Mercurial > repos > tduigou > evaluate_manufacturability

annotate test-data/test_json.json @ 2:8cafb888ff89 draft default tip

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planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit 7f5d8b62d749a0c41110cd9c04e0254e4fd44893-dirty
author tduigou
date Wed, 15 Oct 2025 12:33:00 +0000
parents 7eec39ef47ed
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
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1
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
1 {
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
2 "avoid_patterns": "BsaI_site\nBsmBI_site\nBbsI_site\nSapI_site\n8x1mer\n5x3mer\n9x2mer",
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
3 "hairpin_constraints": "stem_size=20, hairpin_window=200",
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
4 "gc_constraints": "mini=0.3, maxi=0.7, window=100\nmini=0.1, maxi=0.9, window=100",
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
5 "kmer_size": "15",
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
6 "execution": "true",
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
7 "db_uri": "postgresql://postgres:RK17@localhost:5432/test_fragments_db",
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
8 "table": "sample",
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
9 "fragment_column": "fragment",
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
diff changeset
10 "sequence_column": "sequence",
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
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11 "annotation_column": "annotation"
7eec39ef47ed planemo upload for repository https://github.com/Edinburgh-Genome-Foundry/Examples/blob/master/templates/template1.ipynb commit db4ac861e1d03fcdfe94321d858839124e493930-dirty
tduigou
parents:
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12 }