rna-tools
rna-tools copied to clipboard
mmagnus
🔧rna-tools: a toolbox to analyze sequences, structures and simulations of RNA (and more) used by RNA CASP, RNA PUZZLES, and me ;-) docs @ http://rna-tools.rtfd.io web @ http://rna-tools.online
```python [mm] rna-search-with-a-new-alphabet$ python test.py Traceback (most recent call last): File "test.py", line 3, in a = RNAalignment('RF01074.txt') File "/home/magnus/work-src/rna-pdb-tools/rna_pdb_tools/utils/rna_alignment/rna_alignment.py", line 408, in __init__ self.copy_ss_cons_to_all() File "/home/magnus/work-src/rna-pdb-tools/rna_pdb_tools/utils/rna_alignment/rna_alignment.py", line 554, in...
```rnastruc_inspect_pdb.py 3b4c_1.pdb magnus@maximus:~/rna_only_v2-1st.nmr-SHIT$ rnastruc_inspect_pdb.py 3b4c_1.pdb > 3b4c_1 > 3b4c_1 A moderna_source_1.7.1/moderna -- magnus favored moderna! x3dna GCGCCGGACUUAAAGCCAUa moder GCGCC.GGACUUAAAGCCAU 3AD 3AD -1 A 18 ! PDB abbreviation: NOT FOUND, but...
``` [mq] struc_clx$ rna-pdb-tools.py --get_seq 1x9k_rnakbnm_decoy0084_amb_clx.pdb > 1x9k_rnakbnm_decoy0084_amb_clx.pdb :1-65 UCGCAGUCCUAUUAAUAGAGAAGCGAGGCAGAGAAACACACGAUCGUGGUACAUUACCUGCC ```
``` rna_pdb_tools.py --rpr 1ehz.pdb --replace-hetatm Traceback (most recent call last): File "/Users/magnus/miniconda3/bin/rna_pdb_tools.py", line 7, in exec(compile(f.read(), __file__, 'exec')) File "/Users/magnus/work/src/rna-tools/rna_tools/rna_pdb_tools.py", line 466, in remarks = s.get_rnapuzzle_ready(args.renumber_residues, fix_missing_atoms=fix_missing_atom, File "/Users/magnus/work/src/rna-tools/rna_tools/rna_tools_lib.py", line...