This file is indexed.

/usr/include/BoxLib/VisMF.H is in libbox-dev 2.5-5.

This file is owned by root:root, with mode 0o644.

The actual contents of the file can be viewed below.

  1
  2
  3
  4
  5
  6
  7
  8
  9
 10
 11
 12
 13
 14
 15
 16
 17
 18
 19
 20
 21
 22
 23
 24
 25
 26
 27
 28
 29
 30
 31
 32
 33
 34
 35
 36
 37
 38
 39
 40
 41
 42
 43
 44
 45
 46
 47
 48
 49
 50
 51
 52
 53
 54
 55
 56
 57
 58
 59
 60
 61
 62
 63
 64
 65
 66
 67
 68
 69
 70
 71
 72
 73
 74
 75
 76
 77
 78
 79
 80
 81
 82
 83
 84
 85
 86
 87
 88
 89
 90
 91
 92
 93
 94
 95
 96
 97
 98
 99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
/*
** (c) 1996-2000 The Regents of the University of California (through
** E.O. Lawrence Berkeley National Laboratory), subject to approval by
** the U.S. Department of Energy.  Your use of this software is under
** license -- the license agreement is attached and included in the
** directory as license.txt or you may contact Berkeley Lab's Technology
** Transfer Department at TTD@lbl.gov.  NOTICE OF U.S. GOVERNMENT RIGHTS.
** The Software was developed under funding from the U.S. Government
** which consequently retains certain rights as follows: the
** U.S. Government has been granted for itself and others acting on its
** behalf a paid-up, nonexclusive, irrevocable, worldwide license in the
** Software to reproduce, prepare derivative works, and perform publicly
** and display publicly.  Beginning five (5) years after the date
** permission to assert copyright is obtained from the U.S. Department of
** Energy, and subject to any subsequent five (5) year renewals, the
** U.S. Government is granted for itself and others acting on its behalf
** a paid-up, nonexclusive, irrevocable, worldwide license in the
** Software to reproduce, prepare derivative works, distribute copies to
** the public, perform publicly and display publicly, and to permit
** others to do so.
*/

#ifndef BL_VISMF_H
#define BL_VISMF_H
//
// $Id: VisMF.H,v 1.51 2001/07/31 17:56:27 lijewski Exp $
//
#include <MultiFab.H>

//
//@Man:
//@Memo: File I/O for MultiFabs.
/*@Doc:

  Wrapper class for reading/writing MultiFabs to disk in various "smart" ways.
*/

class VisMF
{
public:
    //
    //@ManDoc: How we write out MultiFabs.
    //
    enum How { OneFilePerCPU };

    /*@ManDoc: Construct by reading in the on-disk VisMF of the specified name.
               The MF on-disk is read lazily. The name here is the name of
               the MF not the name of the on-disk file.
    */
    explicit VisMF (const std::string& mf_name);
    //
    //@ManDoc: A structure containing info regarding an on-disk FAB.
    //
    struct FabOnDisk
    {
        //
        //@ManDoc: The default constructor -- null out all fields.
        //
        FabOnDisk ();
        //
        //@ManDoc: Constructor that sets the two values.
        //
        FabOnDisk (const std::string& name, long offset);
        //
        // The two data values in a FabOnDisk structure.
        //
        std::string m_name; // The name of file containing the FAB.
        long    m_head;     // Offset to start of FAB in file.
        //
        // Prefixed to lines of FabOnDisk I/O.
        //
        static const std::string Prefix;
    };
    //
    //@ManDoc: An on-disk MultiFab contains this info in a header file.
    //
    struct Header
    {
        //
        // The current version of the MultiFab Header code.
        //
        enum { Version = 1 };
        //
        //@ManDoc: The default constructor.
        //
        Header ();
        //
        //@ManDoc: Construct from a MultiFab.
        //
        Header (const MultiFab& mf, How how);
        //
        // The data.
        //
        int                  m_vers;  // The version # of the Header.
        How                  m_how;   // How the MF was written to disk.
        int                  m_ncomp; // Number of components in MF.
        int                  m_ngrow; // The number of ghost cells in MF.
        BoxArray             m_ba;    // The BoxArray of the MF.
        Array< FabOnDisk >   m_fod;   // FabOnDisk info for contained FABs.
        Array< Array<Real> > m_min;   // The min()s of each component of FABs.
        Array< Array<Real> > m_max;   // The max()s of each component of FABs.
    };
    //
    //@ManDoc: The number of components in the on-disk MultiFab.
    //
    int nComp () const;
    //
    //@ManDoc: The grow factor of the on-disk MultiFab.
    //
    int nGrow () const;
    //
    //@ManDoc: # of FABs in the VisMF. Equal to # of Boxes in the BoxArray.
    //
    int size () const;
    //
    //@ManDoc: The BoxArray of the on-disk MultiFab.
    //
    const BoxArray& boxArray () const;
    //
    //@ManDoc: The min of the FAB (in valid region) at specified index and component.
    //
    Real min (int fabIndex,
              int nComp) const;
    //
    //@ManDoc: The max of the FAB (in valid region) at specified index and component.
    //
    Real max (int fabIndex,
              int nComp) const;

