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Update cr2fits

master
Pekka Helenius 5 years ago
parent
abb0c3368e
commit
557648d2a2
2 changed files with 6 additions and 381 deletions
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  1. +6
    -12
      cr2fits/PKGBUILD
  2. +0
    -369
      cr2fits/cr2fits.py

+ 6
- 12
cr2fits/PKGBUILD View File

@ -1,23 +1,17 @@
# Maintainer: Sabart Otto - Seberm <seberm[at]gmail[dot].com
pkgname=cr2fits
pkgver=1
pkgver=2.1.0
pkgrel=1
pkgdesc="A script to convert RAW images to FITS images."
url=()
url=(https://github.com/eaydin/cr2fits/)
arch=('any')
license=('GPL')
install=''
license=('MIT')
source=(https://github.com/eaydin/cr2fits/blob/master/cr2fits.py)
depends=('python2' 'python2-pyfits' 'dcraw' 'dolphin')
optdepends=()
conflicts=()
provides=''
makedepends=()
depends=('python' 'python-pyfits' 'dcraw' 'dolphin')
md5sums=('04924ee6fa2529d57e83603e73516984')
package() {
mkdir -p $pkgdir/usr/bin/
cp $srcdir/$pkgname.py $pkgdir/usr/bin/$pkgname.py
chmod 755 $pkgdir/usr/bin/$pkgname.py
}
md5sums=('04924ee6fa2529d57e83603e73516984')

+ 0
- 369
cr2fits/cr2fits.py View File

@ -1,369 +0,0 @@
#!/usr/bin/python2
# -*- coding: utf-8 -*-
# 3rd attempt
# 15th Feb 2012, 09:38AM
# http://eayd.in
# http://github.com/eaydin/cr2fits
### This script is redistributable in anyway.
### But it includes netpbmfile.py which is NOT written by M. Emre Aydin.
### It has its own copyright and it has been stated in the source code.
### BUT, there's nothing to worry about usage, laws etc.
### Enjoy.
sourceweb = "http://github.com/eaydin/cr2fits"
version = "1.0.3"
try :
from copy import deepcopy
import numpy, pyfits, subprocess, sys, re, datetime, math
except :
print("ERROR : Missing some libraries!")
print("Check if you have the following :\n\tnumpy\n\tpyfits\n\tdcraw")
print("For details : %s" % sourceweb)
raise SystemExit
### --- NETPBMFILE SOURCE CODE --- ###
# Copyright (c) 2011, Christoph Gohlke
# Copyright (c) 2011, The Regents of the University of California
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are met:
#
# * Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following disclaimer.
# * Redistributions in binary form must reproduce the above copyright
# notice, this list of conditions and the following disclaimer in the
# documentation and/or other materials provided with the distribution.
# * Neither the name of the copyright holders nor the names of any
# contributors may be used to endorse or promote products derived
# from this software without specific prior written permission.
#
# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
# AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
# ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE
# LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
# CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
# SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
# INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
# CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
# ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
# POSSIBILITY OF SUCH DAMAGE.
__all__ = ['NetpbmFile']
class NetpbmFile(object):
"""Read and write Netpbm PAM, PBM, PGM, PPM, files."""
_types = {b'P1': b'BLACKANDWHITE', b'P2': b'GRAYSCALE', b'P3': b'RGB',
b'P4': b'BLACKANDWHITE', b'P5': b'GRAYSCALE', b'P6': b'RGB',
b'P7 332': b'RGB', b'P7': b'RGB_ALPHA'}
def __init__(self, arg=None, **kwargs):
"""Initialize instance from filename, open file, or numpy array."""
