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annotate write_db_summary.py @ 0:3e14eda348d3 draft default tip

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planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
author sanbi-uwc
date Mon, 19 Jun 2017 00:08:18 -0400
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3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
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diff changeset
1 #!/usr/bin/env python
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
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2 from __future__ import print_function
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
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3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
4 import argparse
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
5 import os
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
6 import os.path
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
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3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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8 parser = argparse.ArgumentParser(
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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9 description="Write HTML summary from neostore datatype")
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
10 parser.add_argument('basepath')
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
11 parser.add_argument('label')
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
13 args = parser.parse_args()
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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14
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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15 output = """<html><head><title>Files for Composite Dataset ({})</title></head>
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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16 <p/>This composite dataset is composed of
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
17 the following files:<p/><ul>\n""".format(args.label)
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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18 db_path = args.basepath + '/neo4jdb/databases/graph.db'
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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19 for filename in os.listdir(db_path):
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
20 if filename.startswith('.'):
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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21 continue
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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22 path = db_path + '/' + filename
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
23 if os.path.isdir(path):
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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24 continue
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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25 output += "<li>{}</li>\n".format(filename)
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
diff changeset
26 output += '</ul></html>\b'
3e14eda348d3 planemo upload for repository https://github.com/sanbi-sa/tools-sanbi-uwc commit 0245b4efed8ced6d06d76f1249a47d2178285385
sanbi-uwc
parents:
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27 print(output)