Mercurial > repos > imgteam > imagecoordinates_flipaxis
changeset 3:984b342d03a6 draft default tip
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tree/master/tools/imagecoordinates_flipaxis/ commit 2286a6c9da88596349ed9d967c51541409c0a7bf
| author | imgteam |
|---|---|
| date | Mon, 13 Nov 2023 22:11:12 +0000 |
| parents | f8f1100d0701 |
| children | |
| files | imagecoordinates_flipaxis.py imagecoordinates_flipaxis.xml |
| diffstat | 2 files changed, 13 insertions(+), 8 deletions(-) [+] |
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--- a/imagecoordinates_flipaxis.py Wed Dec 18 05:02:25 2019 -0500 +++ b/imagecoordinates_flipaxis.py Mon Nov 13 22:11:12 2023 +0000 @@ -1,17 +1,17 @@ import argparse + import pandas as pd -def imagecoordinates_flipyaxis(input_file, output_file, image_height, offset=[0,0]): - df = pd.read_csv(input_file, sep='\t') +def imagecoordinates_flipyaxis(input_file, output_file, image_height, offset=[0, 0]): + df = pd.read_csv(input_file, sep='\t') - x = df.copy().y # create copy instead of view - df.y = image_height-(df.x + 1) + offset[1] # since maximal y index = height-1 + x = df.copy().y # create copy instead of view + df.y = image_height - (df.x + 1) + offset[1] # since maximal y index = height-1 df.x = x + offset[0] df.to_csv(output_file, sep="\t", index=False) - if __name__ == "__main__": parser = argparse.ArgumentParser() parser.add_argument('input_file', type=argparse.FileType('r'), help='original file') @@ -21,4 +21,3 @@ parser.add_argument('offset_y', type=int, help='offset in y direction (height)', default=0) args = parser.parse_args() imagecoordinates_flipyaxis(args.input_file.name, args.out_file_str, args.image_height, [args.offset_x, args.offset_y]) - # imagecoordinates_flipyaxis(args.input_file.name, args.out_file_str, int(args.image_height))
--- a/imagecoordinates_flipaxis.xml Wed Dec 18 05:02:25 2019 -0500 +++ b/imagecoordinates_flipaxis.xml Mon Nov 13 22:11:12 2023 +0000 @@ -1,5 +1,11 @@ -<tool id="imagecoordinates_flipaxis" name="Switch axis coordinates" version="0.1"> - <description>Switches the axes of an image and flips the y axis.</description> +<tool id="imagecoordinates_flipaxis" name="Switch axis coordinates" version="0.1-2"> + <description></description> + <edam_operations> + <edam_operation>operation_3443</edam_operation> + </edam_operations> + <xrefs> + <xref type="bio.tools">galaxy_image_analysis</xref> + </xrefs> <requirements> <requirement type="package" version="0.23.4" >pandas</requirement> </requirements>