sfNewLine(SpecFile *sf,SfCursor *cursor,char c0,char c1,int *error) { + if (c0 == '#') { + sfHeaderLine(sf,cursor,c1,error); + } else if (c0 == '@') { + if ( cursor->data == 0 ) { + cursor->dataoffset = cursor->bytecnt; + cursor->data = 1; + } + cursor->mcaspectra++; + } else if ( isdigit(c0) || c0 == '-' || c0 == '+' || c0 == ' ' || c0 == '\t') { + if ( cursor->data == 0 ) { + cursor->dataoffset = cursor->bytecnt; + cursor->data = 1; + } + } +} + + +static void +sfHeaderLine(SpecFile *sf,SfCursor *cursor,char c,int *error) { + if ( c == 'S') { + sfNewBlock(sf,cursor,SCAN,error); + } else if ( c == 'F') { + sfNewBlock(sf,cursor,FILE_HEADER,error); + } else { + if (cursor->data && cursor->hdafoffset == -1 ) + cursor->hdafoffset = cursor->bytecnt; + } +} + + +static void +sfNewBlock(SpecFile *sf,SfCursor *cursor,short newblock,int *error) { + + /* + * Dispatch opened block + */ + if (cursor->what == SCAN) { + sfSaveScan(sf,cursor,error); + } else if ( cursor->what == FILE_HEADER) { + cursor->fileh_size = cursor->bytecnt - cursor->cursor + 1; + } + + /* + * Open new block + */ + if (newblock == SCAN) { + cursor->scanno++; + cursor->what = SCAN; + } else { + cursor->file_header = cursor->bytecnt; + } + cursor->what = newblock; + cursor->hdafoffset = -1; + cursor->dataoffset = -1; + cursor->mcaspectra = 0; + cursor->data = 0; + cursor->cursor = cursor->bytecnt; +} + + +static void +sfSaveScan(SpecFile *sf, SfCursor *cursor,int *error) { + SpecScan scan; + SpecScan *oldscan; + register ObjectList *ptr; + + + scan.index = cursor->scanno; + scan.offset = cursor->cursor; + scan.size = cursor->bytecnt - cursor->cursor; + scan.last = cursor->bytecnt - 1; + scan.data_offset = cursor->dataoffset; + scan.hdafter_offset = cursor->hdafoffset; + scan.mcaspectra = cursor->mcaspectra; + scan.file_header = cursor->file_header; + + if(sf->updating == 1){ + ptr = sf->list.last; + oldscan=(SpecScan *)(ptr->contents); + oldscan->index=scan.index; + oldscan->offset=scan.offset; + oldscan->size=scan.size; + oldscan->last=scan.last; + oldscan->data_offset=scan.data_offset; + oldscan->hdafter_offset=scan.hdafter_offset; + oldscan->mcaspectra=scan.mcaspectra; + oldscan->file_header=scan.file_header; + sf->updating=0; + }else{ + addToList( &(sf->list), (void *)&scan, (long) sizeof(SpecScan)); + } +} + + +static void +sfAssignScanNumbers(SpecFile *sf) { + + int size,i; + char *buffer,*ptr; + + char buffer2[50]; + + register ObjectList *object, + *object2; + SpecScan *scan, + *scan2; + + size = 50; + buffer = (char *) malloc(size); + + for ( object = (sf->list).first; object; object=object->next) { + scan = (SpecScan *) object->contents; + + lseek(sf->fd,scan->offset,SEEK_SET); + read(sf->fd,buffer,size); + buffer[49] = '\0'; + + for ( ptr = buffer+3,i=0; *ptr != ' ';ptr++,i++) buffer2[i] = *ptr; + + buffer2[i] = '\0'; + + scan->scan_no = atol(buffer2); + scan->order = 1; + for ( object2 = (sf->list).first; object2 != object; object2=object2->next) { + scan2 = (SpecScan *) object2->contents; + if (scan2->scan_no == scan->scan_no) scan->order++; + } + } +} + +void +printCursor(SfCursor *cursor) { + printf("<Cursor>\n"); + printf(" - Bytecnt: %ld\n",cursor->bytecnt); + printf(" - Cursor: %ld\n",cursor->cursor); + printf(" - Scanno: %ld\n",cursor->scanno); +} diff --git a/silx/io/specfile/src/sflabel.c b/silx/io/specfile/src/sflabel.c new file mode 100644 index 0000000..70af965 --- /dev/null +++ b/silx/io/specfile/src/sflabel.c @@ -0,0 +1,649 @@ +#/*########################################################################## +# Copyright (C) 2004-2014 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/************************************************************************ + * + * File: sflabel.c + * + * Project: SpecFile library + * + * Description: Access to labels and motors + * + * Author: V.Rey + * + * Date: $Date: 2003/02/03 13:15:35 $ + * + ************************************************************************/ +/* + * Log: + * $Log: sflabel.c,v $ + * Revision 1.3 2003/02/03 13:15:35 rey + * Small change in handling of empty spaces at the beginning of the label buffer + * + * Revision 1.2 2002/11/20 09:56:31 sole + * Some macros leave more than 1 space between #L and the first label. + * Routine modified to be able to deal with already collected data. + * The offending macro(s) should be re-written. + * + * Revision 1.1 2002/11/20 08:21:34 sole + * Initial revision + * + * Revision 3.0 2000/12/20 14:17:19 rey + * Python version available + * + * Revision 2.2 2000/12/20 12:12:08 rey + * bug corrected with SfAllMotors + * + * Revision 2.1 2000/07/31 19:05:10 19:05:10 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + */ +#include <SpecFile.h> +#include <SpecFileP.h> +#include <locale_management.h> +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX +#include <locale.h> +#endif +#endif + +/* + * Declarations + */ +DllExport char * SfLabel ( SpecFile *sf, long index, long column, + int *error ); +DllExport long SfAllLabels ( SpecFile *sf, long index, char ***labels, + int *error ); +DllExport char * SfMotor ( SpecFile *sf, long index, long number, + int *error ); +DllExport long SfAllMotors ( SpecFile *sf, long index, char ***names, + int *error ); +DllExport double SfMotorPos ( SpecFile *sf, long index, long number, + int *error ); +DllExport double SfMotorPosByName( SpecFile *sf, long index, char *name, + int *error ); +DllExport long SfAllMotorPos ( SpecFile *sf, long index, double **pos, + int *error ); + + +/********************************************************************* + * Function: char *SfLabel( sf, index, column, error ) + * + * Description: Reads one label. + * + * Parameters: + * Input : (1) SpecScan pointer + * (2) Scan index + * (3) Column number + * Output: (4) Error number + * Returns: + * Pointer to the label , + * or NULL if errors occured. + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => getStrFromArr() + * SF_ERR_LABEL_NOT_FOUND + * SF_ERR_LINE_EMPTY | + * SF_ERR_LINE_NOT_FOUND | + * SF_ERR_SCAN_NOT_FOUND | => SfAllLabels() + * SF_ERR_FILE_READ | + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport char * +SfLabel( SpecFile *sf, long index, long column, int *error ) +{ + + char **labels=NULL; + long no_labels; + char *label=NULL; + long selection; + + if (sfSetCurrent(sf,index,error) == -1) + return((char *)NULL); + + if (sf->no_labels != -1 ) { + no_labels = sf->no_labels; + } else { + no_labels = SfAllLabels(sf,index,&labels,error); + } + + if (no_labels == 0 || no_labels == -1) return((char *)NULL); + + if ( column < 0 ) { + selection = no_labels + column; + } else { + selection = column - 1; + } + + if (selection < 0 || selection > no_labels - 1 ) { + *error = SF_ERR_COL_NOT_FOUND; + if (labels != (char **) NULL ) + freeArrNZ((void ***)&labels,no_labels); + return((char *)NULL); + } + + if (labels != (char **)NULL) { + label = (char *)strdup(labels[selection]); + freeArrNZ((void ***)&labels,no_labels); + } else { + label = (char *) strdup(sf->labels[selection]); + } + return( label ); +} + + +/********************************************************************* + * Function: long SfAllLabels( sf, index, labels, error ) + * + * Description: Reads all labels in #L lines + * + * Parameters: + * Input : (1) SpecScan pointer + * (2) Scan index + * Output: (3) Labels + * (4) Error number + * Returns: + * Number of labels + * ( -1 ) if error. + * Possible errors: + * SF_ERR_MEMORY_ALLOC ||=> cpyStrArr(),lines2words() + * SF_ERR_SCAN_NOT_FOUND | => SfHeader() + * SF_ERR_FILE_READ | + * SF_ERR_LINE_EMPTY + * SF_ERR_LINE_NOT_FOUND + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport long +SfAllLabels( SpecFile *sf, long index, char ***labels, int *error ) +{ + static char tmplab[40]; + + char **labarr; + char *onelabel; + + char *ptr, + *buf=NULL; + + long no_labels = 0; + short i; + + /* + * select scan + */ + if (sfSetCurrent(sf,index,error) == -1) { + *labels = NULL; + return(0); + } + + /* + * Do not do it if already done + */ + if (sf->labels != (char **)NULL ) { + labarr = (char **)malloc(sizeof(char *) * sf->no_labels); + for ( i=0;i<sf->no_labels;i++) + labarr[i] = (char *)strdup(sf->labels[i]); + *labels = labarr; + return(sf->no_labels); + } + + /* + * else.. + */ + if (sfGetHeaderLine(sf,FROM_SCAN,SF_LABEL,&buf,error) == -1) { + *labels = NULL; + return(0); + } + + if ( buf[0] == '\0') { + *labels = NULL; + return(0); + } + + if ( (labarr = (char **)malloc( sizeof(char *))) == (char **)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + return(-1); + } + + no_labels = 0; + i = 0; + + /* + * avoid problem of having too many spaces at the beginning + * with bad written macros -> added check for empty string + * + * get rid of spaces at the beginning of the string buffer + */ + + ptr = buf; + while((ptr < buf + strlen(buf) -1) && (*ptr == ' ')) ptr++; + + for (i=0;ptr < buf + strlen(buf) -1;ptr++,i++) { + if (*ptr==' ' && *(ptr+1) == ' ') { /* two spaces delimits one label */ + tmplab[i] = '\0'; + + labarr = (char **)realloc( labarr, (no_labels+1) * sizeof(char *)); + onelabel = (char *) malloc (i+2); + strcpy(onelabel,tmplab); + labarr[no_labels] = onelabel; + + no_labels++; + i=-1; + for(;*(ptr+1) == ' ' && ptr < buf+strlen(buf)-1;ptr++); + } else { + tmplab[i] = *ptr; + } + } + + if (*ptr != ' ') { + tmplab[i] = *ptr; + i++; + } + tmplab[i] = '\0'; + + labarr = (char **)realloc( labarr, (no_labels+1) * sizeof(char *)); + onelabel = (char *) malloc (i+2); + strcpy(onelabel,tmplab); + labarr[no_labels] = onelabel; + + no_labels++; + + /* + * Save in specfile structure + */ + sf->no_labels = no_labels; + sf->labels = (char **) malloc( sizeof(char *) * no_labels); + for (i=0;i<no_labels;i++) + sf->labels[i] = (char *) strdup(labarr[i]); + + *labels = labarr; + return( no_labels ); +} + + +/********************************************************************* + * Function: long SfAllMotors( sf, index, names, error ) + * + * Description: Reads all motor names in #O lines (in file header) + * + * Parameters: + * Input : (1) SpecScan pointer + * (2) Scan index + * Output: (3) Names + * (4) Error number + * Returns: + * Number of found names + * ( -1 ) if errors. + * Possible errors: + * SF_ERR_SCAN_NOT_FOUND + * SF_ERR_LINE_NOT_FOUND + * SF_ERR_LINE_EMPTY + * SF_ERR_MEMORY_ALLOC || => cpyStrArr(),lines2words() + * SF_ERR_FILE_READ | + * SF_ERR_HEADER_NOT_FOUND | => SfFileHeader() + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport long +SfAllMotors( SpecFile *sf, long index, char ***names, int *error ) +{ + char **lines; + char *thisline, + *endline; + + char **motarr; + char *onemot; + + static char tmpmot[40]; + + char *ptr; + + long motct = 0; + long no_lines; + short i,j; + + /* + * go to scan + */ + if (sfSetCurrent(sf,index,error) == -1) { + *names = NULL; + return(0); + } + + /* + * if motor names for this scan have already been read + */ + if (sf->motor_names != (char **)NULL) { + motarr = (char **)malloc(sizeof(char *) * sf->no_motor_names); + for (i=0;i<sf->no_motor_names;i++) { + motarr[i] = (char *) strdup (sf->motor_names[i]); + } + *names = motarr; + return(sf->no_motor_names); + } + + /* + * else + */ + no_lines = SfHeader(sf, index,"O",&lines,error); + if (no_lines == -1 || no_lines == 0 ) { + *names = (char **) NULL; + return(-1); + } + + if ( (motarr = (char **)malloc( sizeof(char *))) == (char **)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + return(-1); + } + + motct = 0; + + for (j=0;j<no_lines;j++) { + thisline = lines[j] + 4; + endline = thisline + strlen(thisline); + for(ptr=thisline;*ptr == ' ';ptr++); + for (i=0;ptr < endline -2;ptr++,i++) { + if (*ptr==' ' && *(ptr+1) == ' ') { + tmpmot[i] = '\0'; + + motarr = (char **)realloc( motarr, (motct+1) * sizeof(char *)); + onemot = (char *) malloc (i+2); + strcpy(onemot,tmpmot); + motarr[motct] = onemot; + + motct++; + i=-1; + for(;*(ptr+1) == ' ' && ptr < endline -1;ptr++); + } else { + tmpmot[i] = *ptr; + } + } + if (*ptr != ' ') { tmpmot[i] = *ptr; i++; } + ptr++; + if (*ptr != ' ') { tmpmot[i] = *ptr; i++; } + + tmpmot[i] = '\0'; + motarr = (char **)realloc( motarr, (motct+1) * sizeof(char *)); + + onemot = (char *) malloc (i+2); + strcpy(onemot,tmpmot); + motarr[motct] = onemot; + + motct++; + + } + + /* + * Save in specfile structure + */ + sf->no_motor_names = motct; + sf->motor_names = (char **)malloc(sizeof(char *) * motct); + for (i=0;i<motct;i++) { + sf->motor_names[i] = (char *)strdup(motarr[i]); + } + + *names = motarr; + return( motct ); + +} + + +DllExport char * +SfMotor( SpecFile *sf, long index, long motnum, int *error ) +{ + + char **motors=NULL; + long nb_mot; + char *motor=NULL; + long selection; + + /* + * go to scan + */ + if (sfSetCurrent(sf,index,error) == -1) { + return((char *)NULL); + } + + if ( sf->no_motor_names != -1 ) { + nb_mot = sf->no_motor_names; + } else { + nb_mot = SfAllMotors(sf,index,&motors,error); + } + + if (nb_mot == 0 || nb_mot == -1) return((char *)NULL); + + if ( motnum < 0 ) { + selection = nb_mot + motnum; + } else { + selection = motnum - 1; + } + + if (selection < 0 || selection > nb_mot - 1 ) { + *error = SF_ERR_COL_NOT_FOUND; + if (motors != (char **) NULL) + freeArrNZ((void ***)&motors,nb_mot); + return((char *)NULL); + } + + if (motors != (char **) NULL) { + motor = (char *)strdup(motors[selection]); + freeArrNZ((void ***)&motors,nb_mot); + } else { + motor = (char *)strdup(sf->motor_names[selection]); + } + return( motor ); +} + + +DllExport long +SfAllMotorPos ( SpecFile *sf, long index, double **retpos, int *error ) +{ + char **lines; + char *thisline, + *endline; + + double *posarr; + + static double pos[200]; + static char posstr[40]; + + char *ptr; + + long motct = 0; + long no_lines; + short i,j; + +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + char *currentLocaleBuffer; + char localeBuffer[21]; +#endif +#endif + + if (sfSetCurrent(sf,index,error) == -1) { + *retpos = (double *) NULL; + return(0); + } + + /* + * if motors position for this scan have already been read + */ + if (sf->motor_pos != (double *)NULL) { + posarr = (double *)malloc(sizeof(double) * sf->no_motor_pos); + for (i=0;i<sf->no_motor_pos;i++) { + posarr[i] = sf->motor_pos[i]; + } + *retpos = posarr; + return(sf->no_motor_pos); + } + + /* + * else + */ + no_lines = SfHeader(sf, index,"P",&lines,error); + + if (no_lines == -1 || no_lines == 0 ) { + *retpos = (double *) NULL; + return(-1); + } + + motct = 0; +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + currentLocaleBuffer = setlocale(LC_NUMERIC, NULL); + strcpy(localeBuffer, currentLocaleBuffer); + setlocale(LC_NUMERIC, "C\0"); +#endif +#endif + for (j=0;j<no_lines;j++) { + thisline = lines[j] + 4; + endline = thisline + strlen(thisline); + for(ptr=thisline;*ptr == ' ';ptr++); + for (i=0;ptr < endline -1;ptr++,i++) { + if (*ptr==' ') { + posstr[i] = '\0'; + + pos[motct] = PyMcaAtof(posstr); + + motct++; + i=-1; + for(;*(ptr+1) == ' ' && ptr < endline -1;ptr++); + } else { + posstr[i] = *ptr; + } + } + if (*ptr != ' ') { + posstr[i] = *ptr; + i++; + } + posstr[i] = '\0'; + pos[motct] = PyMcaAtof(posstr); + + motct++; + + } + +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + setlocale(LC_NUMERIC, localeBuffer); +#endif +#endif + + /* + * Save in specfile structure + */ + sf->no_motor_pos = motct; + sf->motor_pos = (double *)malloc(sizeof(double) * motct); + memcpy(sf->motor_pos,pos,motct * sizeof(double)); + + /* + * and return + */ + posarr = (double *) malloc ( sizeof(double) * motct ) ; + memcpy(posarr,pos,motct * sizeof(double)); + + *retpos = posarr; + + return( motct ); +} + + +DllExport double +SfMotorPos( SpecFile *sf, long index, long motnum, int *error ) +{ + + double *motorpos=NULL; + long nb_mot; + double retpos; + long selection; + + if (sfSetCurrent(sf,index,error) == -1) + return(HUGE_VAL); + + if (sf->no_motor_pos != -1 ) { + nb_mot = sf->no_motor_pos; + } else { + nb_mot = SfAllMotorPos(sf,index,&motorpos,error); + } + + if (nb_mot == 0 || nb_mot == -1) return(HUGE_VAL); + + if ( motnum < 0 ) { + selection = nb_mot + motnum; + } else { + selection = motnum - 1; + } + + if (selection < 0 || selection > nb_mot - 1 ) { + *error = SF_ERR_COL_NOT_FOUND; + if (motorpos != (double *)NULL) + free(motorpos); + return(HUGE_VAL); + } + + if (motorpos != (double *)NULL) { + retpos = motorpos[selection]; + free(motorpos); + } else { + retpos = sf->motor_pos[selection]; + } + return( retpos ); +} + + +DllExport double +SfMotorPosByName( SpecFile *sf, long index, char *name, int *error ) +{ + char **motors=NULL; + + long nb_mot, + idx, + selection; + short tofree=0; + + if (sfSetCurrent(sf,index,error) == -1) + return(HUGE_VAL); + + if ( sf->no_motor_names != -1 ) { + nb_mot = sf->no_motor_names; + motors = sf->motor_names; + } else { + nb_mot = SfAllMotors(sf,index,&motors,error); + tofree=1; + } + + if (nb_mot == 0 || nb_mot == -1) return(HUGE_VAL); + + for (idx = 0;idx<nb_mot;idx++) { + if (!strcmp(name,motors[idx])) break; + } + + if (idx == nb_mot) { + if (tofree) freeArrNZ((void ***)&motors,nb_mot); + *error = SF_ERR_MOTOR_NOT_FOUND; + return(HUGE_VAL); + } + + selection = idx+1; + + return(SfMotorPos(sf,index,selection,error)); +} diff --git a/silx/io/specfile/src/sflists.c b/silx/io/specfile/src/sflists.c new file mode 100644 index 0000000..3fcb9a7 --- /dev/null +++ b/silx/io/specfile/src/sflists.c @@ -0,0 +1,184 @@ +#/*########################################################################## +# Copyright (C) 2004-2013 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/************************************************************************ + * + * File: sflists.c + * + * Project: SpecFile library + * + * Description: Functions to handle lists + * + * Author: V.Rey + * + * Date: $Date: 2003/03/06 17:00:42 $ + * + ************************************************************************/ +/* + * Log: $Log: sflists.c,v $ + * Log: Revision 1.1 2003/03/06 17:00:42 sole + * Log: Initial revision + * Log: + * Log: Revision 3.0 2000/12/20 14:17:19 rey + * Log: Python version available + * Log: + * Revision 2.1 2000/07/31 19:03:25 19:03:25 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + */ +#include <stdlib.h> +#include <stdio.h> +#include <string.h> +#include <Lists.h> + +/* + * Function declaration + */ +ObjectList * findInList ( ListHeader *list, int (*proc)(void *,void *), void *value ); +long addToList ( ListHeader *list, void *object, long size ); +void unlinkFromList ( ListHeader *list, ObjectList *element ); + +static long linkToList ( ListHeader *list, void *object ); + + +/********************************************************************* + * Function: ObjectList *findInList( list, proc, value ) + * + * Description: Looks for an list element. + * + * Parameters: + * Input : (1) ListHeader pointer + * (2) Comp. procedure + * (3) value + * Returns: + * Pointer to the found element , + * NULL if not found . + * + *********************************************************************/ +ObjectList * +findInList( ListHeader *list, int (*proc)(void * , void *), void *value ) +{ + register ObjectList *ptr; + + for ( ptr=list->first ; ptr ; ptr=ptr->next ) { + if ( (*proc)(ptr->contents, value) ) { + return( ptr ); + } + } + return (ObjectList *)NULL; +} + + +/********************************************************************* + * Function: int addToList( list, object, size ) + * + * Description: Adds an element to the list. + * + * Parameters: + * Input : (1) List pointer + * (2) Pointer to the new element + * (3) Size of the new element + * Returns: + * ( 0 ) => OK + * ( -1 ) => error + * + *********************************************************************/ +long +addToList( ListHeader *list, void *object, long size ) +{ + void *newobj; + + if ( (newobj = (void *)malloc(size)) == (void *)NULL ) return( -1 ); + memcpy(newobj, object, size); + + return( linkToList( list, newobj ) ); + +} + + +/********************************************************************* + * Function: int linkToList( list, object ) + * + * Description: Adds an element to the list. + * + * Parameters: + * Input: (1) ListHeader pointer + * (2) pointer to the new element + * Returns: + * ( 0 ) => OK + * ( -1 ) => error + * + *********************************************************************/ +static long +linkToList( ListHeader *list, void *object ) +{ + ObjectList *newobj; + + + if ((newobj = (ObjectList *) malloc(sizeof(ObjectList))) == + (ObjectList *) NULL) return( -1 ); + + newobj->contents = object; + newobj->prev = list->last; + newobj->next = NULL; + + if (list->first == (ObjectList *)NULL) { + list->first = newobj; + } else { + (list->last)->next = newobj; + } + + list->last = newobj; + return( 0 ); +} + + +/********************************************************************* + * Function: int unlinkFromList( list, element ) + * + * Description: Removes an element from the list. + * + * Parameters: + * Input : (1) List pointer + * (2) Pointer to the element + * + *********************************************************************/ +void +unlinkFromList( ListHeader *list, ObjectList *element ) +{ + + if ( element != (ObjectList *)NULL ) { + if ( element->next != (ObjectList *)NULL ) { + element->next->prev = element->prev; + } + else { + list->last = element->prev ; + } + if ( element->prev != (ObjectList *)NULL ) { + element->prev->next = element->next; + } + else { + list->first = element->next; + } + free( element->contents ); + free( element ); + } +} + diff --git a/silx/io/specfile/src/sfmca.c b/silx/io/specfile/src/sfmca.c new file mode 100644 index 0000000..22d1958 --- /dev/null +++ b/silx/io/specfile/src/sfmca.c @@ -0,0 +1,336 @@ +#/*########################################################################## +# Copyright (C) 2004-2014 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/************************************************************************ + * + * File: sfmca.c + * + * Project: SpecFile library + * + * Description: Access to MCA spectra + * + * Author: V.Rey + * + * Date: $Date: 2002/11/15 16:25:44 $ + * + ************************************************************************/ +/* + * Log: $Log: sfmca.c,v $ + * Log: Revision 1.3 2002/11/15 16:25:44 sole + * Log: free(retline) replaced by freeArrNZ((void ***) &retline,nb_lines); to eliminate the memory leak when reading mca + * Log: + * Log: Revision 1.2 2002/11/15 10:44:36 sole + * Log: added free(retline) after call to SfHeader + * Log: + * Log: Revision 1.1 2002/11/15 10:17:38 sole + * Log: Initial revision + * Log: + * Log: Revision 3.0 2000/12/20 14:17:19 rey + * Log: Python version available + * Log: + * Revision 2.1 2000/07/31 19:05:12 19:05:12 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + */ +#include <SpecFile.h> +#include <SpecFileP.h> +#include <locale_management.h> +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX +#include <locale.h> +#endif +#endif + +#include <ctype.h> +#include <stdlib.h> +/* + * Define macro + */ +#define isnumber(this) ( isdigit(this) || this == '-' || this == '+' || this =='e' || this == 'E' || this == '.' ) + +/* + * Mca continuation character + */ +#define MCA_CONT '\\' +#define D_INFO 3 + +/* + * Declarations + */ +DllExport long SfNoMca ( SpecFile *sf, long index, int *error ); +DllExport int SfGetMca ( SpecFile *sf, long index, long mcano, + double **retdata, int *error ); +DllExport long SfMcaCalib ( SpecFile *sf, long index, double **calib, + int *error ); + + +/********************************************************************* + * Function: long SfNoMca( sf, index, error ) + * + * Description: Gets number of mca spectra in a scan + * + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) error number + * Returns: + * Number of data lines , + * ( -1 ) => errors. + * Possible errors: + * SF_ERR_SCAN_NOT_FOUND + * + *********************************************************************/ +DllExport long +SfNoMca( SpecFile *sf, long index, int *error ) +{ + + if (sfSetCurrent(sf,index,error) == -1 ) + return(-1); + + return( ((SpecScan *)sf->current->contents)->mcaspectra ); + +} + + +/********************************************************************* + * Function: int SfGetMca(sf, index, number, data, error) + * + * Description: Gets data. + * Parameters: + * Input : (1) File pointer + * (2) Index + * Output: + * (3) Data array + * (4) Data info : [0] => no_lines + * [1] => no_columns + * [2] = ( 0 ) => regular + * ( 1 ) => not regular ! + * (5) error number + * Returns: + * ( 0 ) => OK + * ( -1 ) => errors occured + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * SF_ERR_FILE_READ + * SF_ERR_SCAN_NOT_FOUND + * SF_ERR_LINE_NOT_FOUND + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport int +SfGetMca( SpecFile *sf, long index, long number, double **retdata, int *error ) +{ + double *data = NULL; + long headersize; + int old_fashion; + static char* last_from = NULL; + static char* last_pos = NULL; + static long last_number = 0; + long int scanno = 0; + static long int last_scanno = 0; + char *ptr, + *from, + *to; + + char strval[100]; + double val; + + int i,spect_no=0; + long vals; + + long blocks=1, + initsize=1024; +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + char *currentLocaleBuffer; + char localeBuffer[21]; +#endif +#endif + + headersize = ((SpecScan *)sf->current->contents)->data_offset + - ((SpecScan *)sf->current->contents)->offset; + + scanno = ((SpecScan *)sf->current->contents)->scan_no; + + /* + * check that mca number is available + */ + if (number < 1) { + *error = SF_ERR_MCA_NOT_FOUND; + *retdata = (double *)NULL; + return(-1); + } + + /* + * Get MCA info from header + */ + + from = sf->scanbuffer + headersize; + to = sf->scanbuffer + ((SpecScan *)sf->current->contents)->size; + + old_fashion = 1; + if (last_scanno == scanno) + { + if (last_from == from) + { + /* same scan as before */ + if (number > last_number) + { + spect_no = last_number; + old_fashion = 0; + } + } + } + if (old_fashion) + { + last_scanno = scanno; + last_from = from; + spect_no = 0; + last_pos = from; + } + /* + * go and find the beginning of spectrum + */ + ptr = last_pos; + + if ( *ptr == '@' ) { + spect_no++; + ptr++; + last_pos = ptr; + } + + while ( spect_no != number && ptr < to ) { + if (*ptr == '@') spect_no++; + ptr++; + last_pos = ptr; + } + ptr++; + + if ( spect_no != number ) { + *error = SF_ERR_MCA_NOT_FOUND; + *retdata = (double *)NULL; + return(-1); + } + last_number = spect_no; + /* + * Calculate size and book memory + */ + initsize = 2048; + + i = 0; + vals = 0; + + /* + * Alloc memory + */ + if ((data = (double *)malloc (sizeof(double) * initsize)) == (double *)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + return(-1); + } + + /* + * continue + */ +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + currentLocaleBuffer = setlocale(LC_NUMERIC, NULL); + strcpy(localeBuffer, currentLocaleBuffer); + setlocale(LC_NUMERIC, "C\0"); +#endif +#endif + for ( ;(*(ptr+1) != '\n' || (*ptr == MCA_CONT)) && ptr < to - 1 ; ptr++) + { + if (*ptr == ' ' || *ptr == '\t' || *ptr == '\\' || *ptr == '\n') { + if ( i ) { + if ( vals%initsize == 0 ) { + blocks++; + if ((data = (double *)realloc (data, sizeof(double) * blocks * initsize)) + == (double *)NULL) { + *error = SF_ERR_MEMORY_ALLOC; +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + setlocale(LC_NUMERIC, localeBuffer); +#endif +#endif + return(-1); + } + + } + strval[i] = '\0'; + i = 0; + val = PyMcaAtof(strval); + data[vals] = val; + vals++; + } + } else if (isnumber(*ptr)) { + strval[i] = *ptr; + i++; + } + } + + if (isnumber(*ptr)) { + strval[i] = *ptr; + strval[i+1] = '\0'; + val = PyMcaAtof(strval); + data[vals] = val; + vals++; + } +#ifndef _GNU_SOURCE +#ifdef PYMCA_POSIX + setlocale(LC_NUMERIC, localeBuffer); +#endif +#endif + + *retdata = data; + + return( vals ); +} + + +DllExport long +SfMcaCalib ( SpecFile *sf, long index, double **calib, int *error ) +{ + + long nb_lines; + char **retline; + char *strptr; + + double val1,val2,val3; + + double *retdata; + + nb_lines = SfHeader(sf,index,"@CALIB",&retline,error); + + if (nb_lines > 0) { + strptr = retline[0] + 