1 | #ifndef MARS_fits
|
---|
2 | #define MARS_fits
|
---|
3 |
|
---|
4 | #ifdef __CINT__
|
---|
5 | #define int8_t Char_t
|
---|
6 | #define int16_t Short_t
|
---|
7 | #define int32_t Int_t
|
---|
8 | #define int64_t Long64_t
|
---|
9 | #define uint8_t UChar_t
|
---|
10 | #define uint16_t UShort_t
|
---|
11 | #define uint32_t UInt_t
|
---|
12 | #define uint64_t ULong64_t
|
---|
13 | #else
|
---|
14 | #include <stdint.h>
|
---|
15 | #endif
|
---|
16 |
|
---|
17 | #include <map>
|
---|
18 | #include <string>
|
---|
19 | #include <fstream>
|
---|
20 | #include <sstream>
|
---|
21 | #include <algorithm>
|
---|
22 |
|
---|
23 | #ifdef __EXCEPTIONS
|
---|
24 | #include <stdexcept>
|
---|
25 | #endif
|
---|
26 |
|
---|
27 | #ifdef __CINT__
|
---|
28 | #define off_t size_t
|
---|
29 | #endif
|
---|
30 |
|
---|
31 | #if !defined(__MARS__) && !defined(__CINT__)
|
---|
32 | #include <unordered_map>
|
---|
33 | #endif
|
---|
34 |
|
---|
35 | #ifndef __MARS__
|
---|
36 | #include <vector>
|
---|
37 | #include <iomanip>
|
---|
38 | #include <iostream>
|
---|
39 | #define gLog cerr
|
---|
40 | #define ___err___ ""
|
---|
41 | #define ___warn___ ""
|
---|
42 | #define ___all___ ""
|
---|
43 | #else
|
---|
44 | #include "MLog.h"
|
---|
45 | #include "MLogManip.h"
|
---|
46 | #define ___err___ err
|
---|
47 | #define ___warn___ warn
|
---|
48 | #define ___all___ all
|
---|
49 | #endif
|
---|
50 |
|
---|
51 | #if defined(HAVE_ZLIB) || defined(__CINT__)
|
---|
52 | #include "izstream.h"
|
---|
53 | #else
|
---|
54 | #include <fstream>
|
---|
55 | #define izstream ifstream
|
---|
56 | #warning Support for zipped FITS files disabled.
|
---|
57 | #endif
|
---|
58 |
|
---|
59 | #include "checksum.h"
|
---|
60 |
|
---|
61 | #ifndef __MARS__
|
---|
62 | namespace std
|
---|
63 | {
|
---|
64 | #else
|
---|
65 | using namespace std;
|
---|
66 | #endif
|
---|
67 |
|
---|
68 | class fits : public izstream
|
---|
69 | {
|
---|
70 | public:
|
---|
71 | struct Entry
|
---|
72 | {
|
---|
73 | char type;
|
---|
74 | string value;
|
---|
75 | string comment;
|
---|
76 |
|
---|
77 | template<typename T>
|
---|
78 | T Get() const
|
---|
79 | {
|
---|
80 | T t;
|
---|
81 |
|
---|
82 | istringstream str(value);
|
---|
83 | str >> t;
|
---|
84 |
|
---|
85 | return t;
|
---|
86 | }
|
---|
87 | };
|
---|
88 |
|
---|
89 | struct Table
|
---|
90 | {
|
---|
91 | off_t offset;
|
---|
92 |
|
---|
93 | string name;
|
---|
94 | size_t bytes_per_row;
|
---|
95 | size_t num_rows;
|
---|
96 | size_t num_cols;
|
---|
97 |
|
---|
98 | struct Column
|
---|
99 | {
|
---|
100 | size_t offset;
|
---|
101 | size_t num;
|
---|
102 | size_t size;
|
---|
103 | char type;
|
---|
104 | string unit;
|
---|
105 | };
|
---|
106 |
|
---|
107 | typedef map<string, Entry> Keys;
|
---|
108 | typedef map<string, Column> Columns;
|
---|
109 |
|
---|
110 | Columns cols;
|
---|
111 | Keys keys;
|
---|
112 |
|
---|
113 | int64_t datasum;
|
---|
114 |
|
---|
115 | string Trim(const string &str, char c=' ') const
|
---|
116 | {
|
---|
117 | // Trim Both leading and trailing spaces
|
---|
118 | const size_t pstart = str.find_first_not_of(c); // Find the first character position after excluding leading blank spaces
|
---|
119 | const size_t pend = str.find_last_not_of(c); // Find the first character position from reverse af
|
---|
120 |
|
---|
121 | // if all spaces or empty return an empty string
|
---|
122 | if (string::npos==pstart || string::npos==pend)
|
---|
123 | return string();
|
---|
124 |
|
---|
125 | return str.substr(pstart, pend-pstart+1);
|
---|
126 | }
|
---|
127 |
|
---|
128 | bool Check(const string &key, char type, const string &value="") const
|
---|
129 | {
|
---|
130 | const Keys::const_iterator it = keys.find(key);
|
---|
131 | if (it==keys.end())
|
---|
132 | {
|
---|
133 | ostringstream str;
|
---|
134 | str << "Key '" << key << "' not found.";
|
---|
135 | #ifdef __EXCEPTIONS
|
---|
136 | throw runtime_error(str.str());
|
---|
137 | #else
|
---|
138 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
139 | return false;
|
---|
140 | #endif
|
---|
141 | }
|
---|
142 |
|
---|
143 | if (it->second.type!=type)
|
---|
144 | {
|
---|
145 | ostringstream str;
|
---|
146 | str << "Wrong type for key '" << key << "': expected " << type << ", found " << it->second.type << ".";
