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import numpy as np
import struct
import warnings
import string
from astropy import log
from astropy.io import registry as io_registry
from ..spectral_cube import BaseSpectralCube
from .fits import load_fits_cube
"""
.. TODO::
When any section length is zero, that means the following values are to be
ignored. No warning is needed.
"""
# Constant:
r2deg = 180/np.pi
# see sicfits.f90
_ctype_dict={'LII':'GLON',
'BII':'GLAT',
'VELOCITY':'VELO',
'RA':'RA',
'DEC':'DEC',
'FREQUENCY': 'FREQ',
}
_cunit_dict = {'LII':'deg',
'BII':'deg',
'VELOCITY':'km s-1',
'RA':'deg',
'DEC':'deg',
'FREQUENCY': 'MHz',
}
cel_types = ('RA','DEC','GLON','GLAT')
# CLASS apparently defaults to an ARC (zenithal equidistant) projection; this
# is what is output in case the projection # is zero when exporting from CLASS
_proj_dict = {0:'ARC', 1:'TAN', 2:'SIN', 3:'AZP', 4:'STG', 5:'ZEA', 6:'AIT',
7:'GLS', 8:'SFL', }
_bunit_dict = {'k (tmb)': 'K'}
def is_lmv(origin, filepath, fileobj, *args, **kwargs):
"""
Determine whether input is in GILDAS CLASS lmv format
"""
return filepath is not None and filepath.lower().endswith('.lmv')
def read_lmv(lf):
"""
Read an LMV cube file
Specification is primarily in GILDAS image_def.f90
"""
log.warning("CLASS LMV cube reading is tentatively supported. "
"Please post bug reports at the first sign of danger!")
# lf for "LMV File"
filetype = _read_string(lf, 12)
#!---------------------------------------------------------------------
#! @ private
#! SYCODE system code
#! '-' IEEE
#! '.' EEEI (IBM like)
#! '_' VAX
#! IMCODE file code
#! '<' IEEE 64 bits (Little Endian, 99.9 % of recent computers)
#! '>' EEEI 64 bits (Big Endian, HPUX, IBM-RISC, and SPARC ...)
#!---------------------------------------------------------------------
imcode = filetype[6]
if filetype[:6] != 'GILDAS' or filetype[7:] != 'IMAGE':
raise TypeError("File is not a GILDAS Image file")
if imcode in ('<','>'):
if imcode =='>':
log.warning("Swap the endianness first...")
return read_lmv_type2(lf)
else:
return read_lmv_type1(lf)
def read_lmv_type1(lf):
header = {}
# fmt probably matters! Default is "r4", i.e. float32 data, but could be float64
fmt = np.fromfile(lf, dtype='int32', count=1) # 4
# number of data blocks
ndb = np.fromfile(lf, dtype='int32', count=1) # 5
gdf_type = np.fromfile(lf, dtype='int32', count=1) # 6
# Reserved Space
reserved_fill = np.fromfile(lf, dtype='int32', count=4) # 7
general_section_length = np.fromfile(lf, dtype='int32', count=1) # 11
#print "Format: ",fmt," ndb: ",ndb, " fill: ",fill," other: ",unknown
# pos 12
naxis,naxis1,naxis2,naxis3,naxis4 = np.fromfile(lf,count=5,dtype='int32')
header['NAXIS'] = naxis
header['NAXIS1'] = naxis1
header['NAXIS2'] = naxis2
header['NAXIS3'] = naxis3
header['NAXIS4'] = naxis4
# We are indexing bytes from here; CLASS indices are higher by 12
# pos 17
header['CRPIX1'] = np.fromfile(lf,count=1,dtype='float64')[0]
header['CRVAL1'] = np.fromfile(lf,count=1,dtype='float64')[0]
header['CDELT1'] = np.fromfile(lf,count=1,dtype='float64')[0] * r2deg
header['CRPIX2'] = np.fromfile(lf,count=1,dtype='float64')[0]
header['CRVAL2'] = np.fromfile(lf,count=1,dtype='float64')[0]
header['CDELT2'] = np.fromfile(lf,count=1,dtype='float64')[0] * r2deg
header['CRPIX3'] = np.fromfile(lf,count=1,dtype='float64')[0]
header['CRVAL3'] = np.fromfile(lf,count=1,dtype='float64')[0]
header['CDELT3'] = np.fromfile(lf,count=1,dtype='float64')[0]