    /*@ManDoc: The FAB at the specified index and component.
               Reads it from disk if necessary.
               This reads only the specified component.
    */
    const FArrayBox& GetFab (int fabIndex,
                             int compIndex) const;
    //
    //@ManDoc: Delete()s the FAB at the specified index and component.
    //
    void clear (int fabIndex,
                int compIndex);
    //
    //@ManDoc: Delete()s the FAB at the specified index (all components).
    //
    void clear (int fabIndex);
    //
    //@ManDoc: Delete()s all the FABs.
    //
    void clear ();

    /*@ManDoc: Write a MultiFab to disk in a "smart" way.
               Returns the total number of bytes written on this processor.
               If set\_ghost is true, sets the ghost cells in the MultiFab to
               one-half the average of the min and max over the valid region
               of each contained FAB.
     */
    static long Write (const MultiFab&    mf,
                       const std::string& name,
                       VisMF::How         how = OneFilePerCPU,
                       bool               set_ghost = false);

    /*@ManDoc: Read a MultiFab from disk written using VisMF::Write().
               The MultiFab `mf' must have been defined using the default
               constructor.
    */
    static void Read (MultiFab&          mf,
                      const std::string& name);
    //
    //@ManDoc: We try to do I/O with buffers of this size.
    //
    enum { IO_Buffer_Size = 40960 * 32 };
    //
    // The type of a char buffer required by [p]setbuf().
    //
#ifdef BL_SETBUF_SIGNED_CHAR
    typedef signed char Setbuf_Char_Type;
#else
    typedef char Setbuf_Char_Type;
#endif
    //
    //@ManDoc: A simple character buffer for setbuf() usage.
    //
    typedef Array<Setbuf_Char_Type> IO_Buffer;
    //
    //@ManDoc: The file offset of the passed ostream.
    //
    static long FileOffset (std::ostream& os);
    //
    //@ManDoc: Read the entire fab (all components).
    //
    FArrayBox* readFAB (int                fabIndex,
                        const std::string& mfName);
    //
    //@ManDoc: Read the specified fab component.
    //
    FArrayBox* readFAB (int fabIndex,
                        int ncomp);

private:
    //
    // These are disallowed.
    //
    VisMF (const VisMF&);
    VisMF& operator= (const VisMF&);

    static FabOnDisk Write (const FArrayBox&   fab,
                            const std::string& filename,
                            std::ostream&      os,
                            long&              bytes);

    static long WriteHeader (const std::string& mf_name,
                             VisMF::Header&     hdr);

    //
    // Read the fab.
    // If ncomp == -1 reads the whole FAB.
    // Otherwise read just that component.
    //
    static FArrayBox* readFAB (int                fabIndex,
                               const std::string& mf_name,
                               const Header&      hdr,
			       int                ncomp = -1);

    static std::string DirName (const std::string& filename);

    static std::string BaseName (const std::string& filename);
    //
    // The suffix appended to files containing FAB data.
    //
    static const std::string FabFileSuffix;
    //
    // The suffix appended to files containing MultiFabs.
    //
    static const std::string MultiFabHdrFileSuffix;
    //
    // Name of the MultiFab.
    //
    std::string m_mfname;
    //
    // The VisMF header as read from disk.
    //
    Header m_hdr;
    //
    // We manage the FABs individually.
    //
    mutable Array< Array<FArrayBox*> > m_pa;
};
//
// Write a FabOnDisk to an ostream in ASCII.
//
std::ostream& operator<< (std::ostream& os, const VisMF::FabOnDisk& fod);
//
// Read a FabOnDisk from an istream.
//
std::istream& operator>> (std::istream& is, VisMF::FabOnDisk& fod);
//
// Write an Array<FabOnDisk> to an ostream in ASCII.
//
std::ostream& operator<< (std::ostream& os, const Array<VisMF::FabOnDisk>& fa);
//
// Read an Array<FabOnDisk> from an istream.
//
std::istream& operator>> (std::istream& is, Array<VisMF::FabOnDisk>& fa);
//
// Write a VisMF::Header to an ostream in ASCII.
//
std::ostream& operator<< (std::ostream& os, const VisMF::Header& hd);
//
// Read a VisMF::Header from an istream.
//
std::istream& operator>> (std::istream& is, VisMF::Header& hd);

#endif /*BL_VISMF_H*/