|
---|
147 | #ifdef __EXCEPTIONS
|
---|
148 | throw runtime_error(str.str());
|
---|
149 | #else
|
---|
150 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
151 | return false;
|
---|
152 | #endif
|
---|
153 | }
|
---|
154 |
|
---|
155 | if (!value.empty() && it->second.value!=value)
|
---|
156 | {
|
---|
157 | ostringstream str;
|
---|
158 | str << "Wrong value for key '" << key << "': expected " << value << ", found " << it->second.value << ".";
|
---|
159 | #ifdef __EXCEPTIONS
|
---|
160 | throw runtime_error(str.str());
|
---|
161 | #else
|
---|
162 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
163 | return false;
|
---|
164 | #endif
|
---|
165 | }
|
---|
166 |
|
---|
167 | return true;
|
---|
168 | }
|
---|
169 |
|
---|
170 | Keys ParseBlock(const vector<string> &vec) const
|
---|
171 | {
|
---|
172 | map<string,Entry> rc;
|
---|
173 |
|
---|
174 | for (unsigned int i=0; i<vec.size(); i++)
|
---|
175 | {
|
---|
176 | const string key = Trim(vec[i].substr(0,8));
|
---|
177 | // Keywords without a value, like COMMENT / HISTORY
|
---|
178 | if (vec[i].substr(8,2)!="= ")
|
---|
179 | continue;
|
---|
180 |
|
---|
181 | char type = 0;
|
---|
182 |
|
---|
183 | string com;
|
---|
184 | string val = Trim(vec[i].substr(10));
|
---|
185 | if (val[0]=='\'')
|
---|
186 | {
|
---|
187 | // First skip all '' in the string
|
---|
188 | size_t p = 1;
|
---|
189 | while (1)
|
---|
190 | {
|
---|
191 | const size_t pp = val.find_first_of('\'', p);
|
---|
192 | if (pp==string::npos)
|
---|
193 | break;
|
---|
194 |
|
---|
195 | p = val[pp+1]=='\'' ? pp+2 : pp+1;
|
---|
196 | }
|
---|
197 |
|
---|
198 | // Now find the comment
|
---|
199 | const size_t ppp = val.find_first_of('/', p);
|
---|
200 |
|
---|
201 | // Set value, comment and type
|
---|
202 | com = ppp==string::npos ? "" : Trim(val.substr(ppp+1));
|
---|
203 | val = Trim(val.substr(1, p-2));
|
---|
204 | type = 'T';
|
---|
205 | }
|
---|
206 | else
|
---|
207 | {
|
---|
208 | const size_t p = val.find_first_of('/');
|
---|
209 |
|
---|
210 | com = Trim(val.substr(p+2));
|
---|
211 | val = Trim(val.substr(0, p));
|
---|
212 |
|
---|
213 | if (val.empty() || val.find_first_of('T')!=string::npos || val.find_first_of('F')!=string::npos)
|
---|
214 | type = 'B';
|
---|
215 | else
|
---|
216 | type = val.find_last_of('.')==string::npos ? 'I' : 'F';
|
---|
217 | }
|
---|
218 |
|
---|
219 | const Entry e = { type, val, com };
|
---|
220 | rc[key] = e;
|
---|
221 | }
|
---|
222 |
|
---|
223 | return rc;
|
---|
224 | }
|
---|
225 |
|
---|
226 | Table() : offset(0) { }
|
---|
227 | Table(const vector<string> &vec, off_t off) :
|
---|
228 | offset(off), keys(ParseBlock(vec))
|
---|
229 | {
|
---|
230 | if (!Check("XTENSION", 'T', "BINTABLE") ||
|
---|
231 | !Check("NAXIS", 'I', "2") ||
|
---|
232 | !Check("BITPIX", 'I', "8") ||
|
---|
233 | !Check("PCOUNT", 'I', "0") ||
|
---|
234 | !Check("GCOUNT", 'I', "1") ||
|
---|
235 | !Check("EXTNAME", 'T') ||
|
---|
236 | !Check("NAXIS1", 'I') ||
|
---|
237 | !Check("NAXIS2", 'I') ||
|
---|
238 | !Check("TFIELDS", 'I'))
|
---|
239 | return;
|
---|
240 |
|
---|
241 | bytes_per_row = Get<size_t>("NAXIS1");
|
---|
242 | num_rows = Get<size_t>("NAXIS2");
|
---|
243 | num_cols = Get<size_t>("TFIELDS");
|
---|
244 | datasum = Get<int64_t>("DATASUM", -1);
|
---|
245 |
|
---|
246 | size_t bytes = 0;
|
---|
247 | for (size_t i=1; i<=num_cols; i++)
|
---|
248 | {
|
---|
249 | ostringstream num;
|
---|
250 | num << i;
|
---|
251 |
|
---|
252 | if (!Check("TTYPE"+num.str(), 'T') ||
|
---|
253 | !Check("TFORM"+num.str(), 'T'))
|
---|
254 | return;
|
---|
255 |
|
---|
256 | const string id = Get<string>("TTYPE"+num.str());
|
---|
257 | const string fmt = Get<string>("TFORM"+num.str());
|
---|
258 | const string unit = Get<string>("TUNIT"+num.str(), "");
|
---|
259 |
|
---|
260 | istringstream sin(fmt);
|
---|
261 | int n = 0;
|
---|
262 | sin >> n;
|
---|
263 | if (!sin)
|
---|
264 | n = 1;
|
---|
265 |
|
---|
266 | const char type = fmt[fmt.length()-1];
|
---|
267 |
|
---|
268 | size_t size = 0;
|
---|
269 | switch (type)
|
---|
270 | {
|
---|
271 | // We could use negative values to mark floats
|
---|
272 | // otheriwse we could just cast them to int64_t?