header['CRPIX4'] = np.fromfile(lf,count=1,dtype='float64')[0]
header['CRVAL4'] = np.fromfile(lf,count=1,dtype='float64')[0]
header['CDELT4'] = np.fromfile(lf,count=1,dtype='float64')[0]
# pos 41
#print "Post-crval",lf.tell()
blank_section_length = np.fromfile(lf,count=1,dtype='int32')
if blank_section_length != 8:
warnings.warn("Invalid section length found for blanking section")
bval = np.fromfile(lf,count=1,dtype='float32')[0] # 42
header['TOLERANC'] = np.fromfile(lf,count=1,dtype='int32')[0] # 43 eval = tolerance
extrema_section_length = np.fromfile(lf,count=1,dtype='int32')[0] # 44
if extrema_section_length != 40:
warnings.warn("Invalid section length found for extrema section")
vmin,vmax = np.fromfile(lf,count=2,dtype='float32') # 45
xmin,xmax,ymin,ymax,zmin,zmax = np.fromfile(lf,count=6,dtype='int32') # 47
wmin,wmax = np.fromfile(lf,count=2,dtype='int32') # 53
description_section_length = np.fromfile(lf,count=1,dtype='int32')[0] # 55
if description_section_length != 72:
warnings.warn("Invalid section length found for description section")
#strings = lf.read(description_section_length) # 56
header['BUNIT'] = _read_string(lf, 12) # 56
header['CTYPE1'] = _read_string(lf, 12) # 59
header['CTYPE2'] = _read_string(lf, 12) # 62
header['CTYPE3'] = _read_string(lf, 12) # 65
header['CTYPE4'] = _read_string(lf, 12) # 68
header['CUNIT1'] = _cunit_dict[header['CTYPE1'].strip()]
header['CUNIT2'] = _cunit_dict[header['CTYPE2'].strip()]
header['CUNIT3'] = _cunit_dict[header['CTYPE3'].strip()]
header['COOSYS'] = _read_string(lf, 12) # 71
position_section_length = np.fromfile(lf,count=1,dtype='int32') # 74
if position_section_length != 48:
warnings.warn("Invalid section length found for position section")
header['OBJNAME'] = _read_string(lf, 4*3) # 75
header['RA'] = np.fromfile(lf, count=1, dtype='float64')[0] * r2deg # 78
header['DEC'] = np.fromfile(lf, count=1, dtype='float64')[0] * r2deg # 80
header['GLON'] = np.fromfile(lf, count=1, dtype='float64')[0] * r2deg # 82
header['GLAT'] = np.fromfile(lf, count=1, dtype='float64')[0] * r2deg # 84
header['EQUINOX'] = np.fromfile(lf,count=1,dtype='float32')[0] # 86
header['PROJWORD'] = _read_string(lf, 4) # 87
header['PTYP'] = np.fromfile(lf,count=1,dtype='int32')[0] # 88
header['A0'] = np.fromfile(lf,count=1,dtype='float64')[0] # 89
header['D0'] = np.fromfile(lf,count=1,dtype='float64')[0] # 91
header['PANG'] = np.fromfile(lf,count=1,dtype='float64')[0] # 93
header['XAXI'] = np.fromfile(lf,count=1,dtype='float32')[0] # 95
header['YAXI'] = np.fromfile(lf,count=1,dtype='float32')[0] # 96
spectroscopy_section_length = np.fromfile(lf,count=1,dtype='int32') # 97
if spectroscopy_section_length != 48:
warnings.warn("Invalid section length found for spectroscopy section")
header['RECVR'] = _read_string(lf, 12) # 98
header['FRES'] = np.fromfile(lf,count=1,dtype='float64')[0] # 101
header['IMAGFREQ'] = np.fromfile(lf,count=1,dtype='float64')[0] # 103 "FIMA"
header['REFFREQ'] = np.fromfile(lf,count=1,dtype='float64')[0] # 105
header['VRES'] = np.fromfile(lf,count=1,dtype='float32')[0] # 107
header['VOFF'] = np.fromfile(lf,count=1,dtype='float32')[0] # 108
header['FAXI'] = np.fromfile(lf,count=1,dtype='int32')[0] # 109
resolution_section_length = np.fromfile(lf,count=1,dtype='int32')[0] # 110
if resolution_section_length != 12:
warnings.warn("Invalid section length found for resolution section")
#header['DOPP'] = np.fromfile(lf,count=1,dtype='float16')[0] # 110a ???
