Mercurial > repos > gga > jbrowse_to_container
annotate jbrowse_to_container.py @ 0:11033bdad2ca draft
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
author | gga |
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date | Mon, 11 Sep 2017 05:49:16 -0400 |
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children | 4065bcff8e85 |
rev | line source |
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0
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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1 #!/usr/bin/env python |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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2 from __future__ import print_function |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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3 |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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4 import argparse |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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5 import base64 |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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6 |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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7 |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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8 if __name__ == '__main__': |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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9 parser = argparse.ArgumentParser(description='Generates an iframe to access a jbrowse instance') |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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10 parser.add_argument('external_jbrowse_url', help='Jbrowse full URL') |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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11 |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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12 args = parser.parse_args() |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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13 |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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14 # This is base64 encoded to get past the toolshed's filters. |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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15 HTML_TPL = """ |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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16 PGh0bWw+PGhlYWQ+PHRpdGxlPkVtYmVkZGVkIEpCcm93c2UgQWNjZXNzPC90aXRsZT48c3R5bGUg |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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17 dHlwZT0idGV4dC9jc3MiPmJvZHkge3ttYXJnaW46IDA7fX0gaWZyYW1lIHt7Ym9yZGVyOiAwO3dp |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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18 ZHRoOiAxMDAlO2hlaWdodDogMTAwJX19PC9zdHlsZT48L2hlYWQ+PGJvZHk+PGlmcmFtZSBzcmM9 |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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19 IntiYXNlX3VybH0iPjwvaWZyYW1lPjwvYm9keT48L2h0bWw+DQo= |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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20 """ |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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21 HTML_TPL = base64.b64decode(HTML_TPL.replace('\n', '')) |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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22 |
11033bdad2ca
planemo upload for repository https://github.com/galaxy-genome-annotation/galaxy-tools/tree/master/tools/jbrowse commit f745b23c84a615bf434d717c8c0e553a012f0268
gga
parents:
diff
changeset
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23 print(HTML_TPL.format(base_url=args.external_jbrowse_url)) |