|
---|
273 | case 'L': // logical
|
---|
274 | case 'A': // char
|
---|
275 | case 'B': size = 1; break; // byte
|
---|
276 | case 'I': size = 2; break; // short
|
---|
277 | case 'J': size = 4; break; // int
|
---|
278 | case 'K': size = 8; break; // long long
|
---|
279 | case 'E': size = 4; break; // float
|
---|
280 | case 'D': size = 8; break; // double
|
---|
281 | // case 'X': size = n; break; // bits (n=number of bytes needed to contain all bits)
|
---|
282 | // case 'C': size = 8; break; // complex float
|
---|
283 | // case 'M': size = 16; break; // complex double
|
---|
284 | // case 'P': size = 8; break; // array descriptor (32bit)
|
---|
285 | // case 'Q': size = 16; break; // array descriptor (64bit)
|
---|
286 | default:
|
---|
287 | {
|
---|
288 | ostringstream str;
|
---|
289 | str << "FITS format TFORM='" << fmt << "' not yet supported.";
|
---|
290 | #ifdef __EXCEPTIONS
|
---|
291 | throw runtime_error(str.str());
|
---|
292 | #else
|
---|
293 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
294 | return;
|
---|
295 | #endif
|
---|
296 | }
|
---|
297 | }
|
---|
298 |
|
---|
299 | const Table::Column col = { bytes, n, size, type, unit };
|
---|
300 |
|
---|
301 | cols[id] = col;
|
---|
302 | bytes += n*size;
|
---|
303 | }
|
---|
304 |
|
---|
305 | if (bytes!=bytes_per_row)
|
---|
306 | {
|
---|
307 | #ifdef __EXCEPTIONS
|
---|
308 | throw runtime_error("Column size mismatch");
|
---|
309 | #else
|
---|
310 | gLog << ___err___ << "ERROR - Column size mismatch" << endl;
|
---|
311 | return;
|
---|
312 | #endif
|
---|
313 | }
|
---|
314 |
|
---|
315 | name = Get<string>("EXTNAME");
|
---|
316 | }
|
---|
317 |
|
---|
318 | void PrintKeys(bool display_all=false) const
|
---|
319 | {
|
---|
320 | for (Keys::const_iterator it=keys.begin(); it!=keys.end(); it++)
|
---|
321 | {
|
---|
322 | if (!display_all &&
|
---|
323 | (it->first.substr(0, 6)=="TTYPE" ||
|
---|
324 | it->first.substr(0, 6)=="TFORM" ||
|
---|
325 | it->first.substr(0, 6)=="TUNIT" ||
|
---|
326 | it->first=="TFIELDS" ||
|
---|
327 | it->first=="XTENSION" ||
|
---|
328 | it->first=="NAXIS" ||
|
---|
329 | it->first=="BITPIX" ||
|
---|
330 | it->first=="PCOUNT" ||
|
---|
331 | it->first=="GCOUNT")
|
---|
332 | )
|
---|
333 | continue;
|
---|
334 |
|
---|
335 | gLog << ___all___ << setw(2) << it->second.type << '|' << it->first << '=' << it->second.value << '/' << it->second.comment << '|' << endl;
|
---|
336 | }}
|
---|
337 |
|
---|
338 | void PrintColumns() const
|
---|
339 | {
|
---|
340 | typedef map<pair<size_t, string>, Column> Sorted;
|
---|
341 |
|
---|
342 | Sorted sorted;
|
---|
343 |
|
---|
344 | for (Columns::const_iterator it=cols.begin(); it!=cols.end(); it++)
|
---|
345 | sorted[make_pair(it->second.offset, it->first)] = it->second;
|
---|
346 |
|
---|
347 | for (Sorted::const_iterator it=sorted.begin(); it!=sorted.end(); it++)
|
---|
348 | {
|
---|
349 | gLog << ___all___ << setw(6) << it->second.offset << "| ";
|
---|
350 | gLog << it->second.num << 'x';
|
---|
351 | switch (it->second.type)
|
---|
352 | {
|
---|
353 | case 'A': gLog << "char(8)"; break;
|
---|
354 | case 'L': gLog << "bool(8)"; break;
|
---|
355 | case 'B': gLog << "byte(8)"; break;
|
---|
356 | case 'I': gLog << "short(16)"; break;
|
---|
357 | case 'J': gLog << "int(32)"; break;
|
---|
358 | case 'K': gLog << "int(64)"; break;
|
---|
359 | case 'E': gLog << "float(32)"; break;
|
---|
360 | case 'D': gLog << "double(64)"; break;
|
---|
361 | }
|
---|
362 | gLog << ": " << it->first.second << " [" << it->second.unit << "]" << endl;
|
---|
363 | }
|
---|
364 | }
|
---|
365 |
|
---|
366 | operator bool() const { return !name.empty(); }
|
---|
367 |
|
---|