#header['VTYP'] = np.fromfile(lf,count=1,dtype='int16')[0] # 110b
# integer, parameter :: vel_unk = 0 ! Unsupported referential :: planetary...)
# integer, parameter :: vel_lsr = 1 ! LSR referential
# integer, parameter :: vel_hel = 2 ! Heliocentric referential
# integer, parameter :: vel_obs = 3 ! Observatory referential
# integer, parameter :: vel_ear = 4 ! Earth-Moon barycenter referential
# integer, parameter :: vel_aut = -1 ! Take referential from data
header['BMAJ'] = np.fromfile(lf,count=1,dtype='float32')[0] # 111
header['BMIN'] = np.fromfile(lf,count=1,dtype='float32')[0] # 112
header['BPA'] = np.fromfile(lf,count=1,dtype='float32')[0] # 113
noise_section_length = np.fromfile(lf,count=1,dtype='int32')
if noise_section_length != 0:
warnings.warn("Invalid section length found for noise section")
header['NOISE'] = np.fromfile(lf,count=1,dtype='float32')[0] # 115
header['RMS'] = np.fromfile(lf,count=1,dtype='float32')[0] # 116
astrometry_section_length = np.fromfile(lf,count=1,dtype='int32')
if astrometry_section_length != 0:
warnings.warn("Invalid section length found for astrometry section")
header['MURA'] = np.fromfile(lf,count=1,dtype='float32')[0] # 118
header['MUDEC'] = np.fromfile(lf,count=1,dtype='float32')[0] # 119
header['PARALLAX'] = np.fromfile(lf,count=1,dtype='float32')[0] # 120
# Apparently CLASS headers aren't required to fill the 'value at
# reference pixel' column
if (header['CTYPE1'].strip() == 'RA' and header['CRVAL1'] == 0 and
header['RA'] != 0):
header['CRVAL1'] = header['RA']
header['CRVAL2'] = header['DEC']
# Copied from the type 2 reader:
# Use the appropriate projection type
ptyp = header['PTYP']
for kw in header:
if 'CTYPE' in kw:
if header[kw].strip() in cel_types:
n_dashes = 5-len(header[kw].strip())
header[kw] = header[kw].strip()+ '-'*n_dashes + _proj_dict[ptyp]
other_info = np.fromfile(lf, count=7, dtype='float32') # 121-end
if not np.all(other_info == 0):
warnings.warn("Found additional information in the last 7 bytes")
endpoint = 508
if lf.tell() != endpoint:
raise ValueError("Header was not parsed correctly")
data = np.fromfile(lf, count=naxis1*naxis2*naxis3, dtype='float32')
data[data == bval] = np.nan
# for no apparent reason, y and z are 1-indexed and x is zero-indexed
if (wmin-1,zmin-1,ymin-1,xmin) != np.unravel_index(np.nanargmin(data),
[naxis4,naxis3,naxis2,naxis1]):
warnings.warn("Data min location does not match that on file. "
"Possible error reading data.")
if (wmax-1,zmax-1,ymax-1,xmax) != np.unravel_index(np.nanargmax(data),
[naxis4,naxis3,naxis2,naxis1]):
warnings.warn("Data max location does not match that on file. "
"Possible error reading data.")
