| Previous changeset 0:895a29ebd0c7 (2019-02-09) Next changeset 2:5bf8eb50b280 (2023-07-08) |
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Commit message:
"planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/count_objects/ commit 3d389fdec0db29cf6fbd783c0501455bf624fa90" |
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modified:
count_objects.py count_objects.xml |
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| diff -r 895a29ebd0c7 -r 664232d2a3f7 count_objects.py --- a/count_objects.py Sat Feb 09 14:34:18 2019 -0500 +++ b/count_objects.py Wed Dec 18 05:01:56 2019 -0500 |
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| @@ -4,14 +4,14 @@ import numpy as np import os import skimage.io -from skimage.measure import regionprops +from skimage.measure import regionprops parser = argparse.ArgumentParser(description='Count Objects') parser.add_argument('input_file', type=argparse.FileType('r'), help='Label input file') parser.add_argument('output_file', type=argparse.FileType('w'), help='Tabular output file') -args = parser.parse_args() +args = parser.parse_args() img_raw = skimage.io.imread(args.input_file.name) res = len(regionprops(img_raw)) |
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| diff -r 895a29ebd0c7 -r 664232d2a3f7 count_objects.xml --- a/count_objects.xml Sat Feb 09 14:34:18 2019 -0500 +++ b/count_objects.xml Wed Dec 18 05:01:56 2019 -0500 |
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| @@ -3,13 +3,14 @@ <requirements> <requirement type="package" version="0.14.2">scikit-image</requirement> <requirement type="package" version="1.15.4">numpy</requirement> + <requirement type="package" version="0.15.1">tifffile</requirement> </requirements> <command> <![CDATA[ python '$__tool_directory__/count_objects.py' '$input' '$output' ]]> </command> - <inputs> + <inputs> <param name="input" type="data" format="tiff" label="Source file" /> </inputs> <outputs> |