368 | bool HasKey(const string &key) const
|
---|
369 | {
|
---|
370 | return keys.find(key)!=keys.end();
|
---|
371 | }
|
---|
372 |
|
---|
373 | bool HasColumn(const string& col) const
|
---|
374 | {
|
---|
375 | return cols.find(col)!=cols.end();
|
---|
376 | }
|
---|
377 |
|
---|
378 | const Columns &GetColumns() const
|
---|
379 | {
|
---|
380 | return cols;
|
---|
381 | }
|
---|
382 |
|
---|
383 | const Keys &GetKeys() const
|
---|
384 | {
|
---|
385 | return keys;
|
---|
386 | }
|
---|
387 |
|
---|
388 | // Values of keys are always signed
|
---|
389 | template<typename T>
|
---|
390 | T Get(const string &key) const
|
---|
391 | {
|
---|
392 | const map<string,Entry>::const_iterator it = keys.find(key);
|
---|
393 | if (it==keys.end())
|
---|
394 | {
|
---|
395 | ostringstream str;
|
---|
396 | str << "Key '" << key << "' not found." << endl;
|
---|
397 | #ifdef __EXCEPTIONS
|
---|
398 | throw runtime_error(str.str());
|
---|
399 | #else
|
---|
400 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
401 | return T();
|
---|
402 | #endif
|
---|
403 | }
|
---|
404 | return it->second.Get<T>();
|
---|
405 | }
|
---|
406 |
|
---|
407 | // Values of keys are always signed
|
---|
408 | template<typename T>
|
---|
409 | T Get(const string &key, const T &deflt) const
|
---|
410 | {
|
---|
411 | const map<string,Entry>::const_iterator it = keys.find(key);
|
---|
412 | return it==keys.end() ? deflt :it->second.Get<T>();
|
---|
413 | }
|
---|
414 |
|
---|
415 | size_t GetN(const string &key) const
|
---|
416 | {
|
---|
417 | const Columns::const_iterator it = cols.find(key);
|
---|
418 | return it==cols.end() ? 0 : it->second.num;
|
---|
419 | }
|
---|
420 | };
|
---|
421 |
|
---|
422 | private:
|
---|
423 | ofstream fCopy;
|
---|
424 |
|
---|
425 | Table fTable;
|
---|
426 |
|
---|
427 | typedef pair<void*, Table::Column> Address;
|
---|
428 | typedef vector<Address> Addresses;
|
---|
429 | //map<void*, Table::Column> fAddresses;
|
---|
430 | Addresses fAddresses;
|
---|
431 |
|
---|
432 | #if defined(__MARS__) || defined(__CINT__)
|
---|
433 | typedef map<string, void*> Pointers;
|
---|
434 | #else
|
---|
435 | typedef unordered_map<string, void*> Pointers;
|
---|
436 | #endif
|
---|
437 | Pointers fPointers;
|
---|
438 |
|
---|
439 | vector<vector<char>> fGarbage;
|
---|
440 |
|
---|
441 | vector<char> fBufferRow;
|
---|
442 | vector<char> fBufferDat;
|
---|
443 |
|
---|
444 | size_t fRow;
|
---|
445 |
|
---|
446 | Checksum fChkHeader;
|
---|
447 | Checksum fChkData;
|
---|
448 |
|
---|
449 | bool ReadBlock(vector<string> &vec)
|
---|
450 | {
|
---|
451 | int endtag = 0;
|
---|
452 | for (int i=0; i<36; i++)
|
---|
453 | {
|
---|
454 | char c[81];
|
---|
455 | c[80] = 0;
|
---|
456 | read(c, 80);
|
---|
457 | if (!good())
|
---|
458 | break;
|
---|
459 |
|
---|
460 | fChkHeader.add(c, 80);
|
---|
461 |
|
---|
462 | // if (c[0]==0)
|
---|
463 | // return vector<string>();
|
---|
464 |
|
---|
465 | string str(c);
|
---|
466 |
|
---|
467 | // if (!str.empty())
|
---|
468 | // cout << setw(2) << i << "|" << str << "|" << (endtag?'-':'+') << endl;
|
---|
469 |
|
---|
470 | if (endtag==2 || str=="END ")
|
---|
471 | {
|
---|
472 | endtag = 2; // valid END tag found
|
---|
473 | continue;
|
---|
474 | }
|
---|
475 |
|
---|
476 | if (endtag==1 || str==" ")
|
---|
477 | {
|
---|
478 | endtag = 1; // end tag not found, but expected to be there
|
---|
479 | continue;
|
---|
480 | }
|
---|
481 |
|
---|
482 | vec.push_back(str);
|
---|
483 | }
|
---|
484 |
|
---|
485 | // Make sure that no empty vector is returned
|
---|
486 | if (endtag && vec.size()%36==0)
|
---|
487 | vec.push_back(string("END = '' / "));
|
---|
488 |
|
---|
489 | return endtag==2;