for attr in ('header', 'magicnum', 'width', 'height', 'maxval',
'depth', 'tupltypes', '_filename', '_fileid', '_data'):
setattr(self, attr, None)
if arg is None:
self._fromdata([], **kwargs)
elif isinstance(arg, basestring):
self._fileid = open(arg, 'rb')
self._filename = arg
self._fromfile(self._fileid, **kwargs)
elif hasattr(arg, 'seek'):
self._fromfile(arg, **kwargs)
self._fileid = arg
else:
self._fromdata(arg, **kwargs)
def asarray(self, copy=True, cache=False, **kwargs):
"""Return image data from file as numpy array."""
data = self._data
if data is None:
data = self._read_data(self._fileid, **kwargs)
if cache:
self._data = data
else:
return data
return deepcopy(data) if copy else data
def write(self, arg, **kwargs):
"""Write instance to file."""
if hasattr(arg, 'seek'):
self._tofile(arg, **kwargs)
else:
with open(arg, 'wb') as fid:
self._tofile(fid, **kwargs)
def close(self):
"""Close open file. Future asarray calls might fail."""
if self._filename and self._fileid:
self._fileid.close()
self._fileid = None
def __del__(self):
self.close()
def _fromfile(self, fileid):
"""Initialize instance from open file."""
fileid.seek(0)
data = fileid.read(4096)
if (len(data) < 7) or not (b'0' < data[1:2] < b'8'):
raise ValueError("Not a Netpbm file:\n%s" % data[:32])
try:
self._read_pam_header(data)
except Exception:
try:
self._read_pnm_header(data)
except Exception:
raise ValueError("Not a Netpbm file:\n%s" % data[:32])
def _read_pam_header(self, data):
"""Read PAM header and initialize instance."""
regroups = re.search(
b"(^P7[\n\r]+(?:(?:[\n\r]+)|(?:#.*)|"
b"(HEIGHT\s+\d+)|(WIDTH\s+\d+)|(DEPTH\s+\d+)|(MAXVAL\s+\d+)|"
b"(?:TUPLTYPE\s+\w+))*ENDHDR\n)", data).groups()
self.header = regroups[0]
self.magicnum = b'P7'
for group in regroups[1:]:
key, value = group.split()
setattr(self, unicode(key).lower(), int(value))
matches = re.findall(b"(TUPLTYPE\s+\w+)", self.header)
self.tupltypes = [s.split(None, 1)[1] for s in matches]
def _read_pnm_header(self, data):
"""Read PNM header and initialize instance."""
bpm = data[1:2] in b"14"
regroups = re.search(b"".join((
b"(^(P[123456]|P7 332)\s+(?:#.*[\r\n])*",
b"\s*(\d+)\s+(?:#.*[\r\n])*",
b"\s*(\d+)\s+(?:#.*[\r\n])*" * (not bpm),
b"\s*(\d+)\s(?:\s*#.*[\r\n]\s)*)")), data).groups() + (1, ) * bpm
self.header = regroups[0]
self.magicnum = regroups[1]
self.width = int(regroups[2])
self.height = int(regroups[3])
self.maxval = int(regroups[4])
self.depth = 3 if self.magicnum in b"P3P6P7 332" else 1
self.tupltypes = [self._types[self.magicnum]]
def _read_data(self, fileid, byteorder='>'):
"""Return image data from open file as numpy array."""
fileid.seek(len(self.header))
data = fileid.read()
dtype = 'u1' if self.maxval < 256 else byteorder + 'u2'
depth = 1 if self.magicnum == b"P7 332" else self.depth
shape = [-1, self.height, self.width, depth]
size = numpy.prod(shape[1:])
if self.magicnum in b"P1P2P3":
data = numpy.array(data.split(None, size)[:size], dtype)
data = data.reshape(shape)
elif self.maxval == 1:
shape[2] = int(math.ceil(self.width / 8))
data = numpy.frombuffer(data, dtype).reshape(shape)
data = numpy.unpackbits(data, axis=-2)[:, :, :self.width, :]
else:
data = numpy.frombuffer(data, dtype)
data = data[:size * (data.size // size)].reshape(shape)
if data.shape[0] < 2:
data = data.reshape(data.shape[1:])
if data.shape[-1] < 2:
data = data.reshape(data.shape[:-1])
if self.magicnum == b"P7 332":
rgb332 = numpy.array(list(numpy.ndindex(8, 8, 4)), numpy.uint8)
rgb332 *= [36, 36, 85]
data = numpy.take(rgb332, data, axis=0)
return data
def _fromdata(self, data, maxval=None):
"""Initialize instance from numpy array."""
