Mercurial > repos > jackcurragh > ribogalaxy_generate_custom_track
changeset 3:f46c581ca166 draft
Uploaded
| author | jackcurragh |
|---|---|
| date | Fri, 23 Sep 2022 13:30:42 +0000 |
| parents | 1fd87301a4fb |
| children | 686a1d619b96 |
| files | generate_custom_track/construct_custom_track.py generate_custom_track/generate_custom_track.xml |
| diffstat | 2 files changed, 6 insertions(+), 7 deletions(-) [+] |
line wrap: on
line diff
--- a/generate_custom_track/construct_custom_track.py Fri Sep 23 13:17:31 2022 +0000 +++ b/generate_custom_track/construct_custom_track.py Fri Sep 23 13:30:42 2022 +0000 @@ -1,12 +1,11 @@ import sys def main(track_type, url, sample_name, sample_description, chromosome_position, outpath): - + with open(outpath, 'w') as f: - f. write(f""" - browser position {chromosome_position} - track type={track_type} name="{sample_name}" description="{sample_description}" bigDataUrl={url} - """) + f. write( +f"""browser position {chromosome_position} +track type={track_type} name="{sample_name}" description="{sample_description}" bigDataUrl={url}""") if __name__ == "__main__": track_type = sys.argv[1]
--- a/generate_custom_track/generate_custom_track.xml Fri Sep 23 13:17:31 2022 +0000 +++ b/generate_custom_track/generate_custom_track.xml Fri Sep 23 13:30:42 2022 +0000 @@ -1,4 +1,4 @@ -<tool id="generate-custom_track" name="Generate Custom Track" version="0.1"> +<tool id="generate_custom_track" name="Generate Custom Track" version="0.2"> <description>Generates a Custom Track File for GWIPS-viz.</description> <command> python $__tool_directory__/construct_custom_track.py $input1 $input2 "$input3" "$input4" $input5 $output1 @@ -15,7 +15,7 @@ <param name="input5" type="text" label="chromosome position" help="Get this from Gwips.ucc.ie. Hg38 example = chr9:136,848,259-136,851,600" /> </inputs> <outputs> - <data name="output1" format="text"/> + <data name="output1" format="txt"/> </outputs> <help>