I have a multi-page TIFF file and I want to split it to several png files. Normally, imageMagick and graphicMagick tools are used to deal with it.
But error occurs. I already try to use many other codes like PIL but it does not work.
gm convert: JPEG compressed data indicates unexpected subsampling values. (OJPEGReadHeaderInfoSecStreamSof).
If your TIFF is poorly formed and generally "unhappy", you'll probably find that the tools that accompany libtiff are most permissive in their handling, so I would try:
tiffsplit document.tiff
Then use regular ImageMagick to convert the component parts to PNG individually.
Related
I have a multi-page tiff file (merged.tiff) out of which I need to extract individual images in their original format. PIL allows you to iterate through pages and writing them to disk in a format I need (png/jpg).
Ex:
from PIL import Image
img = Image.open('merged.tiff')
for i in range(img.n_frames):
try:
img.seek(i)
img.save(f'individual_{i}.jpg')
img.save(f'individual_{i}.png')
except EOFError:
break
But is there a way to know the original format of those images?
I have tried with tifffile and tiffany which allow me to convert the pages to a numpy array and then write to disk as an image, but they don't allow me to know the source format of the images contained in the TIFF file.
In the most general case, I believe this is impossible, because it is perfectly feasible to take, say, a JPEG image and include it in the TIFF file as an uncompressed RGB array.
Realistically, though, you should be able to look at some of the tags of the TIFF file, e.g. Compression, to make an educated guess about what the image used to be. Tools like tiffinfo and tiffdump (from the libtiff package) can be used to examine the TIFF file.
I'm trying to process some images and obtain numerical output. The skimage library only works with jpg format images. I only have tiff images on hand. Most converting functions work by loading a tiff image and saving it in jpg format. I do agree that the easiest way is
PIL.Image.open('pic.tiff').save('pic.jpg','jpeg')
I'm, on the other hand, trying to abstain from using hard drive for several reasons, but mainly due to the complexity file handling on heroku. Hence the question.
I wrote the following code:
from moviepy.editor import *
from PIL import Image
clip= VideoFileClip("video.mp4")
video= CompositeVideoClip([clip])
video.write_videofile("video_new.mp4",fps=clip.fps)
then to check whether the frames have changed or not and if changed, which function changed them, i retrieved the first frame of 'clip', 'video' and 'video_new.mp4' and compared them:
clip1= VideoFileClip("video_new.mp4")
img1= clip.get_frame(0)
img2= video.get_frame(0)
img3= clip1.get_frame(0)
a=img1[0,0,0]
b=img2[0,0,0]
c=img3[0,0,0]
I found that a=24, b=24, but c=26....infact on running a array compare loop i found that 'img1' and 'img2' were identical but 'img3' was different.
I suspect that the function video.write_videofile is responsible for the change in array. But i dont know why...Can anybody explain this to me and also suggest a way to write clips without changing their frames?
PS: i read the docs of 'VideoFileClip', 'FFMPEG_VideoWriter', 'FFMPEG_VideoReader' but could not find anything useful...I need to read the exact frame as it was before writing in a code I'm working on. Please, suggest me a way.
Like JPEG, MPEG-4 uses lossy compression, so it's not surprising that the frames read from "video_new.mp4" are not perfectly identical to those in "video.mp4". And as well as the variations caused purely by the lossy compression there are also variations that arise due to the wide variety of encoding options that can be used by programs that write MPEG data.
If you really need to be able to read back the exact same frame data that you write then you will have to use a different file format, but be warned: your files will be huge!
The choice of video format partly depends on what the image data is like and on what you want to do with it. If the data uses 256 colours or less, and you don't intend to perform transformations on it that will modify the colours, a simple GIF anim is a good choice. But bear in mind that even something like non-integer scaling modifies colours.
If you want to analyze the image data and transform it in various ways, it makes sense to use a format with better colour support than GIF, eg a stream of PNG images, which I assume is what Zulko mentions in his answer. FWIW, there's an anim format related to PNG called MNG, but it is not well supported or widely known.
Another option is to use a stream of PPM images, or maybe even a stream of YUV data, which is useful for certain kinds of analysis and convenient if you do intend to encode as MPEG for final consumption. The PPM format is very simple and easy to work with; YUV is slightly messy since it's a raw format with no header data, so you have to keep track of the image size and resolution data yourself.