|
---|
490 | }
|
---|
491 |
|
---|
492 | string Compile(const string &key, int16_t i=-1)
|
---|
493 | {
|
---|
494 | if (i<0)
|
---|
495 | return key;
|
---|
496 |
|
---|
497 | ostringstream str;
|
---|
498 | str << key << i;
|
---|
499 | return str.str();
|
---|
500 | }
|
---|
501 |
|
---|
502 | void Constructor(const string &fname, string fout, bool force)
|
---|
503 | {
|
---|
504 | char simple[10];
|
---|
505 | read(simple, 10);
|
---|
506 | if (!good())
|
---|
507 | return;
|
---|
508 |
|
---|
509 | if (memcmp(simple, "SIMPLE = ", 10))
|
---|
510 | {
|
---|
511 | clear(rdstate()|ios::badbit);
|
---|
512 | #ifdef __EXCEPTIONS
|
---|
513 | throw runtime_error("File is not a FITS file.");
|
---|
514 | #else
|
---|
515 | gLog << ___err___ << "ERROR - File is not a FITS file." << endl;
|
---|
516 | return;
|
---|
517 | #endif
|
---|
518 | }
|
---|
519 |
|
---|
520 | seekg(0);
|
---|
521 |
|
---|
522 | while (good())
|
---|
523 | {
|
---|
524 | vector<string> block;
|
---|
525 | while (1)
|
---|
526 | {
|
---|
527 | // FIXME: Set limit on memory consumption
|
---|
528 | const int rc = ReadBlock(block);
|
---|
529 | if (!good())
|
---|
530 | {
|
---|
531 | clear(rdstate()|ios::badbit);
|
---|
532 | #ifdef __EXCEPTIONS
|
---|
533 | throw runtime_error("FITS file corrupted.");
|
---|
534 | #else
|
---|
535 | gLog << ___err___ << "ERROR - FITS file corrupted." << endl;
|
---|
536 | return;
|
---|
537 | #endif
|
---|
538 | }
|
---|
539 |
|
---|
540 | if (block.size()%36)
|
---|
541 | {
|
---|
542 | if (!rc && !force)
|
---|
543 | {
|
---|
544 | clear(rdstate()|ios::badbit);
|
---|
545 | #ifdef __EXCEPTIONS
|
---|
546 | throw runtime_error("END keyword missing in FITS header.");
|
---|
547 | #else
|
---|
548 | gLog << ___err___ << "ERROR - END keyword missing in FITS file... file might be corrupted." << endl;
|
---|
549 | return;
|
---|
550 | #endif
|
---|
551 | }
|
---|
552 | break;
|
---|
553 | }
|
---|
554 | }
|
---|
555 |
|
---|
556 | if (block.size()==0)
|
---|
557 | break;
|
---|
558 |
|
---|
559 | if (block[0].substr(0, 9)=="SIMPLE =")
|
---|
560 | {
|
---|
561 | fChkHeader.reset();
|
---|
562 | continue;
|
---|
563 | }
|
---|
564 |
|
---|
565 | if (block[0].substr(0, 9)=="XTENSION=")
|
---|
566 | {
|
---|
567 | // FIXME: Check for table name
|
---|
568 |
|
---|
569 | fTable = Table(block, tellg());
|
---|
570 | fRow = (size_t)-1;
|
---|
571 |
|
---|
572 | //fTable.PrintKeys();
|
---|
573 |
|
---|
574 | if (!fTable)
|
---|
575 | {
|
---|
576 | clear(rdstate()|ios::badbit);
|
---|
577 | return;
|
---|
578 | }
|
---|
579 |
|
---|
580 | fBufferRow.resize(fTable.bytes_per_row + 8-fTable.bytes_per_row%4);
|
---|
581 | fBufferDat.resize(fTable.bytes_per_row);
|
---|
582 |
|
---|
583 | /*
|
---|
584 | // Next table should start at:
|
---|
585 | const size_t size = fTable.bytes_per_row*fTable.num_rows;
|
---|
586 | const size_t blks = size/(36*80);
|
---|
587 | const size_t rest = size%(36*80);
|
---|
588 |
|
---|
589 | seekg((blks+(rest>0?1:0))*(36*80), ios::cur);
|
---|
590 | if (!good())
|
---|
591 | gLog << ___err___ << "File seems to be incomplete (less data than expected from header)." << endl;
|
---|
592 |
|
---|
593 | fRow = fTable.num_rows;
|
---|
594 | */
|
---|
595 |
|
---|
596 | break;
|
---|
597 | }
|
---|
598 | }
|
---|
599 |
|
---|
600 | if (fout.empty())
|
---|
601 | return;
|
---|
602 |
|
---|
603 | if (*fout.rbegin()=='/')
|
---|
604 | {
|
---|
605 | const size_t p = fname.find_last_of('/');
|
---|
606 | fout.append(fname.substr(p+1));
|
---|
607 | }
|
---|
608 |
|
---|
609 | fCopy.open(fout);
|
---|
610 | if (!fCopy)
|
---|
611 | {
|
---|
612 | clear(rdstate()|ios::badbit);
|
---|
613 | #ifdef __EXCEPTIONS
|
---|
