files from another job e.g., 614e0a1b

The raw output files for each step of the pipeline can be found here and downloaded as a ZIP file here.


The tool uses 'diff' comment for text-based comparison of files. Read more on 'diff' here

diffpdb checks the consistency between annotations of two structural files. The tool ignores 3D coordinates of atoms and compares only text-content of two files in the PDB to identify the difference in the annotation of atoms, missing atoms (missing the O2′ atom) and missing fragment (shown on the left side with the gray-red bar).

ATOM      8  C2'   G A  57					ATOM      8  C2'   G A  57
# this is when these two files differe, this is the place when O2' atom exists on the left 
# (crystal structure) and not on the right (SimRNA model)
ATOM      9  C1'   G A  57				      |	ATOM      9  O2'   G A  57
ATOM     10  N1    G A  57				      |	ATOM     10  C1'   G A  57

diffpdb can be also used locally with a diff viewer of choince. Here the detection of missing O2' atom in one of the structure can be easily detected. This is

Read more on this puzzle here https://github.com/mmagnus/RNA-Puzzles-Standardized-Submissions/tree/master/rp17

Slightly different presentation of the same information can be viewed with other diff viewers, like DiffMerge here:

More at https://rna-tools.readthedocs.io/en/latest/tools.html?highlight=diffpdb#module-rna_tools.tools.diffpdb.diffpdb

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