The file size of PPM or YUV streams is large, since they incorporate no compression at all, but of course they can be compressed using standard compression techniques, if you want to save a little space when saving them to disk. OTOH, typical video processing workflows that use such streams often don't bother writing them to disk: they are sent in pipelines (perhaps using named pipes), so the file size is (mostly) irrelevant.
Although such formats take up a lot of space compared to MPEG-based files, they are far superior for use as intermediate formats while performing image data analysis and transformation, since every time you write & read back MPEG you are losing a little bit of quality.
I assume that you intend to do your image data analysis and transformations using PIL/Pillow. But you can also work with PPM & YUV streams using the ffmpeg / avconv command line programs; and the ffmpeg family happily work with sets of individual image files and GIF anims, too.
You can have lossless compression with the 'png' codec:
clip.write_videoclip('clip_new.avi', codec='png')
EDIT #PM 2Ring: when you write the line above, it makes a video that is compressed using the png algortihm (I'm not sure whether each frame is a png or if it's more subtle).
We got 50TB of 16bit uncompressed TIF images from a industrial sensor in our server, and we want to compress them all with lossless zip compression using python. Using python because it's easier to use Python to communicate our database.
However after hours of search and documentation reading, I found that there's not even a matured python library that can convert 16bit TIF into zip compressed tif. The latest PIL cannot write compressed tif, OpenCV hardcoded output file into LZW tif not zip(deflate). And there is no sufficient documentation in smc.freeimage, PythonImageMagick so I don't know if they can do it. I also found this tifffile.py, there seems something about compression in its source code, but there is no example code that let me understand how to config compression option for output.
Of course I can use an external executable, but I just don't want to use python as scripting language here.
So that I really appreciate if anyone give me an efficient example here, thanks.
Update:
cgohlke's code works, here I provide another light weight solution.
Checkout the patched pythontifflib code from here https://github.com/delmic/pylibtiff.
The original PythonTiffLib from google code doesn't handle RGB information well and it didn't work on my data, this patched version works, however because the code is very old, it implies PythonTiffLib may be not maintained very well.
Use the code like this:
from libtiff import TIFF
tif = TIFF.open('Image.tiff', mode='r')
image = tif.read_image()
tifw = TIFF.open('testpylibtiff.tiff', mode='w')
tifw.write_image(image, compression='deflate', write_rgb=True)
PythonMagick works for me on Windows:
from PythonMagick import Image, CompressionType
im = Image('tiger-rgb-strip-contig-16.tif')
im.compressType(CompressionType.ZipCompression)
im.write("tiger-rgb-strip-contig-16-zip.tif")
Scikit-image includes a wrapper for the FreeImage library:
import skimage.io._plugins.freeimage_plugin as fi
im = fi.read('tiger-rgb-strip-contig-16.tif')
fi.write(im, 'tiger-rgb-strip-contig-16-zip.tif',
fi.IO_FLAGS.TIFF_ADOBE_DEFLATE)
Or via tifffile.py, 2013.11.03 or later:
from tifffile import imread, imsave
im = imread('tiger-rgb-strip-contig-16.tif')
imsave("tiger-rgb-strip-contig-16-zip.tif", im, compress=6)
These might not preserve all other TIFF tags or properties but that wasn't specified in the question.
I'm writing a Python script that deals with images. Is there a module that can compress an image without putting it into an archive, and decompress it back? (e.g. A 1MB image is now 0.8MB after compression, then 1MB after decompression).
Can I see example code of compressing and decompressing an image in Python without the use of archives?
I've already taken a look at some modules, but those compress strings.
You probably want to take a look at the Python Image Library (PIL), and the PNG and JPEG formats.
The PIL Image.save() method will let you save PNG or JPEG images.
PNG - Lossless, good for "cartoony"/logo images with solid colors or small numbers of colors.
JPEG - Lossy, good for photos, images with lots "going on".
Modern image formats such PNG and JPEG are already compressed and my general recommendation is take Brendan Long's advice and use those formats and exploit all the work that's been put into them.
That said, if you want to compress the contents of any arbitrary file in Python, here's a very simple example:
import zlib
with open("MyImage.jpg", "rb") as in_file:
compressed = zlib.compress(in_file.read(), 9)
with open("MyCompressedFile", "wb") as out_file:
out_file.write(compressed)