Re: Bug when reading RGB TIFF files with ROWSPERSTRIP=1

Posted by Herbie on
URL: http://imagej.273.s1.nabble.com/Bug-when-reading-RGB-TIFF-files-with-ROWSPERSTRIP-1-tp5020468p5020508.html

Curtis,

please realize that I don't have any problems and I've even posted a
solution earlier in this thread.

It is Mark who is unhappy with this situation and he calls the
conversion from composite to RGB clumsy.

Apart from this, it appears as if ImageJ-1 can't open Mark's images
correctly and I agree that this looks like a bug because ImageJ-1
doesn't tell us that it is unable to deal with this TIF-variety but
simply opens an incorrect image.

Regards

Herbie

:::::::::::::::::::::::::::::::::::::::::::
Am 17.04.18 um 19:49 schrieb Curtis Rueden:

> Hi Herbie,
>
>> Mark's TIF-images should appear as 24bit RGB images but BioFormats and
>> SCIFIO under Fiji opens them as 3-channel images.
>
> Bio-Formats and SCIFIO never open images as 24-bit RGB. Such images always
> open in composite mode. If needed, they can be converted to RGB as usual
> via the Image > Type > RGB command.
>
> Regards,
> Curtis
>
> --
> Curtis Rueden
> LOCI software architect - https://loci.wisc.edu/software
> ImageJ2 lead, Fiji maintainer - https://imagej.net/User:Rueden
> Did you know ImageJ has a forum? http://forum.imagej.net/
>
>
> On Tue, Apr 17, 2018 at 11:41 AM, Herbie <[hidden email]> wrote:
>
>> Good day Curtis!
>>
>> "[...] and they will open correctly."
>>
>> Mark's images don't open correctly, neither with BioFormats nor with
>> SCIFIO under Fiji.
>>
>> Mark's TIF-images should appear as 24bit RGB images but BioFormats and
>> SCIFIO under Fiji opens them as 3-channel images.
>>
>> Regards
>>
>> Herbie
>>
>> :::::::::::::::::::::::::::::::::::::::::::
>> Am 17.04.18 um 17:54 schrieb Curtis Rueden:
>>
>>> Hi Mark,
>>>
>>>
>>> It looks like I need ImageJ2 to try that, right?
>>>>
>>>
>>> Yes. The easiest way to get ImageJ2 right now is to download Fiji from
>>> https://fiji.sc/#download.
>>>
>>> Herbie wrote:
>>>
>>>> I see no advantage compared to BioFormats.
>>>>
>>>
>>> The advantage is that enabling the "Use SCIFIO when opening files" option
>>> will use SCIFIO for drag-and-drop and other integrated file opening
>>> functions. So you can drag-and-drop these TIFF files onto the ImageJ main
>>> window, and/or associate ImageJ as the default program to open them, and
>>> they will open correctly.
>>>
>>> Regards,
>>> Curtis
>>>
>>> --
>>> Curtis Rueden
>>> LOCI software architect - https://loci.wisc.edu/software
>>> ImageJ2 lead, Fiji maintainer - https://imagej.net/User:Rueden
>>> Did you know ImageJ has a forum? http://forum.imagej.net/
>>>
>>>
>>> On Tue, Apr 17, 2018 at 8:36 AM, Mark Rivers <[hidden email]>
>>> wrote:
>>>
>>> Hi Curtis,
>>>>
>>>> If you check the option "Use SCIFIO when opening files (BETA!)" in Edit >
>>>>> Options > ImageJ2..., TIFF files will be opened using the SCIFIO
>>>>> library,
>>>>> which has different behavior than plain ImageJ 1.x does.
>>>>>
>>>>
>>>> Thanks for the suggestion.  It looks like I need ImageJ2 to try that,
>>>> right?  I have never tried ImageJ2, and I am having trouble figuring out
>>>> how to install it.  I downloaded the latest release candidate zip from
>>>> from
>>>> Github (imagej-imageJ-2.0.0-rc-65) and unzipped it.  This is on Windows
>>>> 10,
>>>> 64-bit.  Do I need to install maven to build this?  Are there any
>>>> pre-built
>>>> install packages for ImageJ on Windows?
>>>>
>>>> Thanks,
>>>> Mark
>>>>
>>>> --
>>>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>>>>
>>>>
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>>> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>>>
>>>
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>
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