data = numpy.array(data, ndmin=2, copy=True)
if data.dtype.kind not in "uib":
raise ValueError("not an integer type: %s" % data.dtype)
if data.dtype.kind == 'i' and numpy.min(data) < 0:
raise ValueError("data out of range: %i" % numpy.min(data))
if maxval is None:
maxval = numpy.max(data)
maxval = 255 if maxval < 256 else 65535
if maxval < 0 or maxval > 65535:
raise ValueError("data out of range: %i" % maxval)
data = data.astype('u1' if maxval < 256 else '>u2')
self._data = data
if data.ndim > 2 and data.shape[-1] in (3, 4):
self.depth = data.shape[-1]
self.width = data.shape[-2]
self.height = data.shape[-3]
self.magicnum = b'P7' if self.depth == 4 else b'P6'
else:
self.depth = 1
self.width = data.shape[-1]
self.height = data.shape[-2]
self.magicnum = b'P5' if maxval > 1 else b'P4'
self.maxval = maxval
self.tupltypes = [self._types[self.magicnum]]
self.header = self._header()
def _tofile(self, fileid, pam=False):
"""Write Netbm file."""
fileid.seek(0)
fileid.write(self._header(pam))
data = self.asarray(copy=False)
if self.maxval == 1:
data = numpy.packbits(data, axis=-1)
data.tofile(fileid)
def _header(self, pam=False):
"""Return file header as byte string."""
if pam or self.magicnum == b'P7':
header = "\n".join(("P7",
"HEIGHT %i" % self.height,
"WIDTH %i" % self.width,
"DEPTH %i" % self.depth,
"MAXVAL %i" % self.maxval,
"\n".join("TUPLTYPE %s" % unicode(i) for i in self.tupltypes),
"ENDHDR\n"))
elif self.maxval == 1:
header = "P4 %i %i\n" % (self.width, self.height)
elif self.depth == 1:
header = "P5 %i %i %i\n" % (self.width, self.height, self.maxval)
else:
header = "P6 %i %i %i\n" % (self.width, self.height, self.maxval)
if sys.version_info[0] > 2:
header = bytes(header, 'ascii')
return header
def __str__(self):
"""Return information about instance."""
return unicode(self.header)
if sys.version_info[0] > 2:
basestring = str
unicode = lambda x: str(x, 'ascii')
### --- END OF NETPBMFILE SOURCE CODE --- ###
### CR2FITS SOURCE CODE ###
try :
cr2FileName = sys.argv[1]
colorInput = int(sys.argv[2]) # 0=R 1=G 2=B
except :
print("ERROR : You probably don't know how to use it?")
print("./cr2fits.py <cr2filename> <color-index>")
print("The <color-index> can take 3 values:0,1,2 for R,G,B respectively.")
print("Example :\n\t$ ./cr2fits.py myimage.cr2 1")
print("The above example will create 2 outputs.")
print("\tmyimage.ppm : The PPM, which you can delete.")
print("\tmyimage-G.fits : The FITS image in the Green channel, which is the purpose!")
print("For details : http://github.com/eaydin/cr2fits")
print("Version : %s" % version)
raise SystemExit
colors = {0:"Red",1:"Green",2:"Blue"}
colorState = any([True for i in colors.keys() if i == colorInput])
if colorState == False :
print("ERROR : Color value can be set as 0:Red, 1:Green, 2:Blue.")
