Comments (3)
isyntax2raw write_tiles /home/dilip/pathology/isyntax/abcd.isyntax /home/dilip/pathology/tile_image
It throw the error
...
raise IOError('Unknown template %r' % name)
OSError: Unknown template 'isyntax2raw.resources.ome_template'
We have seen this before with isyntax2raw installations from an egg, but it should have been fixed with #9. Can you provide the exact steps (including specific commands) that you used to download and install isyntax2raw?
When it successfully convert the image into tile then i apply the following command to convert tiles into OME-TIFF format
bin/raw2ometiff-master /home/dilip/pathology/tile_image /home/dilip/pyramid.ome.tiff
then it again throw the error
2020-04-01 20:21:27,944 [main] INFO org.perf4j.TimingLogger - start[1585752687893] time[49] tag[initialize]
Exception in thread "main" picocli.CommandLine$ExecutionException: Error while calling command (com.glencoesoftware.pyramid.PyramidFromDirectoryWriter@46238e3f): java.lang.RuntimeException: loci.formats.FormatException: Could not create an N5 reader
This usually means that the tiles were not written. Does the output of the ls -hl /home/dilip/pathology/tile_image/
command show that there is a pyramid.n5
directory? If not, the tiles were not written and raw2ometiff
should not be run.
from isyntax2raw.
Can you provide the exact steps (including specific commands) that you used to download and install isyntax2raw?
First I download the isyntax2raw.
After that unzip the zip file then i apply following command to install isyntax2raw
$ cd isyntax2raw-master
$ sudo python3 setup.py build
$ sudo python3 setup.py install
from isyntax2raw.
If you are having problems building from source, in particular with the XML templates, please install the prebuilt wheels from the releases:
from isyntax2raw.
Related Issues (9)
- ModuleNotFoundError: No module named 'pixelengine' in python while converting the phiips isyntax format file into OME-TIFF. HOT 8
- Cannot convert to formats other than n5. eg. .tiff, .png, .jpg
- Issues in installation of pathology sdk with anaconda HOT 1
- compatible to Phillips SDK 2.0 HOT 1
- i am facing issue module not found HOT 5
- Can't access download for phillips sdk HOT 1
- SDK Access HOT 2
- Ways to remove labelimage?
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from isyntax2raw.