614 | throw runtime_error("Could not open output file.");
|
---|
615 | #else
|
---|
616 | gLog << ___err___ << "ERROR - Failed to open output file." << endl;
|
---|
617 | #endif
|
---|
618 | }
|
---|
619 |
|
---|
620 | const streampos p = tellg();
|
---|
621 | seekg(0);
|
---|
622 |
|
---|
623 | vector<char> buf(p);
|
---|
624 | read(buf.data(), p);
|
---|
625 |
|
---|
626 | fCopy.write(buf.data(), p);
|
---|
627 | if (!fCopy)
|
---|
628 | clear(rdstate()|ios::badbit);
|
---|
629 | }
|
---|
630 |
|
---|
631 | public:
|
---|
632 | fits(const string &fname, bool force=false) : izstream(fname.c_str())
|
---|
633 | {
|
---|
634 | Constructor(fname, "", force);
|
---|
635 | }
|
---|
636 |
|
---|
637 | fits(const string &fname, const string &fout, bool force=false) : izstream(fname.c_str())
|
---|
638 | {
|
---|
639 | Constructor(fname, fout, force);
|
---|
640 | }
|
---|
641 |
|
---|
642 | ~fits()
|
---|
643 | {
|
---|
644 | copy(istreambuf_iterator<char>(*this),
|
---|
645 | istreambuf_iterator<char>(),
|
---|
646 | ostreambuf_iterator<char>(fCopy));
|
---|
647 | }
|
---|
648 |
|
---|
649 | uint8_t ReadRow(size_t row)
|
---|
650 | {
|
---|
651 | // if (row!=fRow+1) // Fast seeking is ensured by izstream
|
---|
652 | seekg(fTable.offset+row*fTable.bytes_per_row);
|
---|
653 |
|
---|
654 | // For the checksum we need everything to be correctly aligned
|
---|
655 | const uint8_t offset = (row*fTable.bytes_per_row)%4;
|
---|
656 |
|
---|
657 | auto ib = fBufferRow.begin();
|
---|
658 | auto ie = fBufferRow.end();
|
---|
659 | *ib++ = 0;
|
---|
660 | *ib++ = 0;
|
---|
661 | *ib++ = 0;
|
---|
662 | *ib = 0;
|
---|
663 |
|
---|
664 | *--ie = 0;
|
---|
665 | *--ie = 0;
|
---|
666 | *--ie = 0;
|
---|
667 | *--ie = 0;
|
---|
668 | *--ie = 0;
|
---|
669 | *--ie = 0;
|
---|
670 | *--ie = 0;
|
---|
671 | *--ie = 0;
|
---|
672 |
|
---|
673 | read(fBufferRow.data()+offset, fTable.bytes_per_row);
|
---|
674 | //fin.clear(fin.rdstate()&~ios::eofbit);
|
---|
675 |
|
---|
676 | if (row==fRow+1)
|
---|
677 | {
|
---|
678 | fChkData.add(fBufferRow);
|
---|
679 | if (fCopy.is_open() && fCopy.good())
|
---|
680 | fCopy.write(fBufferRow.data()+offset, fTable.bytes_per_row);
|
---|
681 | if (!fCopy)
|
---|
682 | clear(rdstate()|ios::badbit);
|
---|
683 | }
|
---|
684 | else
|
---|
685 | if (fCopy.is_open())
|
---|
686 | clear(rdstate()|ios::badbit);
|
---|
687 |
|
---|
688 | fRow = row;
|
---|
689 |
|
---|
690 | return offset;
|
---|
691 | }
|
---|
692 |
|
---|
693 | template<size_t N>
|
---|
694 | void revcpy(char *dest, const char *src, int num)
|
---|
695 | {
|
---|
696 | const char *pend = src + num*N;
|
---|
697 | for (const char *ptr = src; ptr<pend; ptr+=N, dest+=N)
|
---|
698 | reverse_copy(ptr, ptr+N, dest);
|
---|
699 | }
|
---|
700 |
|
---|
701 | #if !defined(__MARS__) && !defined(__CINT__)
|
---|
702 | bool GetRow(size_t row, bool check=true)
|
---|
703 | #else
|
---|
704 | bool GetRowNum(size_t row, bool check=true)
|
---|
705 | #endif
|
---|
706 | {
|
---|
707 | if (check && row>=fTable.num_rows)
|
---|
708 | return false;
|
---|
709 |
|
---|
710 | const uint8_t offset = ReadRow(row);
|
---|
711 | if (!good())
|
---|
712 | return good();
|
---|
713 |
|
---|
714 | const char *ptr = fBufferRow.data() + offset;
|
---|
715 |
|
---|
716 | for (Addresses::const_iterator it=fAddresses.begin(); it!=fAddresses.end(); it++)
|
---|
717 | {
|
---|
718 | const Table::Column &c = it->second;
|
---|
719 |
|
---|
720 | const char *src = ptr + c.offset;
|
---|
721 | char *dest = reinterpret_cast<char*>(it->first);
|
---|
722 |
|
---|
723 | // Let the compiler do some optimization by
|
---|
724 | // knowing that we only have 1, 2, 4 and 8
|
---|
725 | switch (c.size)