if np.nanmax(data) != vmax:
warnings.warn("Data max does not match that on file. "
"Possible error reading data.")
if np.nanmin(data) != vmin:
warnings.warn("Data min does not match that on file. "
"Possible error reading data.")
return data.reshape([naxis4,naxis3,naxis2,naxis1]),header
# debug
#return data.reshape([naxis3,naxis2,naxis1]), header, hdr_f, hdr_s, hdr_i, hdr_d, hdr_d_2
def read_lmv_tofits(fileobj):
from astropy.io import fits
data,header = read_lmv(fileobj)
# LMV may contain extra dimensions that are improperly labeled
data = data.squeeze()
bad_kws = ['NAXIS4','CRVAL4','CRPIX4','CDELT4','CROTA4','CUNIT4','CTYPE4']
cards = [fits.header.Card(keyword=k, value=v[0], comment=v[1])
if isinstance(v, tuple) else
fits.header.Card(''.join(s for s in k if s in string.printable),
''.join(s for s in v if s in string.printable)
if isinstance(v, str) else v)
for k,v in header.items()
if k not in bad_kws]
Header = fits.Header(cards)
hdu = fits.PrimaryHDU(data=data, header=Header)
return hdu
def load_lmv_cube(fileobj, target_cls=None, use_dask=None):
hdu = read_lmv_tofits(fileobj)
meta = {'filename':fileobj.name}
return load_fits_cube(hdu, meta=meta, use_dask=use_dask)
def _read_byte(f):
'''Read a single byte (from idlsave)'''
return np.uint8(struct.unpack('=B', f.read(4)[:1])[0])
def _read_int16(f):
'''Read a signed 16-bit integer (from idlsave)'''
return np.int16(struct.unpack('=h', f.read(4)[2:4])[0])
def _read_int32(f):
'''Read a signed 32-bit integer (from idlsave)'''
return np.int32(struct.unpack('=i', f.read(4))[0])
def _read_int64(f):
'''Read a signed 64-bit integer '''
return np.int64(struct.unpack('=q', f.read(8))[0])
def _read_float32(f):
'''Read a 32-bit float (from idlsave)'''
return np.float32(struct.unpack('=f', f.read(4))[0])
def _read_string(f, size):
'''Read a string of known maximum length'''
return f.read(size).decode('utf-8').strip()
def _read_float64(f):
'''Read a 64-bit float (from idlsave)'''
return np.float64(struct.unpack('=d', f.read(8))[0])
def _check_val(name, got,expected):
if got != expected:
log.warning("{2} = {0} instead of {1}".format(got, expected, name))
def read_lmv_type2(lf):
""" See image_def.f90 """
header = {}
lf.seek(12)
# DONE before integer(kind=4) :: ijtyp(3) = 0 ! 1 Image Type
# fmt probably matters! Default is "r4", i.e. float32 data, but could be float64
fmt = _read_int32(lf) # 4
# number of data blocks
ndb = _read_int64(lf) # 5
nhb = _read_int32(lf) # 7
ntb = _read_int32(lf) # 8
version_gdf = _read_int32(lf) # 9
if version_gdf != 20:
raise TypeError("Trying to read a version-2 file, but the version"
" number is {0} (should be 20)".format(version_gdf))
type_gdf = _read_int32(lf) # 10
dim_start = _read_int32(lf) # 11
pad_trail = _read_int32(lf) # 12
if dim_start % 2 == 0:
log.warning("Got even dim_start in lmv cube: this is not expected.")
if dim_start > 17:
log.warning("dim_start > 17 in lmv cube: this is not expected.")
