[SOLVED] Pictures from 'Annals of Internal Medicine' don't display properly

RandomTroll · 07-02-2019, 08:25 PM

When I try to display a picture from 'Annals of Internal Medicine', such as the one associated with https://annals.org/aim/fullarticle/2...m-grand-rounds (humorous, not medical) , fbi gives me an error, ImageMagick displays it in reverse colors. Firefox gets it right. Does anyone see what the problem is?

frankbell · 07-02-2019, 09:32 PM

I downloaded the image and opened it in Firefox, Kolourpaint, Krita, Geegie, Okular, and Gwenview, and the colors looked the same in each.

In ImageMagick, though, the colors were indeed reversed.

I have no idea why. I usually use GIMP.

John VV · 07-02-2019, 09:52 PM

i can confirm "display" reverses the color and so dose Nip2

gimp , Gmic , Gwenview, Okular all display it correctly

and "gdalinfo" looks fine to me

Code:

gdalinfo g180047ff1_panel_1.jpeg
Driver: JPEG/JPEG JFIF
Files: g180047ff1_panel_1.jpeg
Size is 1024, 1432
Coordinate System is `'
Metadata:
  EXIF_BitsPerSample=8 8 8 8
  EXIF_ColorSpace=65535
  EXIF_Compression=1
  EXIF_DateTime=2019:06:20 11:10:46
  EXIF_Orientation=1
  EXIF_PhotometricInterpretation=5
  EXIF_PixelXDimension=1024
  EXIF_PixelYDimension=1432
  EXIF_PlanarConfiguration=1
  EXIF_ResolutionUnit=2
  EXIF_SamplesPerPixel=4
  EXIF_Software=Adobe Photoshop CS4 Windows
  EXIF_XResolution=(300)
  EXIF_YResolution=(300)
Image Structure Metadata:
  COMPRESSION=JPEG
  INTERLEAVE=PIXEL
  SOURCE_COLOR_SPACE=YCbCrK
Corner Coordinates:
Upper Left  (    0.0,    0.0)
Lower Left  (    0.0, 1432.0)
Upper Right ( 1024.0,    0.0)
Lower Right ( 1024.0, 1432.0)
Center      (  512.0,  716.0)
Band 1 Block=1024x1 Type=Byte, ColorInterp=Red
  Overviews: 512x716, 256x358, 128x179, 114x160
  Image Structure Metadata:
    COMPRESSION=JPEG
Band 2 Block=1024x1 Type=Byte, ColorInterp=Green
  Overviews: 512x716, 256x358, 128x179, 114x160
  Image Structure Metadata:
    COMPRESSION=JPEG
Band 3 Block=1024x1 Type=Byte, ColorInterp=Blue
  Overviews: 512x716, 256x358, 128x179, 114x160
  Image Structure Metadata:
    COMPRESSION=JPEG

except for this

Quote:

EXIF_BitsPerSample=8 8 8 8

there is an alpha channel in the image and both display and nip2 do not handle this well

once i flattened the image ( remove the alpha channel)
"display" showed it correctly

RandomTroll · 07-03-2019, 08:18 AM

Quote:

Originally Posted by frankbell

I downloaded the image and opened it in Firefox, Kolourpaint, Krita, Geegie, Okular, and Gwenview, and the colors looked the same in each.

Those all use X, which I try not to use.

Quote:

Originally Posted by John VV

gimp , Gmic , Gwenview, Okular all display it correctly

X

Quote:

Originally Posted by John VV

there is an alpha channel in the image and both display and nip2 do not handle this well

once i flattened the image ( remove the alpha channel)
"display" showed it correctly

Thanks. I already fix-up articles from 'Annals', so I can add this to the process. How do you remove the alpha channel?

John VV · 07-04-2019, 10:59 AM

Quote:

How do you remove the alpha channel?

in gimp

open the image in gimp and select

image / flatten image

Then resave it

RandomTroll · 07-06-2019, 12:18 AM

Quote:

Originally Posted by John VV

in gimp

I want something automatic, and not-X

Code:

convert -alpha deactivate image.jpeg

and

Code:

convert -flatten image.jpeg

don't work.

crts · 07-06-2019, 03:19 AM

Try this:

Code:

convert filename.jpg -alpha off filename.jpg

or

Code:

convert filename.jpg -alpha off filename.no-alpha.jpg

if you want to keep the original.

ehartman · 07-06-2019, 03:19 AM

Quote:

Originally Posted by RandomTroll

I want something automatic, and not-X

Code:

convert -alpha deactivate image.jpeg

and

Code:

convert -flatten image.jpeg

don't work.

According to the man page convert needs BOTH input and output file in the commandline.
So your usage with only a single filename will not work.

RandomTroll · 07-06-2019, 09:41 AM

Quote:

Originally Posted by ehartman

According to the man page convert needs BOTH input and output file in the commandline.
So your usage with only a single filename will not work.

I omitted the output file name in my examples inadvertently. In practice I used them.

Quote:

Originally Posted by crts

Try this:

Code:

convert filename.jpg -alpha off filename.jpg

or

Code:

convert filename.jpg -alpha off filename.no-alpha.jpg

if you want to keep the original.

alpha off doesn't work.

crts · 07-06-2019, 06:21 PM

Two steps worked for me:

Code:

convert filename.jpeg -alpha off filename.png
convert filename.png -alpha off filename.no-alpha.jpeg

The *.png file was displayed correctly for me, so you might want to leave it as *.png, if this format is acceptable.