|
---|
726 | {
|
---|
727 | case 1: memcpy (dest, src, c.num*c.size); break;
|
---|
728 | case 2: revcpy<2>(dest, src, c.num); break;
|
---|
729 | case 4: revcpy<4>(dest, src, c.num); break;
|
---|
730 | case 8: revcpy<8>(dest, src, c.num); break;
|
---|
731 | }
|
---|
732 | }
|
---|
733 |
|
---|
734 | return good();
|
---|
735 | }
|
---|
736 |
|
---|
737 | bool GetNextRow(bool check=true)
|
---|
738 | {
|
---|
739 | #if !defined(__MARS__) && !defined(__CINT__)
|
---|
740 | return GetRow(fRow+1, check);
|
---|
741 | #else
|
---|
742 | return GetRowNum(fRow+1, check);
|
---|
743 | #endif
|
---|
744 | }
|
---|
745 |
|
---|
746 | bool SkipNextRow()
|
---|
747 | {
|
---|
748 | seekg(fTable.offset+(++fRow)*fTable.bytes_per_row);
|
---|
749 | return good();
|
---|
750 | }
|
---|
751 |
|
---|
752 | static bool Compare(const Address &p1, const Address &p2)
|
---|
753 | {
|
---|
754 | return p1.first>p2.first;
|
---|
755 | }
|
---|
756 |
|
---|
757 | template<class T, class S>
|
---|
758 | const T &GetAs(const string &name)
|
---|
759 | {
|
---|
760 | return *reinterpret_cast<S*>(fPointers[name]);
|
---|
761 | }
|
---|
762 |
|
---|
763 | void *SetPtrAddress(const string &name)
|
---|
764 | {
|
---|
765 | if (fTable.cols.count(name)==0)
|
---|
766 | {
|
---|
767 | ostringstream str;
|
---|
768 | str <<"SetPtrAddress('" << name << "') - Column not found." << endl;
|
---|
769 | #ifdef __EXCEPTIONS
|
---|
770 | throw runtime_error(str.str());
|
---|
771 | #else
|
---|
772 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
773 | return NULL;
|
---|
774 | #endif
|
---|
775 | }
|
---|
776 |
|
---|
777 | Pointers::const_iterator it = fPointers.find(name);
|
---|
778 | if (it!=fPointers.end())
|
---|
779 | return it->second;
|
---|
780 |
|
---|
781 | fGarbage.push_back(vector<char>(fTable.cols[name].size*fTable.cols[name].num));
|
---|
782 |
|
---|
783 | void *ptr = fGarbage.back().data();
|
---|
784 |
|
---|
785 | fPointers[name] = ptr;
|
---|
786 | fAddresses.push_back(make_pair(ptr, fTable.cols[name]));
|
---|
787 | sort(fAddresses.begin(), fAddresses.end(), Compare);
|
---|
788 | return ptr;
|
---|
789 | }
|
---|
790 |
|
---|
791 | template<typename T>
|
---|
792 | bool SetPtrAddress(const string &name, T *ptr, size_t cnt)
|
---|
793 | {
|
---|
794 | if (fTable.cols.count(name)==0)
|
---|
795 | {
|
---|
796 | ostringstream str;
|
---|
797 | str << "SetPtrAddress('" << name << "') - Column not found." << endl;
|
---|
798 | #ifdef __EXCEPTIONS
|
---|
799 | throw runtime_error(str.str());
|
---|
800 | #else
|
---|
801 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
802 | return false;
|
---|
803 | #endif
|
---|
804 | }
|
---|
805 |
|
---|
806 | if (sizeof(T)!=fTable.cols[name].size)
|
---|
807 | {
|
---|
808 | ostringstream str;
|
---|
809 | str << "SetPtrAddress('" << name << "') - Element size mismatch: expected "
|
---|
810 | << fTable.cols[name].size << " from header, got " << sizeof(T) << endl;
|
---|
811 | #ifdef __EXCEPTIONS
|
---|
812 | throw runtime_error(str.str());
|
---|
813 | #else
|
---|
814 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
815 | return false;
|
---|
816 | #endif
|
---|
817 | }
|
---|
818 |
|
---|
819 | if (cnt!=fTable.cols[name].num)
|
---|
820 | {
|
---|
821 | ostringstream str;
|
---|
822 | str << "SetPtrAddress('" << name << "') - Element count mismatch: expected "
|
---|
823 | << fTable.cols[name].num << " from header, got " << cnt << endl;
|
---|
824 | #ifdef __EXCEPTIONS
|
---|
825 | throw runtime_error(str.str());
|
---|
826 | #else
|
---|
827 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
828 | return false;
|
---|
829 | #endif
|
---|
830 | }
|
---|
831 |
|
---|