lf.seek(16*4)
gdf_maxdims=7
dim_words = _read_int32(lf) # 17
if dim_words != 2*gdf_maxdims+2:
log.warning("dim_words = {0} instead of {1}".format(dim_words,
gdf_maxdims*2+2))
blan_start = _read_int32(lf) # 18
if blan_start != dim_start+dim_words+2:
log.warning("blan_star = {0} instead of {1}".format(blan_start,
dim_start+dim_words+2))
mdim = _read_int32(lf) # 19
ndim = _read_int32(lf) # 20
dims = np.fromfile(lf, count=gdf_maxdims, dtype='int64')
if np.count_nonzero(dims) != ndim:
raise ValueError("Disagreement between ndims and number of nonzero dims.")
header['NAXIS'] = ndim
valid_dims = []
for ii,dim in enumerate(dims):
if dim != 0:
header['NAXIS{0}'.format(ii+1)] = dim
valid_dims.append(ii)
blan_words = _read_int32(lf)
if blan_words != 2:
log.warning("blan_words = {0} instead of 2".format(blan_words))
extr_start = _read_int32(lf)
bval = _read_float32(lf) # blanking value
bval_tol = _read_float32(lf) # eval = tolerance
# FITS requires integer BLANKs
#header['BLANK'] = bval
extr_words = _read_int32(lf)
if extr_words != 6:
log.warning("extr_words = {0} instead of 6".format(extr_words))
coor_start = _read_int32(lf)
if coor_start != extr_start+extr_words+2:
log.warning("coor_start = {0} instead of {1}".format(coor_start,
extr_start+extr_words+2))
rmin = _read_float32(lf)
rmax = _read_float32(lf)
# position 168
minloc = _read_int64(lf)
maxloc = _read_int64(lf)
# lf.seek(184)
coor_words = _read_int32(lf)
if coor_words != gdf_maxdims*6:
log.warning("coor_words = {0} instead of {1}".format(coor_words,
gdf_maxdims*6))
desc_start = _read_int32(lf)
if desc_start != coor_start+coor_words+2:
log.warning("desc_start = {0} instead of {1}".format(desc_start,
coor_start+coor_words+2))
convert = np.fromfile(lf, count=3*gdf_maxdims, dtype='float64').reshape([gdf_maxdims,3])
# conversion of "convert" to CRPIX/CRVAL/CDELT below
desc_words = _read_int32(lf)
if desc_words != 3*(gdf_maxdims+1):
log.warning("desc_words = {0} instead of {1}".format(desc_words,
3*(gdf_maxdims+1)))
null_start = _read_int32(lf)
if null_start != desc_start+desc_words+2:
log.warning("null_start = {0} instead of {1}".format(null_start,
desc_start+desc_words+2))
ijuni = _read_string(lf, 12) # data unit
ijcode = [_read_string(lf, 12) for ii in range(gdf_maxdims)]
pad_desc = _read_int32(lf)
if ijuni.lower() in _bunit_dict:
header['BUNIT'] = (_bunit_dict[ijuni.lower()],
ijuni)
else:
header['BUNIT'] = ijuni
#! The first block length is thus
#! s_dim-1 + (2*mdim+4) + (4) + (8) + (6*mdim+2) + (3*mdim+5)
#! = s_dim-1 + mdim*(2+6+3) + (4+4+2+5+8)
#! = s_dim-1 + 11*mdim + 23
#! With mdim = 7, s_dim=11, this is 110 spaces
#! With mdim = 8, s_dim=11, this is 121 spaces
#! MDIM > 8 would NOT fit in one block...
#!
#! Block 2: Ancillary information
#!
#! The same logic of Length + Pointer is used there too, although the
#! length are fixed. Note rounding to even number for the pointer offsets
#! in order to preserve alignement...
#!
lf.seek(512)
posi_words = _read_int32(lf)
_check_val('posi_words', posi_words, 15)
proj_start = _read_int32(lf)
source_name = _read_string(lf, 12)
header['OBJECT'] = source_name
coordinate_system = _read_string(lf, 12)
header['RA'] = _read_float64(lf)
header['DEC'] = _read_float64(lf)
header['LII'] = _read_float64(lf)
header['BII'] = _read_float64(lf)
header['EPOCH'] = _read_float32(lf)
#pad_posi = _read_float32(lf)
#print pad_posi
#raise ValueError("pad_posi should probably be 0?")
