| biobb_model/__init__.py |
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4 |
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CheckingLog.__init__ |
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CheckingLog.launch |
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checking_log |
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12 |
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| biobb_model/model/common.py |
modeller_installed |
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9 |
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_from_string_to_list |
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FixAltLocs.__init__ |
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FixAltLocs.launch |
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fix_altlocs |
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13 |
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| biobb_model/model/fix_amides.py |
FixAmides.__init__ |
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FixAmides.launch |
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fix_amides |
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(no function) |
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12 |
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| biobb_model/model/fix_backbone.py |
FixBackbone.__init__ |
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9 |
9 |
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FixBackbone.launch |
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fix_backbone |
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(no function) |
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13 |
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| biobb_model/model/fix_chirality.py |
FixChirality.__init__ |
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FixChirality.launch |
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12 |
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| biobb_model/model/fix_chirality.py |
fix_chirality |
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1 |
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(no function) |
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12 |
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| biobb_model/model/fix_pdb.py |
FixPdb.__init__ |
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| biobb_model/model/fix_pdb.py |
FixPdb.launch |
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fix_pdb |
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(no function) |
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| biobb_model/model/fix_pdb_utils.py |
Atom.__init__ |
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Atom.__repr__ |
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Atom.__eq__ |
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Atom.get_structure |
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Atom.get_index |
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| biobb_model/model/fix_pdb_utils.py |
Atom.get_residue_index |
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1 |
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| biobb_model/model/fix_pdb_utils.py |
Atom.set_residue_index |
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7 |
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| biobb_model/model/fix_pdb_utils.py |
Atom.get_residue |
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3 |
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| biobb_model/model/fix_pdb_utils.py |
Atom.set_residue |
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4 |
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| biobb_model/model/fix_pdb_utils.py |
Atom.get_chain_index |
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| biobb_model/model/fix_pdb_utils.py |
Atom.get_chain |
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| biobb_model/model/fix_pdb_utils.py |
Residue.__init__ |
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7 |
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Residue.__repr__ |
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Residue.__eq__ |
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Residue.__hash__ |
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Residue.same_inputs_as |
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| biobb_model/model/fix_pdb_utils.py |
Residue.get_structure |
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1 |
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Residue.get_index |
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1 |
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| biobb_model/model/fix_pdb_utils.py |
Residue.get_atom_indices |
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1 |
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| biobb_model/model/fix_pdb_utils.py |
Residue.set_atom_indices |
|
9 |
9 |
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| biobb_model/model/fix_pdb_utils.py |
Residue.get_atoms |
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4 |
4 |
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| biobb_model/model/fix_pdb_utils.py |
Residue.set_atoms |
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7 |
7 |
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| biobb_model/model/fix_pdb_utils.py |
Residue.add_atom |
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4 |
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Residue.remove_atom |
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2 |
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Residue.get_chain_index |
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| biobb_model/model/fix_pdb_utils.py |
Residue.set_chain_index |
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| biobb_model/model/fix_pdb_utils.py |
Residue.get_chain |
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3 |
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| biobb_model/model/fix_pdb_utils.py |
Residue.set_chain |
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14 |
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| biobb_model/model/fix_pdb_utils.py |
Chain.__init__ |
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Chain.__repr__ |
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Chain.__eq__ |
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Chain.get_structure |
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Chain.get_index |
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Chain.set_index |
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3 |
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Chain.get_residue_indices |
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| biobb_model/model/fix_pdb_utils.py |
Chain.set_residue_indices |
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Chain.get_residues |
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4 |
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Chain.set_residues |
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7 |
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Chain.add_residue |
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3 |
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Chain.remove_residue |
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4 |
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Chain.get_atom_indices |
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Chain.get_atoms |
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1 |
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Chain.get_sequence |
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Structure.__init__ |
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Structure.__repr__ |
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Structure.set_new_atom |
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Structure.set_new_residue |
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7 |
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| biobb_model/model/fix_pdb_utils.py |
Structure.set_new_chain |
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7 |
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Structure.purge_chain |