832 | // if (fAddresses.count(ptr)>0)
|
---|
833 | // gLog << warn << "SetPtrAddress('" << name << "') - Pointer " << ptr << " already assigned." << endl;
|
---|
834 |
|
---|
835 | //fAddresses[ptr] = fTable.cols[name];
|
---|
836 | fPointers[name] = ptr;
|
---|
837 | fAddresses.push_back(make_pair(ptr, fTable.cols[name]));
|
---|
838 | sort(fAddresses.begin(), fAddresses.end(), Compare);
|
---|
839 | return true;
|
---|
840 | }
|
---|
841 |
|
---|
842 | template<class T>
|
---|
843 | bool SetRefAddress(const string &name, T &ptr)
|
---|
844 | {
|
---|
845 | return SetPtrAddress(name, &ptr, sizeof(ptr)/sizeof(T));
|
---|
846 | }
|
---|
847 |
|
---|
848 | template<typename T>
|
---|
849 | bool SetVecAddress(const string &name, vector<T> &vec)
|
---|
850 | {
|
---|
851 | return SetPtrAddress(name, vec.data(), vec.size());
|
---|
852 | }
|
---|
853 |
|
---|
854 | template<typename T>
|
---|
855 | T Get(const string &key) const
|
---|
856 | {
|
---|
857 | return fTable.Get<T>(key);
|
---|
858 | }
|
---|
859 |
|
---|
860 | template<typename T>
|
---|
861 | T Get(const string &key, const string &deflt) const
|
---|
862 | {
|
---|
863 | return fTable.Get<T>(key, deflt);
|
---|
864 | }
|
---|
865 |
|
---|
866 | bool SetPtrAddress(const string &name, void *ptr)
|
---|
867 | {
|
---|
868 | if (fTable.cols.count(name)==0)
|
---|
869 | {
|
---|
870 | ostringstream str;
|
---|
871 | str <<"SetPtrAddress('" << name << "') - Column not found." << endl;
|
---|
872 | #ifdef __EXCEPTIONS
|
---|
873 | throw runtime_error(str.str());
|
---|
874 | #else
|
---|
875 | gLog << ___err___ << "ERROR - " << str.str() << endl;
|
---|
876 | return false;
|
---|
877 | #endif
|
---|
878 | }
|
---|
879 |
|
---|
880 | // if (fAddresses.count(ptr)>0)
|
---|
881 | // gLog << warn << "SetPtrAddress('" << name << "') - Pointer " << ptr << " already assigned." << endl;
|
---|
882 |
|
---|
883 | //fAddresses[ptr] = fTable.cols[name];
|
---|
884 | fPointers[name] = ptr;
|
---|
885 | fAddresses.push_back(make_pair(ptr, fTable.cols[name]));
|
---|
886 | sort(fAddresses.begin(), fAddresses.end(), Compare);
|
---|
887 | return true;
|
---|
888 | }
|
---|
889 |
|
---|
890 | bool HasKey(const string &key) const { return fTable.HasKey(key); }
|
---|
891 | bool HasColumn(const string& col) const { return fTable.HasColumn(col);}
|
---|
892 | const Table::Columns &GetColumns() const { return fTable.GetColumns();}
|
---|
893 | const Table::Keys &GetKeys() const { return fTable.GetKeys();}
|
---|
894 |
|
---|
895 | int64_t GetInt(const string &key) const { return fTable.Get<int64_t>(key); }
|
---|
896 | uint64_t GetUInt(const string &key) const { return fTable.Get<uint64_t>(key); }
|
---|
897 | double GetFloat(const string &key) const { return fTable.Get<double>(key); }
|
---|
898 | string GetStr(const string &key) const { return fTable.Get<string>(key); }
|
---|
899 |
|
---|
900 | size_t GetN(const string &key) const
|
---|
901 | {
|
---|
902 | return fTable.GetN(key);
|
---|
903 | }
|
---|
904 |
|
---|
905 | size_t GetNumRows() const { return fTable.num_rows; }
|
---|
906 | size_t GetRow() const { return fRow==(size_t)-1 ? 0 : fRow; }
|
---|
907 |
|
---|
908 | operator bool() const { return fTable && fTable.offset!=0; }
|
---|
909 |
|
---|
910 | void PrintKeys() const { fTable.PrintKeys(); }
|
---|
911 | void PrintColumns() const { fTable.PrintColumns(); }
|
---|
912 |
|
---|
913 | bool IsHeaderOk() const { return fTable.datasum<0?false:(fChkHeader+Checksum(fTable.datasum)).valid(); }
|
---|
914 | bool IsFileOk() const { return (fChkHeader+fChkData).valid(); }
|
---|
915 |
|
---|
916 | };
|
---|
917 |
|
---|
918 | #ifndef __MARS__
|
---|
919 | };
|
---|
920 | #endif
|
---|
921 | #endif
|
---|