#! PROJECTION
#integer(kind=4) :: proj_words = 9 ! Projection length: 9 used + 1 padding
#integer(kind=4) :: spec_start !! = proj_start + 12
#real(kind=8) :: a0 = 0.d0 ! 89 X of projection center
#real(kind=8) :: d0 = 0.d0 ! 91 Y of projection center
#real(kind=8) :: pang = 0.d0 ! 93 Projection angle
#integer(kind=4) :: ptyp = p_none ! 88 Projection type (see p_... codes)
#integer(kind=4) :: xaxi = 0 ! 95 X axis
#integer(kind=4) :: yaxi = 0 ! 96 Y axis
#integer(kind=4) :: pad_proj
#!
proj_words = _read_int32(lf)
spec_start = _read_int32(lf)
_check_val('spec_start', spec_start, proj_start+proj_words+2)
if proj_words == 9:
header['PROJ_A0'] = _read_float64(lf)
header['PROJ_D0'] = _read_float64(lf)
header['PROJPANG'] = _read_float64(lf)
ptyp = _read_int32(lf)
header['PROJXAXI'] = _read_int32(lf)
header['PROJYAXI'] = _read_int32(lf)
elif proj_words != 0:
raise ValueError("Invalid # of projection keywords")
for kw in header:
if 'CTYPE' in kw:
if header[kw].strip() in cel_types:
n_dashes = 5-len(header[kw].strip())
header[kw] = header[kw].strip()+ '-'*n_dashes + _proj_dict[ptyp]
for ii,((ref,val,inc),code) in enumerate(zip(convert,ijcode)):
if ii in valid_dims:
# jul14a gio/to_imfits.f90 line 284-313
if ptyp != 0 and (ii+1) in (header['PROJXAXI'],
header['PROJYAXI']):
#! Compute reference pixel so that VAL(REF) = 0
ref = ref - val/inc
if (ii+1) == header['PROJXAXI']:
val = header['PROJ_A0']
elif (ii+1) == header['PROJYAXI']:
val = header['PROJ_D0']
else:
raise ValueError("Impossible state - code bug.")
val = val*r2deg
inc = inc*r2deg
rota = r2deg*header['PROJPANG']
elif code in ('RA', 'L', 'B', 'DEC', 'LII', 'BII', 'GLAT',
'GLON', 'LAT', 'LON'):
val = val*r2deg
inc = inc*r2deg
rota = 0.0
# These are not implemented: prefer to maintain original units (we're
# reading in to spectral_cube after all, no need to change units until the
# output step)
#elseif (code.eq.'FREQUENCY') then
#val = val*1.0d6 ! MHz to Hz
#inc = inc*1.0d6
#elseif (code.eq.'VELOCITY') then
#code = 'VRAD' ! force VRAD instead of VELOCITY for CASA
#val = val*1.0d3 ! km/s to m/s
#inc = inc*1.0d3
header['CRPIX{0}'.format(ii+1)] = ref
header['CRVAL{0}'.format(ii+1)] = val
header['CDELT{0}'.format(ii+1)] = inc
for ii,ctype in enumerate(ijcode):
if ii in valid_dims:
header['CTYPE{0}'.format(ii+1)] = _ctype_dict[ctype]
header['CUNIT{0}'.format(ii+1)] = _cunit_dict[ctype]
spec_words = _read_int32(lf)
reso_start = _read_int32(lf)
_check_val('reso_start', reso_start, proj_start+proj_words+2+spec_words+2)
if spec_words == 14:
header['FRES'] = _read_float64(lf)
header['FIMA'] = _read_float64(lf)
header['FREQ'] = _read_float64(lf)
header['VRES'] = _read_float32(lf)
header['VOFF'] = _read_float32(lf)
header['DOPP'] = _read_float32(lf)
header['FAXI'] = _read_int32(lf)