It also works if I omit the '-alpha off' option but I guess it won't hurt to leave it as is.

RandomTroll · 07-07-2019, 06:31 AM

Quote:

Originally Posted by crts

Two steps worked for me:

I've always known that I could convert to a different format then back. I want to know what the difference is. file reports:

Quote:

DrMomGrandRounds_AIM-20190702.jpeg: JPEG image data, Exif standard: [TIFF image data, little-endian, direntries=15, height=1432, bps=194, compression=none, PhotometricIntepretation=CMYK, orientation=upper-left, width=1024], baseline, precision 8, 1024x1432, components 4
DrMomGrandRounds_AIM-20190702.jpg: JPEG image data, JFIF standard 1.01, resolution (DPI), density 300x300, segment length 16, baseline, precision 8, 1024x1432, component

ImageMagick & fbi know about EXIF; I have the EXIF libraries installed and they link to them. I can convert to a TIFF file that works. Is it an improperly-interpreted PhotometricIntepretation? Have they missed that and tried to interpret it as RGB? That's my best guess.

crts · 07-08-2019, 03:51 AM

So, first you have been presented with a solution which was not good enough because

Quote:

Originally Posted by RandomTroll

I want something automatic, and not-X

and the solution you had in mind did not work as intended:

Quote:

Originally Posted by RandomTroll

Code:

convert -alpha deactivate image.jpeg

and

Code:

convert -flatten image.jpeg

don't work.

Then your syntax has been corrected for the 'convert' command and you have subsequently been offered a solution that does not require X and can be very well automated, thus fulfilling your requrirement.

This, however, only lead to you posting that you "knew" that all along which contradicts your previous posts.

Quote:

Originally Posted by RandomTroll

I've always known that I could convert to a different format then back.

Please make up your mind about what you actually want and stop wasting everyones time. Thank you.

RandomTroll · 07-08-2019, 04:44 PM

Quote:

Originally Posted by crts

first you have been presented with a solution which was not good enough because

and the solution you had in mind did not work as intended:

Then your syntax has been corrected for the 'convert' command and you have subsequently been offered a solution that does not require X and can be very well automated, thus fulfilling your requrirement.

I did not ask for a solution: I asked what was wrong. I meant how fbi and ImageMagick mis-interpreted the image so as to display the colo(u)rs backwards.

Responders responded with solutions that I treated as diagnostics, pointed out that they didn't answer my question. That spun off into a discussion of solutions.

crts · 07-09-2019, 02:44 PM

Quote:

Originally Posted by RandomTroll

I did not ask for a solution: I asked what was wrong.

Sorry, but no, your initial post is not unambiguous in this regard and after you received answers on fixing/working around the issue you made three posts where you did not clarify that you are not looking for solutions. Especially in post #4 you are asking:

Quote:

Originally Posted by RandomTroll

How do you remove the alpha channel?

Even if your initial post would have been crystal clear on your requirement, this is definitely a follow up question. You also present your failed attempts in trying to remove the alpha channel which can only be understood as, well, you are looking for a solution to remove the alpha channel.

Quote:

Originally Posted by RandomTroll

Responders responded with solutions that I treated as diagnostics, pointed out that they didn't answer my question.

The only thing you pointed out was that you are not looking for solutions that require X:

Quote:

Originally Posted by RandomTroll

Those all use X, which I try not to use.

Quote:

Originally Posted by RandomTroll

I want something automatic, and not-X

Anyway, I did not see anything in the manpage that would explain this behaviour. No additional steps *should* be required - like passing some extra options - to display a JPEG image.
When I run 'identify' in a shell on the image then I get

Code:

$ identify annals.jpeg
annals.jpeg JPEG 1024x1432 1024x1432+0+0 8-bit CMYK 303KB 0.000u 0:00.009

It seems that ImageMagick falsely (??) identifies the color scheme as CMYK which may explain the behaviour we are seeing. At this point the best course of action might be to contact the developers and file a bug report.

PS:
I am using ImageMagick 6.9.4-9 on Slackware 14.2. You might want to try with a newer version before filing a Bug report and see if the issue still persists.

RandomTroll · 07-09-2019, 03:53 PM

Quote:

Originally Posted by crts

your initial post is not unambiguous in this regard

It is clear.

Quote:

Originally Posted by crts

after you received answers on fixing/working around the issue you made three posts where you did not clarify that you are not looking for solutions.

I thought it superfluous.

Quote:

Originally Posted by crts

Even if your initial post would have been crystal clear on your requirement, this is definitely a follow up question.

It was a follow-up question to test the hypothesis. A responder said it was the alpha channel. To test that hypothesis I had to know how to remove the alpha channel. The ImageMagick function that would seem to do that made no difference.

Quote:

Originally Posted by crts

You also present your failed attempts in trying to remove the alpha channel which can only be understood as, well, you are looking for a solution to remove the alpha channel.

A solution to remove the alpha channel, so as to test the hypothesis that the alpha channel was the problem.

Quote:

Originally Posted by crts

It seems that ImageMagick falsely (??) identifies the color scheme as CMYK

What makes you think the colo(u)r scheme isn't CMYK? file thinks it is.

Quote:

Originally Posted by crts

I am using ImageMagick 6.9.4-9 on Slackware 14.2. You might want to try with a newer version before filing a Bug report and see if the issue still persists.

I update to Slackware's latest every morning. Sometimes I'm a day behind. Latest made no difference.