Inherit defect related triples when operations are performed on the structure

[srmnitc]

will close #158

• [x] generalise extract triples
• [x] stop extract triples at derived samples
• [x] add a new function to create graph from triples
• [x] modify the get_sample function to work with new setup
• [x] add function to create new IDs for URIRefs in the extracted graph
• [x] add function to delete the extracted triples (could be used for removing a sample) (will do in new PR)
• [x] add copy_defects which copy defect triples to a new structure
• [x] use this function in workflow.py
• [x] use this function for all modify methods

[codecov[bot]]

Codecov Report

Attention: Patch coverage is 85.71429% with 14 lines in your changes missing coverage. Please review.

Project coverage is 67.27%. Comparing base (8eb8265) to head (917e96a). Report is 25 commits behind head on main.

Files	Patch %	Lines
atomrdf/graph.py	91.25%	7 Missing :warning:
atomrdf/structure.py	58.82%	7 Missing :warning:

Additional details and impacted files

```diff @@ Coverage Diff @@ ## main #159 +/- ## ========================================== + Coverage 66.59% 67.27% +0.68% ========================================== Files 25 25 Lines 3550 3618 +68 ========================================== + Hits 2364 2434 +70 + Misses 1186 1184 -2 ```

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