header['LINENAME'] = _read_string(lf, 12)
header['VTYPE'] = _read_int32(lf)
elif spec_words != 0:
raise ValueError("Invalid # of spectroscopic keywords")
#! SPECTROSCOPY
#integer(kind=4) :: spec_words = 14 ! Spectroscopy length: 14 used
#integer(kind=4) :: reso_start !! = spec_words + 16
#real(kind=8) :: fres = 0.d0 !101 Frequency resolution
#real(kind=8) :: fima = 0.d0 !103 Image frequency
#real(kind=8) :: freq = 0.d0 !105 Rest Frequency
#real(kind=4) :: vres = 0.0 !107 Velocity resolution
#real(kind=4) :: voff = 0.0 !108 Velocity offset
#real(kind=4) :: dopp = 0.0 ! Doppler factor
#integer(kind=4) :: faxi = 0 !109 Frequency axis
#integer(kind=4) :: ijlin(3) = 0 ! 98 Line name
#integer(kind=4) :: vtyp = vel_unk ! Velocity type (see vel_... codes)
reso_words = _read_int32(lf)
nois_start = _read_int32(lf)
_check_val('nois_start', nois_start, proj_start+proj_words+2+spec_words+2+reso_words+2)
if reso_words == 3:
header['BMAJ'] = _read_float32(lf)
header['BMIN'] = _read_float32(lf)
header['BPA'] = _read_float32(lf)
#pad_reso = _read_float32(lf)
elif reso_words != 0:
raise ValueError("Invalid # of resolution keywords")
#! RESOLUTION
#integer(kind=4) :: reso_words = 3 ! Resolution length: 3 used + 1 padding
#integer(kind=4) :: nois_start !! = reso_words + 6
#real(kind=4) :: majo = 0.0 !111 Major axis
#real(kind=4) :: mino = 0.0 !112 Minor axis
#real(kind=4) :: posa = 0.0 !113 Position angle
#real(kind=4) :: pad_reso
nois_words = _read_int32(lf)
astr_start = _read_int32(lf)
_check_val('astr_start', astr_start, proj_start+proj_words+2+spec_words+2+reso_words+2+nois_words+2)
if nois_words == 2:
header['NOISE_T'] = (_read_float32(lf), "Theoretical Noise")
header['NOISERMS'] = (_read_float32(lf), "Measured (RMS) noise")
elif nois_words != 0:
raise ValueError("Invalid # of noise keywords")
#! NOISE
#integer(kind=4) :: nois_words = 2 ! Noise section length: 2 used
#integer(kind=4) :: astr_start !! = s_nois + 4
#real(kind=4) :: noise = 0.0 ! 115 Theoretical noise
#real(kind=4) :: rms = 0.0 ! 116 Actual noise
astr_words = _read_int32(lf)
uvda_start = _read_int32(lf)
_check_val('uvda_start', uvda_start, proj_start+proj_words+2+spec_words+2+reso_words+2+nois_words+2+astr_words+2)
if astr_words == 3:
header['MURA'] = _read_float32(lf)
header['MUDEC'] = _read_float32(lf)
header['PARALLAX'] = _read_float32(lf)
elif astr_words != 0:
raise ValueError("Invalid # of astrometry keywords")
#! ASTROMETRY
#integer(kind=4) :: astr_words = 3 ! Proper motion section length: 3 used + 1 padding
#integer(kind=4) :: uvda_start !! = s_astr + 4
#real(kind=4) :: mura = 0.0 ! 118 along RA, in mas/yr
#real(kind=4) :: mudec = 0.0 ! 119 along Dec, in mas/yr
#real(kind=4) :: parallax = 0.0 ! 120 in mas
#real(kind=4) :: pad_astr
#! real(kind=4) :: pepoch = 2000.0 ! 121 in yrs ?