8; + sscanf(strptr,"%lf %lf %lf",&val1,&val2,&val3); + } else { + *calib = (double *)NULL; + return(-1); + } + + retdata = (double *) malloc(sizeof(double) * 3 ); + retdata[0] = val1; retdata[1] = val2; retdata[2] = val3; + + *calib = retdata; + return(0); +} diff --git a/silx/io/specfile/src/sftools.c b/silx/io/specfile/src/sftools.c new file mode 100644 index 0000000..74ae311 --- /dev/null +++ b/silx/io/specfile/src/sftools.c @@ -0,0 +1,550 @@ +#/*########################################################################## +# Copyright (C) 2004-2016 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/************************************************************************ + * + * File: sftools.c + * + * Project: SpecFile library + * + * Description: General library tools + * + * Author: V.Rey + * + * Date: $Date: 2004/05/12 16:57:02 $ + * + ************************************************************************/ +/* + * Log: $Log: sftools.c,v $ + * Log: Revision 1.2 2004/05/12 16:57:02 sole + * Log: Windows support + * Log: + * Log: Revision 1.1 2003/09/12 10:34:11 sole + * Log: Initial revision + * Log: + * Log: Revision 3.0 2000/12/20 14:17:19 rey + * Log: Python version available + * Log: + * Log: Revision 2.2 2000/12/20 12:12:08 rey + * Log: bug corrected with SfAllMotors + * Log: + * Revision 2.1 2000/07/31 19:05:07 19:05:07 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + */ +#include <SpecFile.h> +#include <SpecFileP.h> + +#ifdef WIN32 +#include <stdio.h> +#include <stdlib.h> +#else +#include <unistd.h> +#endif + +/* + * Library Functions + */ +DllExport void freePtr ( void *ptr ); +DllExport void freeArrNZ ( void ***ptr, long lines ); +DllExport void SfShow (SpecFile *sf); +DllExport void SfShowScan (SpecFile *sf, long index); + +/* + * Function declaration + */ +void freeArr ( void ***ptr, long lines ); + +int sfSetCurrent ( SpecFile *sf, long index, int *error ); +int sfSameFile ( SpecFile *sf, ObjectList *list ); +int sfSameScan ( SpecFile *sf, long index ); + +int findIndex ( void *scan, void *number ); +int findNoAndOr ( void *scan, void *number ); +int findFirst ( void *scan, void *file_offset ); +ObjectList *findScanByIndex ( ListHeader *list, long index ); +ObjectList *findFirstInFile ( ListHeader *list, long file_offset ); +ObjectList *findScanByNo ( ListHeader *list, long scan_no, long order ); + +long mulstrtod ( char *str, double **arr, int *error ); +void freeAllData ( SpecFile *sf ); + +/* + * Globals + */ + + +/********************************************************************* + * Function: void sfSetCurrent( sf, list ) + * + * Description: Sets 'list' to current scan. + * Updates SpecFile structure. + * Parameters: + * Input : (1) SpecFile pointer + * (2) New scan + * + *********************************************************************/ +int +sfSetCurrent( SpecFile *sf, long index,int *error ) +{ + ObjectList *list, + *flist; + SpecScan *scan, + *fscan; + long nbytes; + long fileheadsize,start; + + /* + * If same scan nothing to do + */ + if (sfSameScan(sf,index)) return(0); + + /* + * It is a new scan. Free memory allocated for previous one. + */ + freeAllData(sf); + + /* + * Find scan + */ + list = findScanByIndex(&(sf->list),index); + + if (list == (ObjectList *)NULL) { + *error = SF_ERR_SCAN_NOT_FOUND; + return(-1); + } + + /* + * Read full scan into buffer + */ + scan = list->contents; + + if (sf->scanbuffer != ( char * ) NULL) free(sf->scanbuffer); + + sf->scanbuffer = ( char *) malloc(scan->size); + + if (sf->scanbuffer == (char *)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + return(-1); + } + + lseek(sf->fd,scan->offset,SEEK_SET); + + nbytes = read(sf->fd,sf->scanbuffer,scan->size); + if ( nbytes == -1) { + *error = SF_ERR_FILE_READ; + return(-1); + } + if ( sf->scanbuffer[0] != '#' || sf->scanbuffer[1] != 'S') { + *error = SF_ERR_FILE_READ; + return(-1); + } + sf->scanheadersize = scan->data_offset - scan->offset; + + /* + * if different file read fileheader also + */ + if (!sfSameFile(sf,list)) { + if (sf->filebuffer != ( char * ) NULL) free(sf->filebuffer); + + start = scan->file_header; + flist = findFirstInFile(&(sf->list),scan->file_header); + if (flist == (ObjectList *) NULL) { + fileheadsize = 0; + sf->filebuffersize = fileheadsize; + } + else + { + fscan = flist->contents; + fileheadsize = fscan->offset - start; + } + + if (fileheadsize > 0) { + sf->filebuffer = ( char *) malloc(fileheadsize); + if (sf->filebuffer == (char *)NULL) { + *error = SF_ERR_MEMORY_ALLOC; + return(-1); + } + lseek(sf->fd,start,SEEK_SET); + read(sf->fd,sf->filebuffer,fileheadsize); + if ( nbytes == -1) { + *error = SF_ERR_FILE_READ; + return(-1); + } + sf->filebuffersize = fileheadsize; + } + } + sf->scansize = scan->size; + sf->current = list; + + return(1); +} + + +/********************************************************************* + * Function: int sfSameFile( sf, list ) + * + * Description: Checks if the current scan file header and + * the new scan file header are the same. + * Parameters: + * Input : (1) SpecFile pointer + * (2) New scan + * Returns: + * 1 - the same + * 0 - not the same + * + *********************************************************************/ +int +sfSameFile( SpecFile *sf, ObjectList *list ) +{ + if (sf->current) { + return ( ((SpecScan *)sf->current->contents)->file_header == + ((SpecScan *)list->contents)->file_header ); + } else return(0); +} + + +/********************************************************************* + * Function: int sfSameScan( sf, index ) + * + * Description: Checks if the current scan and + * the new scan are the same. + * Parameters: + * Input : (1) SpecFile pointer + * (2) New scan index + * Returns: + * 1 - the same + * 0 - not the same + * + *********************************************************************/ +int +sfSameScan( SpecFile *sf, long index ) +{ + if ( sf->current == (ObjectList *)NULL) return(0); + + return ( ((SpecScan *)sf->current->contents)->index == index ); +} + + +/********************************************************************* + * Function: freePtr( ptr ); + * + * Description: Frees memory pointed to by 'ptr'. + * + * Parameters: + * Input : (1) Pointer + * + *********************************************************************/ +void +freePtr( void *ptr ) +{ + free( ptr ); +} + + +/********************************************************************* + * Function: freeArrNZ( ptr, lines ); + * + * Description: Frees an array if 'lines' > zero. + * + * Parameters: + * Input : (1) Array pointer + * (2) No. of lines + * + *********************************************************************/ +void +freeArrNZ( void ***ptr, long lines ) +{ + if ( *ptr != (void **)NULL && lines > 0 ) { + for ( ; lines ; lines-- ) { + free( (*ptr)[lines-1] ); + } + free( *ptr ); + *ptr = ( void **)NULL ; + } +} + + +/********************************************************************* + * Function: freeArr( ptr, lines ); + * + * Description: Frees an array. + * 'ptr' will be always freed !!! + * + * Parameters: + * Input : (1) Array pointer + * (2) No. of lines + * + *********************************************************************/ +void +freeArr( void ***ptr, long lines ) +{ + if ( *ptr != (void **)NULL ) { + if ( lines > 0 ) { + for ( ; lines ; lines-- ) { + free( (*ptr)[lines-1] ); + } + } + free( *ptr ); + *ptr = ( void **)NULL ; + } +} + + +/********************************************************************* + * Function: int findIndex( scan, number ) + * + * Description: Compares if number == scan index . + * + * Parameters: + * Input : (1) SpecScan pointer + * (2) number + * Returns: + * 0 : not found + * 1 : found + * + *********************************************************************/ +int +findIndex( void *scan, void *number ) +{ + return( ((SpecScan *)scan)->index == *(long *)number ); +} + + +/********************************************************************* + * Function: int findFirst( scan, file_offset ) + * + * Description: Compares if scan offset > file_offset + * + * Parameters: + * Input : (1) SpecScan pointer + * (2) number + * Returns: + * 0 : not found + * 1 : found + * + *********************************************************************/ +int +findFirst( void *scan, void *file_offset ) +{ + return( ((SpecScan *)scan)->offset > *(long *)file_offset ); +} + + +/********************************************************************* + * Function: int findNoAndOr( scan, number ) + * ( Number + * Order ) + * + * Description: Compares if number1 = scan number and + * number2 = scan order + * Parameters: + * Input: (1) SpecScan pointer + * (2) number[1] + * Returns: + * 0 : not found + * 1 : found + * + *********************************************************************/ +int +findNoAndOr( void *scan, void *number ) +{ + + long *n = (long *)number; + + return( ( ((SpecScan *)scan)->scan_no == *n++ ) && ( ((SpecScan *)scan)->order == *n )); +} + + +/********************************************************************* + * Function: ObjectList *findScanByIndex( list, index ) + * + * Description: Looks for a scan . + * + * Parameters: + * Input: (1) List pointer + * (2) scan index + * Returns: + * ObjectList pointer if found , + * NULL if not. + * + *********************************************************************/ +ObjectList * +findScanByIndex( ListHeader *list, long index ) +{ + return findInList( list, findIndex, (void *)&index ); +} + + +/********************************************************************* + * Function: ObjectList findScanByNo( list, scan_no, order ) + * + * Description: Looks for a scan . + * + * Parameters: + * Input: (1) List pointer + * (2) scan number + * (3) scan order + * Returns: + * ObjectList pointer if found , + * NULL if not. + * + *********************************************************************/ +ObjectList * +findScanByNo( ListHeader *list, long scan_no, long order ) +{ + long value[2]; + + value[0] = scan_no; + value[1] = order; + + return( findInList( (void *)list, findNoAndOr, (void *)value) ); +} + + + +/********************************************************************* + * Function: ObjectList *findFirstInFile( list, file_offset ) + * + * Description: Looks for a scan . + * + * Parameters: + * Input: (1) List pointer + * (2) scan index + * Returns: + * ObjectList pointer if found , + * NULL if not. + * + *********************************************************************/ +ObjectList * +findFirstInFile( ListHeader *list, long file_offset ) +{ + return findInList( list, findFirst, (void *)&file_offset ); +} + + +/********************************************************************* + * Function: long mulstrtod( str, arr, error ) + * + * Description: Converts string to data array.( double array ) + * + * Parameters: + * Input : (1) String + * + * Output: + * (2) Data array + * (3) error number + * Returns: + * Number of values. + * ( -1 ) in case of errors. + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +long +mulstrtod( char *str, double **arr, int *error ) +{ + int count,q,i=0; + double *ret; + char *str2; + static double tmpret[200]; + + *arr = (double *)NULL; + + str2 = str; + + while( (q = sscanf(str2, "%lf%n", &(tmpret[i]), &count)) > 0 ) { + i++; + str2 += count; + } + str2++; + + if ( !i ) { + return( i ); + } + + ret = (double *)malloc( sizeof(double) * i ); + + if ( ret == (double *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return( -1 ); + } + memcpy(ret, tmpret, i * sizeof(double) ); + + *arr = ret; + return( i ); +} + +void +freeAllData(SpecFile *sf) +{ + if (sf->motor_pos != (double *)NULL) { + free(sf->motor_pos); + sf->motor_pos = (double *)NULL; + sf->no_motor_pos = -1; + } + if (sf->motor_names != (char **)NULL) { + freeArrNZ((void ***)&(sf->motor_names),sf->no_motor_names); + sf->motor_names = (char **)NULL; + sf->no_motor_names = -1; + } + if (sf->labels != (char **)NULL) { + freeArrNZ((void ***)&(sf->labels),sf->no_labels); + sf->labels = (char **)NULL; + sf->no_labels = -1; + } + if (sf->data_info != (long *)NULL) { + freeArrNZ((void ***)&(sf->data),sf->data_info[ROW]); + free(sf->data_info); + sf->data = (double **)NULL; + sf->data_info = (long *)NULL; + } +} + +DllExport void +SfShow (SpecFile *sf) { + printf("<Showing Info> - specfile: %s\n",sf->sfname); + printf(" - no_scans: %ld\n",sf->no_scans); + printf(" - current: %ld\n",((SpecScan*)sf->current->contents)->scan_no); + printf(" Cursor:\n"); + printf(" - no_scans: %ld\n",sf->cursor.scanno); + printf(" - bytecnt: %ld\n",sf->cursor.bytecnt); +} + +DllExport void +SfShowScan (SpecFile *sf, long index) { + int error; + SpecScan *scan; + + printf("<Showing Info> - specfile: %s / idx %ld\n",sf->sfname,index); + + if (sfSetCurrent(sf,index,&error) == -1) { + printf("Cannot get scan index %ld\n",index); + } + + scan = (SpecScan *) sf->current->contents; + + printf(" - index: %ld\n",scan->index); + printf(" - scan_no: %ld\n",scan->scan_no); + printf(" - offset: %ld\n",scan->offset); + printf(" - data_offset: %ld\n",scan->data_offset); +} diff --git a/silx/io/specfile/src/sfwrite.c b/silx/io/specfile/src/sfwrite.c new file mode 100644 index 0000000..4422ae0 --- /dev/null +++ b/silx/io/specfile/src/sfwrite.c @@ -0,0 +1,587 @@ +#/*########################################################################## +# Copyright (C) 2004-2013 European Synchrotron Radiation Facility +# +# This file is part of the PyMca X-ray Fluorescence Toolkit developed at +# the ESRF by the Software group. +# +# This file is free software; you can redistribute it and/or modify it +# under the terms of the GNU Lesser General Public License as published by the Free +# Software Foundation; either version 2 of the License, or (at your option) +# any later version. +# +# This file 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 Lesser General Public License for more +# details. +# +#############################################################################*/ +/************************************************************************ + * + * File: sfwrite.c + * + * Project: SpecFile library + * + * Description: Functions for scan output + * + * Author: V.Rey + * + * Date: $Date: 2003/09/12 13:20:35 $ + * + ************************************************************************/ +/* + * Log: $Log: sfwrite.c,v $ + * Log: Revision 1.1 2003/09/12 13:20:35 rey + * Log: Initial revision + * Log: + * Log: Revision 3.0 2000/12/20 14:17:19 rey + * Log: Python version available + * Log: + * Revision 2.1 2000/07/31 19:05:14 19:05:14 rey (Vicente Rey-Bakaikoa) + * SfUpdate and bug corrected in ReadIndex + * + * Revision 2.0 2000/04/13 13:28:54 13:28:54 rey (Vicente Rey-Bakaikoa) + * New version of the library. Complete rewrite + * Adds support for MCA + */ +#include <SpecFile.h> +#include <SpecFileP.h> +#ifndef WIN32 +#include <unistd.h> +#endif +/* + * Declarations + */ +DllExport SpecFileOut *SfoInit ( SpecFile *sf, int *error ); +DllExport void SfoClose ( SpecFileOut *sfo ); +DllExport long SfoSelectAll ( SpecFileOut *sfo, int *error ); +DllExport long SfoSelectOne ( SpecFileOut *sfo, long index, + int *error ); +DllExport long SfoSelect ( SpecFileOut *sfo, long *list, + int *error ); +DllExport long SfoSelectRange ( SpecFileOut *sfo, long begin, + long end, int *error ); +DllExport long SfoRemoveOne ( SpecFileOut *sfo, long index, + int *error ); +DllExport long SfoRemove ( SpecFileOut *sfo, long *list, + int *error ); +DllExport long SfoRemoveRange ( SpecFileOut *sfo, long begin, + long end, int *error ); +DllExport long SfoRemoveAll ( SpecFileOut *sfo, int *error ); +DllExport long SfoWrite ( SpecFileOut *sfo, char *name, + int *error ); +DllExport long SfoGetList ( SpecFileOut *sfo, long **list, + int *error ); + +/* + * Internal functions + */ +static int sfoWriteOne(SpecFileOut *sfo,int output, long index,int *error); + + +/********************************************************************* + * Function: SpecFileOut *SfoInit( sf, error ) + * + * Description: Initializes a SpecFileOut structure: + * - pointer to SpecFile + * - list of scans to be copied + * - size of this list + * - last written file header + * Parameters: + * Input : (1) SpecFile pointer + * + * Output: + * (2) error number + * Returns: + * Pointer to the initialized SpecFileOut structure. + * NULL in case of an error. + * + * Possible errors: + * SF_ERR_MEMOREY_ALLOC + * + * Remark: This function MUST be the FIRST called before + * any other WRITE function is called ! + * + *********************************************************************/ +DllExport SpecFileOut * +SfoInit( SpecFile *sf, int *error ) +{ + SpecFileOut *sfo; + + /* + * Alloc memory + */ + sfo = (SpecFileOut *) malloc ( sizeof(SpecFileOut) ); + + if ( sfo == (SpecFileOut *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return( (SpecFileOut *)NULL ); + } + + /* + * Initialize + */ + sfo->sf = sf; + sfo->list = (long *)NULL; + sfo->list_size = 0; + sfo->file_header = -1; + + return( sfo ); +} + + +/********************************************************************* + * Function: long SfoGetList( sfo, list, error ) + * + * Description: Makes a copy of the SpecFileOut list. + * + * Parameters: + * Input : (1) SpecFileOut pointer + * + * Output: (2) Copy of the output list of spec scan indices. + * (3) error code + * Returns: + * Number of scan indices in the output list , + * ( 0 ) => list empty( (long *)NULL ) ), no errors + * ( -1 ) in case of an error. + * + * Possible errors: + * SF_ERR_MEMOREY_ALLOC + * + * Remark: The memory allocated should be freed by the application + * + *********************************************************************/ +DllExport long +SfoGetList( SpecFileOut *sfo, long **list, int *error ) +{ + long i; + + *list = (long *)NULL; + + if ( sfo->list_size > 0 ) { + *list = (long *)malloc( sfo->list_size * sizeof(long) ); + if ( *list == (long *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return( -1 ); + } + for ( i=0 ; i < sfo->list_size ; i++ ) { + (*list)[i] = sfo->list[i]; + } + } else *list = (long *)NULL; + + return( sfo->list_size ); +} + + +/********************************************************************* + * Function: long SfoSelectOne( sfo, index, error ) + * + * Description: Adds one scan index to the SpecFileOut list. + * + * Parameters: + * Input : (1) SpecFileOut pointer + * (2) Scan index + * Output: + * (3) error code + * Returns: + * ( -1 ) => error + * Number of scan indices in the SpecFileOut list. + * + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * + *********************************************************************/ +DllExport long +SfoSelectOne( SpecFileOut *sfo, long index, int *error ) +{ + long i; + + /* + * Check if index exists or if it's out of range. + */ + if ( index > sfo->sf->no_scans || index < 1 ) { + return( sfo->list_size ); + } + + /* + * Alloc memory for the new index and add it to the list. + */ + if ( sfo->list == (long *)NULL ) { + sfo->list = (long *)malloc( sizeof(long) ); + if ( sfo->list == (long *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + return( -1 ); + } + sfo->list_size = 1; + } else { + /* + * Is the new index already in list ? + */ + for ( i=0 ; i<sfo->list_size ; i++ ) + if ( index == sfo->list[i] ) return( sfo->list_size ); + sfo->list = realloc( sfo->list, ++(sfo->list_size) * sizeof(long) ); + if ( sfo->list == (long *)NULL ) { + *error = SF_ERR_MEMORY_ALLOC; + sfo->list_size = 0; + return( -1 ); + } + } + sfo->list[sfo->list_size-1] = index; + printf("Adding scan %ld\n",index); + + return( sfo->list_size ); +} + + +/********************************************************************* + * Function: long SfoSelect( sfo, list, error ) + * + * Description: Adds several scan indices to the SpecFileOut list. + * + * Parameters: + * Input : (1) SpecFileOut pointer + * (2) List scan indices (!The last element + * MUST be a '0' !) + * Output: + * (3) error code + * Returns: + * ( -1 ) => error + * Number of scan indices in the SpecFileOut list. + * + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => SfoSelectOne() + * + *********************************************************************/ +DllExport long +SfoSelect( SpecFileOut *sfo, long *list, int *error ) +{ + for ( ; *list != 0 ; list++ ) { + if ( SfoSelectOne( sfo, *list , error ) < 0 ) return( -1 ); + } + return( sfo->list_size ); +} + + +/********************************************************************* + * Function: long SfoSelectRange( sfo, begin, end, error ) + * + * Description: Adds scan indices between 'begin' and 'end' + * to the SpecFileOut list. + * + * Parameters: + * Input : (1) SpecFileOut pointer + * (2) First ... + * (3) Last index to be added + * Output: + * (4) error code + * Returns: + * ( -1 ) => error + * Number of scan indices in the SpecFileOut list. + * + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => SfoSelectOne() + * + *********************************************************************/ +DllExport long +SfoSelectRange( SpecFileOut *sfo, long begin, long end, int *error ) +{ + long i; + + if ( begin > end ) { + i=begin; + begin = end; + end = i; + } + if ( begin < 1 || end > sfo->sf->no_scans ) { + return( sfo->list_size ); + } + for ( i=begin ; i<=end ; i++ ) { + if ( SfoSelectOne( sfo, i , error ) < 0 ) return( -1 ); + } + return( sfo->list_size ); +} + + +/********************************************************************* + * Function: long SfoSelectAll( sfo, error ) + * + * Description: Writes all scan indices in the SpecFileOut list. + * + * Parameters: + * Input : (1) SpecFileOutput pointer + * Output: (2) error number + * Returns: + * ( -1 ) => error + * Number of scan indices in the SpecFileOut list. + * + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * + *********************************************************************/ +DllExport long +SfoSelectAll( SpecFileOut *sfo, int *error ) +{ + long i; + + if ( sfo->sf->no_scans > 0 ) { + for ( i=1 ; i<=sfo->sf->no_scans ; i++ ) { + if ( SfoSelectOne( sfo, i , error ) < 0 ) return( -1 ); + } + } + return( sfo->list_size ); +} + + +/********************************************************************* + * Function: long SfoRemoveOne( sfo, index, error ) + * + * Description: Removes one scan index from the SpecFileOut list. + * + * Parameters: + * Input : (1) SpecFileOut pointer + * (2) Scan index to be removed + * Output: + * (3) error code + * Returns: + * Number of scans left , + * ( 0 ) => list empty( (long *)NULL ) ), no errors + * ( -1 ) => error. + * + * Possible errors: + * SF_ERR_MEMORY_ALLOC + * + *********************************************************************/ +DllExport long +SfoRemoveOne( SpecFileOut *sfo, long index, int *error ) +{ + long i; + int found = 0; + + /* + * Look for scan index and delete. + */ + for ( i=0 ; i < (sfo->list_size - found) ; i++ ) { + if ( sfo->list[i] == index ) found = 1; + if ( found ) sfo->list[i]=sfo->list[i+1]; + } + + /* + * Free unused memory + */ + if ( found ) { + (sfo->list_size)--; + sfo->list = realloc( sfo->list, sfo->list_size * sizeof(long) ); + if ( sfo->list == (long *)NULL && sfo->list_size != 0 ) { + *error = SF_ERR_MEMORY_ALLOC; + return( -1 ); + } + } + return( sfo->list_size ); +} + + +/********************************************************************* + * Function: long SfoRemove( sfo, list, error ) + * + * Description: Removes several scans indices from the + * SpecFileOut list. + * + * Parameters: + * Input : (1) SpecFileOut pointer + * (2) List of scan indices to be removed + * ( !!! The last element MUST be a '0' !!! ) + * Output: + * (3) error code + * Returns: + * Number of scan indices left , + * ( 0 ) => list empty( (long *)NULL ) ), no errors + * ( -1 ) => error. + * + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => SfoRemoveOne() + * + *********************************************************************/ +DllExport long +SfoRemove( SpecFileOut *sfo, long *list, int *error ) +{ + for ( ; *list != 0 ; list++ ) { + if ( SfoRemoveOne( sfo, *list , error ) < 0 ) return( -1 ); + } + return( sfo->list_size ); +} + + +/********************************************************************* + * Function: long SfoRemoveRange( sfo, begin, end, error ) + * + * Description: Removes scans indices from 'begin' to 'end' + * from the SpecFileOut list. + * + * Parameters: + * Input : + * (1) SpecFileOut pointer + * (2) First ... + * (3) Last index to be removed + * Output: + * (4) error code + * Returns: + * Number of scan indices left , + * ( 0 ) => list empty( (long *)NULL ) ), no errors + * ( -1 ) => error. + * + * Possible errors: + * SF_ERR_MEMORY_ALLOC | => SfoRemoveOne() + * + *********************************************************************/ +DllExport long +SfoRemoveRange( SpecFileOut *sfo, long begin, long end, int *error ) +{ + long i; + + if ( begin > end ) { + i=begin; + begin = end; + end = i; + } + if ( begin < 1 || end > sfo->sf->no_scans ) { + return( sfo->list_size ); + } + for ( i=begin ; i <= end ; i++ ) { + if ( SfoRemoveOne( sfo, i, error ) < 0 ) return( -1 ); + } + return( sfo->list_size ); +} + + +/********************************************************************* + * Function: long SfoRemoveAll( sfo, error ) + * + * Description: Removes all scans indices + * from the SpecFileOut list. + * + * Parameters: + * Input : + * (1) SpecFileOut pointer + * Output: + * (2) error code + * Returns: + * ( 0 ) => OK + * + *********************************************************************/ +DllExport long +SfoRemoveAll( SpecFileOut *sfo, int *error ) +{ + free( sfo->list ); + sfo->list = (long *)NULL; + sfo->list_size = 0; + sfo->file_header = -1; + return( 0 ); +} + + +/********************************************************************* + * Function: int SfoWrite( sfo, name, error ) + * + * Description: Writes (appends) SpecScans specified in the sfo->list + * in the file 'name'. Related file headers are copied + * too. + * Parameters: + * Input : (1) SpecFileOut pointer + * (2) Output file name + * Output: + * (3) error number + * Returns: + * Number of written scans, + * (-1 ) => Errors occured + * Possible errors: + * SF_ERR_FILE_WRITE | => cpyBlock() + * SF_ERR_FILE_READ + * SF_ERR_FILE_OPEN + * SF_ERR_FILE_CLOSE + * + *********************************************************************/ +DllExport long +SfoWrite( SpecFileOut *sfo, char *name, int *error ) +{ + int output; + long i; + + if ( sfo == (SpecFileOut *)NULL || sfo->list_size<1 ) return( 0 ); + + /* + * Open file + */ + if ( (output = open(name, O_CREAT | O_RDWR | O_APPEND, SF_UMASK )) == (int)NULL ) { + *error = SF_ERR_FILE_OPEN; + return( -1 ); + } + + for ( i=0 ; i < sfo->list_size ; i++ ) + sfoWriteOne(sfo,output,sfo->list[i],error); + + if ( close( output ) ) { + *error = SF_ERR_FILE_CLOSE; + return( -1 ); + } + + return( sfo->list_size ); +} + + +/********************************************************************* + * Function: int SfoClose( sfo ) + * + * Description: Frees all memory used by + * SpecFileOut structure. + * Parameters: + * Input : (1) SpecFileOut pointer + * + * Remark: This function should be called after all + * writing operations. + * + *********************************************************************/ +DllExport void +SfoClose( SpecFileOut *sfo ) +{ + /* + * Free memory. + */ + free( sfo->list ); + free( sfo ); +} + + +static int +sfoWriteOne(SpecFileOut *sfo,int output,long index,int *error) +{ + long file_header,size; + SpecFile *sf; + + if ( sfSetCurrent(sfo->sf,index,error) == -1 ) { + *error = SF_ERR_SCAN_NOT_FOUND; + return(-1); + } + + /* + * File header + */ + sf = sfo->sf; + + file_header = ((SpecScan *)sf->current->contents)->size; + + if (file_header != -1 && file_header != sfo->file_header ) { + printf("Writing %ld bytes\n",sf->filebuffersize); + write(output, (void *) sf->filebuffer, sf->filebuffersize); + sfo->file_header = file_header; + } + + /* + * write scan + */ + size = ((SpecScan *)sf->current->contents)->size; + + if ( write(output,(void *) sf->scanbuffer,size) == -1 ) { + *error = SF_ERR_FILE_WRITE; + return(-1); + } + return(0); +} |