Re: [IMP-dev] [IMP-commits] r1333 - in trunk/modules/em: include src

[Keren Lasker <>]

Javi please update the SConsript files as well


On Jan 28, 2009, at 3:26 PM, Notification of IMP commits wrote:

> Author: 
> Date: 2009-01-28 15:26:55 -0800 (Wed, 28 Jan 2009)
> New Revision: 1333
>
> Added:
>   trunk/modules/em/include/endian.h
>   trunk/modules/em/src/endian.cpp
> Log:
> Some small change to complete ImageHeader class
>
> Added: trunk/modules/em/include/endian.h
> ===================================================================
> --- trunk/modules/em/include/endian.h	                        (rev 0)
> +++ trunk/modules/em/include/endian.h	2009-01-28 23:26:55 UTC (rev  
> 1333)
> @@ -0,0 +1,61 @@
> +/**
> + *  \file endian.h
> + *  \brief functions to deal with endian of EM images
> + *  \author Javier Velazquez-Muriel
> + *  Copyright 2007-8 Sali Lab. All rights reserved.
> +*/
> +
> +#ifndef IMPEM_ENDIAN_H
> +#define IMPEM_ENDIAN_H
> +
> +#include "em_exports.h"
> +#include <iostream>
> +#include <fstream>
> +#include <cstring>
> +#include <cstdio>
> +
> +IMPEM_BEGIN_NAMESPACE
> +
> +//! Reads from file in normal or reverse order
> +/** \ingroup LittleBigEndian
> + * \param[in] reverse If true, the data will be read in reverse  
> order.
> + */
> +void reversed_read(void *dest, size_t size, size_t nitems,  
> std::ifstream& f,
> +                bool reverse);
> +
> +//! Writes to a file in normal or reversed order
> +/**
> + * \ingroup LittleBigEndian
> + *
> + * This function is the same as fread from C, but at the end there  
> is a flag
> + * saying if data should be read in reverse order or not.
> + *
> + * \param[in] reverse If true, the data will be read in reverse  
> order.
> + */
> +void reversed_write(const void* src,size_t size,size_t nitems,
> +              std::ofstream& f,bool reverse = false);
> +
> +
> +//! Conversion between little and big endian. Goes both ways
> +/**
> + * \ingroup LittleBigEndian
> + */
> +#define little22bigendian(x) byte_swap((unsigned char*)& x,sizeof(x))
> +void byte_swap(unsigned char* b, int n);
> +
> +//! Returns 1 if machine is big endian else 0
> +/**
> + * \ingroup LittleBigEndian
> + */
> +bool is_big_endian(void);
> +
> +//! Returns 1 if machine is little endian else 0
> +/**
> + * \ingroup LittleBigEndian
> + */
> +bool is_little_endian(void);
> +
> +
> +IMPEM_END_NAMESPACE
> +
> +#endif  /* IMPEM_ENDIAN_H */
>
> Added: trunk/modules/em/src/endian.cpp
> ===================================================================
> --- trunk/modules/em/src/endian.cpp	                        (rev 0)
> +++ trunk/modules/em/src/endian.cpp	2009-01-28 23:26:55 UTC (rev 1333)
> @@ -0,0 +1,85 @@
> +/**
> + *  \file endian.cpp
> + *  \brief Calculate score based on fit to EM map.
> + *  Copyright 2007-8 Sali Lab. All rights reserved.
> +*/
> +
> +#include <IMP/em/endian.h>
> +
> +IMPEM_BEGIN_NAMESPACE
> +
> +void reversed_read(void *dest, size_t size, size_t nitems,  
> std::ifstream& f,
> +                     bool reverse)
> +{
> +  if (!reverse) {
> +    char *ptr = (char *)dest;
> +    f.read(ptr,size*nitems);
> +  } else {
> +    char *ptr = (char *)dest;
> +    bool end = false;
> +    for (size_t n = 0; n < nitems; n++) {
> +      for (int i = size - 1; i >= 0; i--) {
> +        f.get(ptr + i,1);
> +        if (f.eof() || f.bad()) {
> +          end = true;
> +          break;
> +        }
> +      }
> +      if (end) {
> +        break;
> +      }
> +      ptr += size;
> +    }
> +  }
> +}
> +
> +void reversed_write(const void *src, size_t size, size_t nitems,
> +                      std::ofstream& f,bool reverse)
> +{
> +  if (!reverse) {
> +    char *ptr = (char *)src;
> +    f.write(ptr,size*nitems);
> +  }
> +  else {
> +    char *ptr = (char *)src;
> +    bool end = false;
> +    for (size_t n = 0; n < nitems; n++) {
> +      for (int i = size - 1; i >= 0; i--) {
> +        f.put(*(ptr + i));
> +        if(f.bad()) {
> +          end = true;
> +          break;
> +        }
> +      }
> +      if (end) {
> +        break;
> +      }
> +      ptr += size;
> +    }
> +  }
> +}
> +
> +void byte_swap(unsigned char * b, int n)
> +{
> +  register int i = 0;
> +  register int j = n - 1;
> +  while (i < j) {
> +    std::swap(b[i], b[j]);
> +    i++, j--;
> +  }
> +}
> +
> +bool is_little_endian(void)
> +{
> +  static const unsigned long ul = 0x00000001;
> +  return ((int)(*((unsigned char *) &ul))) != 0;
> +}
> +
> +
> +bool is_big_endian(void)
> +{
> +  static const unsigned long ul = 0x01000000;
> +  return ((int)(*((unsigned char *) &ul))) != 0;
> +}
> +
> +IMPEM_END_NAMESPACE
>
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