|
8 |
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Structure.from_pdb_file |
|
45 |
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98% |
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Structure.generate_pdb_file |
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19 |
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| biobb_model/model/fix_pdb_utils.py |
Structure.get_chain_by_name |
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1 |
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| biobb_model/model/fix_pdb_utils.py |
Structure.display_summary |
|
6 |
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| biobb_model/model/fix_pdb_utils.py |
Structure.raw_protein_chainer |
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13 |
13 |
0 |
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| biobb_model/model/fix_pdb_utils.py |
Structure.get_next_available_chain_name |
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2 |
2 |
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| biobb_model/model/fix_pdb_utils.py |
calculate_distance |
|
5 |
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| biobb_model/model/fix_pdb_utils.py |
residue_name_2_letter |
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9 |
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| biobb_model/model/fix_pdb_utils.py |
generate_map_online |
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31 |
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| biobb_model/model/fix_pdb_utils.py |
generate_map_online.match_sequences |
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25 |
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| biobb_model/model/fix_pdb_utils.py |
format_topology_data |
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24 |
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88% |
| biobb_model/model/fix_pdb_utils.py |
map_sequence |
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8 |
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| biobb_model/model/fix_pdb_utils.py |
get_chain_sequences |
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13 |
0 |
0 |
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| biobb_model/model/fix_pdb_utils.py |
align |
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29 |
3 |
0 |
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blast |
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9 |
9 |
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| biobb_model/model/fix_pdb_utils.py |
get_uniprot_reference |
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9 |
3 |
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| biobb_model/model/fix_pdb_utils.py |
(no function) |
|
108 |
1 |
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99% |
| biobb_model/model/fix_side_chain.py |
FixSideChain.__init__ |
|
9 |
0 |
0 |
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100% |
| biobb_model/model/fix_side_chain.py |
FixSideChain.launch |
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16 |
6 |
0 |
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62% |
| biobb_model/model/fix_side_chain.py |
fix_side_chain |
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1 |
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0 |
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(no function) |
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14 |
1 |
0 |
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93% |
| biobb_model/model/fix_ssbonds.py |
FixSSBonds.__init__ |
|
8 |
0 |
0 |
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100% |
| biobb_model/model/fix_ssbonds.py |
FixSSBonds.launch |
|
12 |
3 |
0 |
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75% |
| biobb_model/model/fix_ssbonds.py |
fix_ssbonds |
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1 |
0 |
0 |
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| biobb_model/model/fix_ssbonds.py |
(no function) |
|
12 |
1 |
0 |
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92% |
| biobb_model/model/mutate.py |
Mutate.__init__ |
|
10 |
0 |
0 |
|
100% |
| biobb_model/model/mutate.py |
Mutate.launch |
|
19 |
6 |
0 |
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68% |
| biobb_model/model/mutate.py |
mutate |
|
1 |
0 |
0 |
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100% |
| biobb_model/model/mutate.py |
(no function) |
|
14 |
1 |
0 |
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93% |
| biobb_model/test/__init__.py |
(no function) |
|
0 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_checking_log.py |
TestCheckingLog.setup_class |
|
1 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_checking_log.py |
TestCheckingLog.teardown_class |
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1 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_checking_log.py |
TestCheckingLog.test_launch |
|
2 |
0 |
0 |
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100% |
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(no function) |
|
6 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_altlocs.py |
TestFixAltlocs.setup_class |
|
1 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_altlocs.py |
TestFixAltlocs.teardown_class |
|
1 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_altlocs.py |
TestFixAltlocs.test_launch |
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3 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_altlocs.py |
(no function) |
|
6 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_amides.py |
TestFixAmides.setup_class |
|
1 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_amides.py |
TestFixAmides.teardown_class |
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1 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_amides.py |
TestFixAmides.test_launch |
|
3 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_amides.py |
(no function) |
|
6 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_chirality.py |
TestFixChirality.setup_class |
|
1 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_chirality.py |
TestFixChirality.teardown_class |
|
1 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_chirality.py |
TestFixChirality.test_launch |
|
3 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_chirality.py |
(no function) |
|
6 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_pdb.py |
TestFixPdb.setup_class |
|
1 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_pdb.py |
TestFixPdb.teardown_class |
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1 |
0 |
0 |
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| biobb_model/test/unitests/test_model/test_fix_pdb.py |
TestFixPdb.test_launch |
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3 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_pdb.py |
(no function) |
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6 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_side_chain.py |
TestFixSideChain.setup_class |
|
1 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_side_chain.py |
TestFixSideChain.teardown_class |
|
1 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_side_chain.py |
TestFixSideChain.test_launch |
|
3 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_side_chain.py |
(no function) |
|
6 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_ssbonds.py |
TestFixSSBonds.setup_class |
|
1 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_fix_ssbonds.py |
TestFixSSBonds.teardown_class |
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1 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_ssbonds.py |
TestFixSSBonds.test_launch |
|
3 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_fix_ssbonds.py |
(no function) |
|
6 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_mutate.py |
TestFixSideChain.setup_class |
|
1 |
0 |
0 |
|
100% |
| biobb_model/test/unitests/test_model/test_mutate.py |
TestFixSideChain.teardown_class |
|
1 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_mutate.py |
TestFixSideChain.test_launch |
|
3 |
0 |
0 |
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100% |
| biobb_model/test/unitests/test_model/test_mutate.py |
(no function) |
|
6 |
0 |
0 |
|
100% |