annotate ezBAMQC/src/htslib/cram/mFILE.h @ 15:28cebcc7f774

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author cshl-bsr
date Wed, 30 Mar 2016 12:15:18 -0400
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1 /*
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2 Copyright (c) 2005-2006, 2008-2009 Genome Research Ltd.
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3 Author: James Bonfield <jkb@sanger.ac.uk>
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4
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5 Redistribution and use in source and binary forms, with or without
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6 modification, are permitted provided that the following conditions are met:
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7
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8 1. Redistributions of source code must retain the above copyright notice,
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9 this list of conditions and the following disclaimer.
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10
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11 2. Redistributions in binary form must reproduce the above copyright notice,
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12 this list of conditions and the following disclaimer in the documentation
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13 and/or other materials provided with the distribution.
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14
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15 3. Neither the names Genome Research Ltd and Wellcome Trust Sanger
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16 Institute nor the names of its contributors may be used to endorse or promote
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17 products derived from this software without specific prior written permission.
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18
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19 THIS SOFTWARE IS PROVIDED BY GENOME RESEARCH LTD AND CONTRIBUTORS "AS IS" AND
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20 ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
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21 WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
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22 DISCLAIMED. IN NO EVENT SHALL GENOME RESEARCH LTD OR CONTRIBUTORS BE LIABLE
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23 FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
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24 DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
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25 SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
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26 CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
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27 OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
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28 OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
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29 */
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30
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31 #ifndef _MFILE_H_
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32 #define _MFILE_H_
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33
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34 #include <stdio.h>
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35
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36 #ifdef __cplusplus
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37 extern "C" {
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38 #endif
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39
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40 typedef struct {
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41 FILE *fp;
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42 char *data;
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43 size_t alloced;
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44 int eof;
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45 int mode; /* open mode in MF_?? define bit pattern */
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46 size_t size;
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47 size_t offset;
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48 size_t flush_pos;
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49 } mFILE;
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50
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51 #define MF_READ 1
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52 #define MF_WRITE 2
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53 #define MF_APPEND 4
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54 #define MF_BINARY 8
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55 #define MF_TRUNC 16
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56 #define MF_MODEX 32
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57
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58 mFILE *mfreopen(const char *path, const char *mode, FILE *fp);
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59 mFILE *mfopen(const char *path, const char *mode);
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60 int mfdetach(mFILE *mf);
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61 int mfclose(mFILE *mf);
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62 int mfdestroy(mFILE *mf);
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63 int mfseek(mFILE *mf, long offset, int whence);
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64 long mftell(mFILE *mf);
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65 void mrewind(mFILE *mf);
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66 void mftruncate(mFILE *mf, long offset);
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67 int mfeof(mFILE *mf);
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68 size_t mfread(void *ptr, size_t size, size_t nmemb, mFILE *mf);
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69 size_t mfwrite(void *ptr, size_t size, size_t nmemb, mFILE *mf);
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70 int mfgetc(mFILE *mf);
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71 int mungetc(int c, mFILE *mf);
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72 mFILE *mfcreate(char *data, int size);
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73 mFILE *mfcreate_from(const char *path, const char *mode_str, FILE *fp);
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74 void mfrecreate(mFILE *mf, char *data, int size);
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75 void *mfsteal(mFILE *mf, size_t *size_out);
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76 char *mfgets(char *s, int size, mFILE *mf);
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77 int mfflush(mFILE *mf);
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78 int mfprintf(mFILE *mf, char *fmt, ...);
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79 mFILE *mstdin(void);
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80 mFILE *mstdout(void);
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81 mFILE *mstderr(void);
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82 void mfascii(mFILE *mf);
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83
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84 #ifdef __cplusplus
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85 }
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86 #endif
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87
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88 #endif /* _MFILE_H_ */