Mercurial > repos > fubar > jbrowse2

annotate jb2_urlconf.py @ 56:c0097a584a8a draft

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planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 4b5df41484f6bdf316edaf95b53c92d328ec1674
author fubar
date Tue, 19 Mar 2024 02:33:40 +0000
parents 7e867ff86e44
children 94264fe60478
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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7e867ff86e44 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
parents: 48
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3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
parents:
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2 inconf = open('config.json', 'r').readlines()
3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
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3 with open('config.json.local', 'w') as bak:
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460d5b6c5d98 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
parents: 47
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4 bak.write(''.join(inconf))
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3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
parents:
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5 urlbase = "https://galaxy.genomicsvl-students.cloud.edu.au/jbrowse/hum/"
3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
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6 utag = '"uri":'
3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
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7 for i, row in enumerate(inconf):
3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
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8 ispath = False
3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
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9 if row.strip().startswith(utag):
3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
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10 ispath = True
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7e867ff86e44 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
parents: 48
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11 parth = row.split(utag)[1].strip().replace('"','').replace("'",'')
7e867ff86e44 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
parents: 48
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12 inconf[i] = '%s "%s%s"' % (utag, urlbase, parth)
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3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
fubar
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13 with open('config.json', 'w') as outconf:
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460d5b6c5d98 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
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14 outconf.write(''.join(inconf))
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3e53204c2419 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
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7e867ff86e44 planemo upload for repository https://github.com/usegalaxy-eu/temporary-tools/tree/master/jbrowse2 commit 3a43e9e0ffce0966101203102e769d1ced28618a-dirty
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