Tiling tiff files in Catmaid

John Roche

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Sep 18, 2019, 11:58:54 AM9/18/19

to CATMAID

Hi I'm having issues with slicing tiff files

i only have 1 file to test with

when I run

root@catmaid:/home/catmaid/data/project1/stack1# ./tile_stack test.tif 500 500

180 => 1

ls: cannot access '0-*.jpg': No such file or directory

convert-im6.q16: unable to open image `s_-1.ppm': No such file or directory @ error/blob.c/OpenBlob/2701.

convert-im6.q16: no images defined `small.jpg' @ error/convert.c/ConvertImageCommand/3258.

I get the following error

any help would be great :)

John

John Roche

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Sep 19, 2019, 6:40:55 AM9/19/19

to CATMAID

Just an update on this issue,

I was able to tile a tif file I found online but unable to tile the tif files I have, the files I have a quiet large ( 600mb)

can somebody show me the actual steps to tile a tif file?

when I tiled the example file I saw that it's split far apart, any idea why?

Regards,

John

example catmaid.PNG

John Roche

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Sep 19, 2019, 7:15:41 AM9/19/19

to CATMAID

Here's another error I'm getting

./tile_stack test2.tif 256 192

mkdir: cannot create directory ‘0’: File exists

convert-im6.q16: width or height exceeds limit `test2.tif' @ error/cache.c/OpenPixelCache/3839.

convert-im6.q16: no images defined `s_0.ppm' @ error/convert.c/ConvertImageCommand/3258.

identify-im6.q16: unable to open image `s_0.ppm': No such file or directory @ error/blob.c/OpenBlob/2701.

/home/catmaid/data/project3/stack1/tile: line 20: /(2**0): syntax error: operand expected (error token is "/(2**0)")

/home/catmaid/data/project3/stack1/tile: line 21: /(2**0): syntax error: operand expected (error token is "/(2**0)")

/home/catmaid/data/project3/stack1/tile: line 23: /256: syntax error: operand expected (error token is "/256")

/home/catmaid/data/project3/stack1/tile: line 24: *256: syntax error: operand expected (error token is "*256")

/home/catmaid/data/project3/stack1/tile: line 25: /256: syntax error: operand expected (error token is "/256")

/home/catmaid/data/project3/stack1/tile: line 26: *256: syntax error: operand expected (error token is "*256")

=>

convert-im6.q16: unable to open image `s_0.ppm': No such file or directory @ error/blob.c/OpenBlob/2701.

convert-im6.q16: no images defined `0.jpg' @ error/convert.c/ConvertImageCommand/3258.

ls: cannot access '0-*.jpg': No such file or directory

/home/catmaid/data/project3/stack1/tile: line 42: /2: syntax error: operand expected (error token is "/2")

/home/catmaid/data/project3/stack1/tile: line 43: /2: syntax error: operand expected (error token is "/2")

/home/catmaid/data/project3/stack1/tile: line 44: /256: syntax error: operand expected (error token is "/256")

/home/catmaid/data/project3/stack1/tile: line 45: *256: syntax error: operand expected (error token is "*256")

/home/catmaid/data/project3/stack1/tile: line 46: /256: syntax error: operand expected (error token is "/256")

/home/catmaid/data/project3/stack1/tile: line 47: *256: syntax error: operand expected (error token is "*256")

/home/catmaid/data/project3/stack1/tile: line 49: [: -ge: unary operator expected

convert-im6.q16: unable to open image `s_-1.ppm': No such file or directory @ error/blob.c/OpenBlob/2701.

convert-im6.q16: no images defined `small.jpg' @ error/convert.c/ConvertImageCommand/3258.

On Wednesday, 18 September 2019 16:58:54 UTC+1, John Roche wrote:

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