raise SystemExit
print("Reading file %s...") % cr2FileName
try :
#Converting the CR2 to PPM
p = subprocess.Popen(["dcraw","-6","-j","-W",cr2FileName]).communicate()[0]
#Getting the EXIF of CR2 with dcraw
p = subprocess.Popen(["dcraw","-i","-v",cr2FileName],stdout=subprocess.PIPE)
cr2header = p.communicate()[0]
#Catching the Timestamp
m = re.search('(?<=Timestamp:).*',cr2header)
date1=m.group(0).split()
months = { 'Jan' : 1, 'Feb' : 2, 'Mar' : 3, 'Apr' : 4, 'May' : 5, 'Jun' : 6, 'Jul' : 7, 'Aug' : 8, 'Sep' : 9, 'Oct' : 10, 'Nov' : 11, 'Dec' : 12 }
date = datetime.datetime(int(date1[4]),months[date1[1]],int(date1[2]),int(date1[3].split(':')[0]),int(date1[3].split(':')[1]),int(date1[3].split(':')[2]))
date ='{0:%Y-%m-%d %H:%M:%S}'.format(date)
#Catching the Shutter Speed
m = re.search('(?<=Shutter:).*(?=sec)',cr2header)
shutter = m.group(0).strip()
#Catching the Aperture
m = re.search('(?<=Aperture: f/).*',cr2header)
aperture = m.group(0).strip()
#Catching the ISO Speed
m = re.search('(?<=ISO speed:).*',cr2header)
iso = m.group(0).strip()
#Catching the Focal length
m = re.search('(?<=Focal length: ).*(?=mm)',cr2header)
focal = m.group(0).strip()
#Catching the Original Filename of the cr2
m = re.search('(?<=Filename:).*',cr2header)
original_file = m.group(0).strip()
#Catching the Camera Type
m = re.search('(?<=Camera:).*',cr2header)
camera = m.group(0).strip()
except :
print("ERROR : Something went wrong with dcraw. Do you even have dcraw?")
raise SystemExit
print("Reading the PPM output...")
try :
#Reading the PPM
ppm_name = cr2FileName.split('.')[0] + '.ppm'
im_ppm = NetpbmFile(ppm_name).asarray()
except :
print("ERROR : Something went wrong while reading the PPM file.")
raise SystemExit
print("Extracting %s color channels... (may take a while)" % colors[colorInput])
try :
#Extracting the Green Channel Only
im_green = numpy.zeros((im_ppm.shape[0],im_ppm.shape[1]),dtype=numpy.uint16)
for row in xrange(0,im_ppm.shape[0]) :
for col in xrange(0,im_ppm.shape[1]) :
im_green[row,col] = im_ppm[row,col][colorInput]
except :
print("ERROR : Something went wrong while extracting color channels.")
raise SystemExit
print("Creating the FITS file...")
try :
#Creating the FITS File
hdu = pyfits.PrimaryHDU(im_green)
hdu.header.set('OBSTIME',date)
hdu.header.set('EXPTIME',shutter)
hdu.header.set('APERTUR',aperture)
hdu.header.set('ISO',iso)
hdu.header.set('FOCAL',focal)
hdu.header.set('ORIGIN',original_file)
hdu.header.set('FILTER',colors[colorInput])
hdu.header.set('CAMERA',camera)
hdu.header.add_comment('FITS File Created with cr2fits.py available at %s'%(sourceweb))
hdu.header.add_comment('cr2fits.py version %s'%(version))
hdu.header.add_comment('EXPTIME is in seconds.')
hdu.header.add_comment('APERTUR is the ratio as in f/APERTUR')
hdu.header.add_comment('FOCAL is in mm')
except :
print("ERROR : Something went wrong while creating the FITS file.")
raise SystemExit
print("Writing the FITS file...")
try :
hdu.writeto(cr2FileName.split('.')[0]+"-"+colors[colorInput][0]+'.fits')
except :
print("ERROR : Something went wrong while writing the FITS file. Maybe it already exists?")
raise SystemExit
print("Conversion successful!")

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