code_uvt_last=25
uvda_words = _read_int32(lf)
void_start = _read_int32(lf)
_check_val('void_start', void_start, proj_start + proj_words + 2 +
spec_words + 2 + reso_words + 2 + nois_words + 2 + astr_words +
2 + uvda_words + 2)
if uvda_words == 18+2*code_uvt_last:
version_uv = _read_int32(lf)
nchan = _read_int32(lf)
nvisi = _read_int64(lf)
nstokes = _read_int32(lf)
natom = _read_int32(lf)
basemin = _read_float32(lf)
basemax = _read_float32(lf)
fcol = _read_int32(lf)
lcol = _read_int32(lf)
nlead = _read_int32(lf)
ntrail = _read_int32(lf)
column_pointer = np.fromfile(lf, count=code_uvt_last, dtype='int32')
column_size = np.fromfile(lf, count=code_uvt_last, dtype='int32')
column_codes = np.fromfile(lf, count=nlead+ntrail, dtype='int32')
column_types = np.fromfile(lf, count=nlead+ntrail, dtype='int32')
order = _read_int32(lf)
nfreq = _read_int32(lf)
atoms = np.fromfile(lf, count=4, dtype='int32')
elif uvda_words != 0:
raise ValueError("Invalid # of UV data keywords")
#! UV_DATA information
#integer(kind=4) :: uvda_words = 18+2*code_uvt_last ! Length of section: 14 used
#integer(kind=4) :: void_start !! = s_uvda + l_uvda + 2
#integer(kind=4) :: version_uv = code_version_uvt_current ! 1 version number. Will allow us to change the data format
#integer(kind=4) :: nchan = 0 ! 2 Number of channels
#integer(kind=8) :: nvisi = 0 ! 3-4 Independent of the transposition status
#integer(kind=4) :: nstokes = 0 ! 5 Number of polarizations
#integer(kind=4) :: natom = 0 ! 6. 3 for real, imaginary, weight. 1 for real.
#real(kind=4) :: basemin = 0. ! 7 Minimum Baseline
#real(kind=4) :: basemax = 0. ! 8 Maximum Baseline
#integer(kind=4) :: fcol ! 9 Column of first channel
#integer(kind=4) :: lcol ! 10 Column of last channel
#! The number of information per channel can be obtained by
#! (lcol-fcol+1)/(nchan*natom)
#! so this could allow to derive the number of Stokes parameters
#! Leading data at start of each visibility contains specific information
#integer(kind=4) :: nlead = 7 ! 11 Number of leading informations (at lest 7)
#! Trailing data at end of each visibility may hold additional information
#integer(kind=4) :: ntrail = 0 ! 12 Number of trailing informations
#!
#! Leading / Trailing information codes have been specified before
#integer(kind=4) :: column_pointer(code_uvt_last) = code_null ! Back pointer to the columns...
#integer(kind=4) :: column_size(code_uvt_last) = 0 ! Number of columns for each
#! In the data, we instead have the codes for each column
#! integer(kind=4) :: column_codes(nlead+ntrail) ! Start column for each ...
#! integer(kind=4) :: column_types(nlead+ntrail) /0,1,2/ ! Number of columns for each: 1 real*4, 2 real*8
#! Leading / Trailing information codes
#!
#integer(kind=4) :: order = 0 ! 13 Stoke/Channel ordering
#integer(kind=4) :: nfreq = 0 ! 14 ! 0 or = nchan*nstokes
#integer(kind=4) :: atoms(4) ! 15-18 Atom description
#!
#real(kind=8), pointer :: freqs(:) => null() ! (nchan*nstokes) = 0d0
#integer(kind=4), pointer :: stokes(:) => null() ! (nchan*nstokes) or (nstokes) = code_stoke
#!
#real(kind=8), pointer :: ref(:) => null()
#real(kind=8), pointer :: val(:) => null()
#real(kind=8), pointer :: inc(:) => null()
lf.seek(1024)
real_dims = dims[:ndim]
data = np.fromfile(lf, count=np.prod(real_dims),
dtype='float32').reshape(real_dims[::-1])
data[data==bval] = np.nan
return data,header
io_registry.register_reader('lmv', BaseSpectralCube, load_lmv_cube)
io_registry.register_reader('class_lmv', BaseSpectralCube, load_lmv_cube)
io_registry.register_identifier('lmv', BaseSpectralCube, is_lmv)
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