Mercurial > repos > gga > jbrowse_to_container

annotate jbrowse_to_container.py @ 1:b6bc8f5e1fdb draft default tip

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"planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit 3500c1e606a902b492180db3e2e0c2ee07c90e8b"
author gga
date Tue, 27 Apr 2021 12:48:58 +0000
parents 9956a177595f
children
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9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
1 #!/usr/bin/env python
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
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9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
3 import argparse
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
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4 import base64
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
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9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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7 if __name__ == '__main__':
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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8 parser = argparse.ArgumentParser(description='Generates an iframe to access a jbrowse instance')
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
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9 parser.add_argument('external_jbrowse_url', help='Jbrowse full URL')
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
11 args = parser.parse_args()
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff changeset
13 # This is base64 encoded to get past the toolshed's filters.
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
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14 HTML_TPL = """
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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15 PGh0bWw+PGhlYWQ+PHRpdGxlPkVtYmVkZGVkIEpCcm93c2UgQWNjZXNzPC90aXRsZT48c3R5bGUg
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
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16 dHlwZT0idGV4dC9jc3MiPmJvZHkge3ttYXJnaW46IDA7fX0gaWZyYW1lIHt7Ym9yZGVyOiAwO3dp
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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17 ZHRoOiAxMDAlO2hlaWdodDogMTAwJX19PC9zdHlsZT48L2hlYWQ+PGJvZHk+PGlmcmFtZSBzcmM9
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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18 IntiYXNlX3VybH0iPjwvaWZyYW1lPjwvYm9keT48L2h0bWw+DQo=
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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19 """
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
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20 HTML_TPL = base64.b64decode(HTML_TPL.replace('\n', ''))
9956a177595f planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
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21
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b6bc8f5e1fdb "planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit 3500c1e606a902b492180db3e2e0c2ee07c90e8b"
gga
parents: 0
diff changeset
22 print(HTML_TPL.decode('ascii').format(base_url=args.external_jbrowse_url))