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/* Read a numpy array file, single density only, as floats or doubles
* Cope with Fortran or C ordering, and either endianness */
/* MJR 12/2020 */
#include<stdio.h>
#include<stdlib.h>
#include<string.h>
#include "c2xsf.h"
void npy_read(FILE* infile, struct grid *gptr){
/* NB "fortran" is an optionally-reserved word in C99, so fortrn here */
int i,j,k,hdr_len,version,float_len,ndata,fortrn,data_little_endian;
char magic[6]={0x93,'N','U','M','P','Y'};
unsigned char buff[6];
char *hdr,*cptr;
void *data;
double *dptr;
data=NULL;
if (fread(buff,1,6,infile)!=6)
error_exit("Failed to read magic number");
if (strncmp((char*)buff,magic,6))
error_exit("Wrong magic number for .npy file");
fread(buff,1,2,infile);
version=buff[0];
if (version==1){
fread(buff,1,2,infile);
hdr_len=buff[0]+(buff[1]<<8);
}
else{
fread(buff,1,4,infile);
hdr_len=buff[0]+(buff[1]<<8)+(buff[2]<<16)+(buff[3]<<24);
}
hdr=malloc(hdr_len+1);
if (!hdr) error_exit("Malloc error for header");
fread(hdr,1,hdr_len,infile);
hdr[hdr_len]=0;
cptr=strstr(hdr,"'shape'");
if (!cptr) error_exit("Failed to find array shape");
cptr=strchr(cptr,'(');
if (!cptr) error_exit("Failed to parse array shape");
cptr++;
if (sscanf(cptr,"%d, %d, %d",gptr->size,gptr->size+1,gptr->size+2)!=3){
fprintf(stderr,"%s\n",cptr);
error_exit("Failed to parse dimensions from array shape");
}
ndata=gptr->size[0]*gptr->size[1]*gptr->size[2];
cptr=strstr(hdr,"'descr'");
if (!cptr) error_exit("Failed to find array datatype");
cptr=strchr(cptr,':');
if (!cptr) error_exit("Failed to parse array datatype");
cptr++;
while(*cptr==' ') cptr++;
if ((*cptr!='\'')&&(*cptr!='"')){
fprintf(stderr,"%s\n",cptr);
error_exit("Failed to parse datatype");
}
cptr++;
/* Ignore endianness for now */
data_little_endian=self_little_endian(); /* start by assuming native */
if (*cptr=='=')
cptr++;
else if (*cptr=='<') {
data_little_endian=1;
cptr++;
}
else if (*cptr=='>') {
data_little_endian=0;
cptr++;
}
if (*cptr!='f') error_exit("Unexpected datatype in descr");
cptr++;
float_len=4;
sscanf(cptr,"%d",&float_len);
if ((float_len!=4)&&(float_len!=8))
error_exit("Unexpected float len in descr");
fortrn=0;
cptr=strstr(hdr,"'fortrn_order'");
if (cptr){
cptr=strchr(cptr,':');
if (cptr){
cptr++;
while(*cptr==' ') cptr++;
if (!strncmp(cptr,"True",4)) fortrn=1;
else if (!strncmp(cptr,"False",5)) fortrn=0;
else error_exit("Failed to parse fortrn_order");
}
}
if (debug>1)
fprintf(stderr,"Reading numpy array of %s size %dx%dx%d\n",
(float_len==4)?"floats":"doubles",
gptr->size[0],gptr->size[1],gptr->size[2]);
data=malloc(float_len*ndata);
if (!data) error_exit("Malloc error for data");
if (fread(data,float_len,ndata,infile)!=ndata)
error_exit("Read error reading array data");
if (data_little_endian!=self_little_endian()){
if (debug) fprintf(stderr,"Reversing endianness\n");
if (float_len==4) reverse4n(data,ndata);
else reverse8n(data,ndata);
}
gptr=grid_new(gptr);
if ((!fortrn)&&(float_len==8)){
gptr->data=(double*)data;
return;
}
gptr->data=malloc(ndata*sizeof(double));
if (!gptr->data) error_exit("Malloc error for data");
if (float_len==8){
dptr=gptr->data;
for(i=0;i<gptr->size[0];i++)
for(j=0;j<gptr->size[1];j++)
for(k=0;k<gptr->size[2];k++)
*(dptr++)=((double*)data)[i+j*gptr->size[0]+
k*gptr->size[0]*gptr->size[1]];
}
else{
if (!fortrn)
for(i=0;i<ndata;i++)
gptr->data[i]=((float*)data)[i];
else{
dptr=gptr->data;
for(i=0;i<gptr->size[0];i++)
for(j=0;j<gptr->size[1];j++)
for(k=0;k<gptr->size[2];k++)
*(dptr++)=((float*)data)[i+j*gptr->size[0]+
k*gptr->size[0]*gptr->size[1]];
}
}
free(data);
}
int self_little_endian(){
const float x=1;
unsigned char *ptr;
ptr=(unsigned char*)(&x);
if (*ptr==0) return 1;
if (*ptr==63) return 0;
fprintf(stderr,"Endianness check failed. Assuming little\n");
return 1;
return 1;
}
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