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### Problem
As discussed with @helder-ribeiro, we need a function within SERD that can calculate the depth of residues identified by SERD as exposed. This depth value should be calculated for each re…
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Hi Siyoung,
Suppose we choose to define a lipid, say POPC, as two residues, with the hydrocarbon group named as a residue TAIL and head-group (choline phosphate) as a residue HEAD. TAIL and HEAD …
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Here should be both "Reduce" (default) and Residue.
Originally reported on https://forum.audacityteam.o…
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It looks like the script doesn't work when running on predictions that have modified residues. For example, running on a prediction that contains several Aceytyl-Lysine (three letter code "ALY") resid…
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Not found Residue Annotations vocabulary file data/uniref90_and_mgnify90_residue_annotations_gt_1k_proteins.csv in repo.
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Hi, I was running multiple runs parallelly on multiple GPUs with the same output folder and one of the runs exited with the error below when fixing interface residues.
The runs continued for more t…
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ID: 9a0j
crosslinking restraint is assigned to a residue beyond sequence
```
ERROR:root:Missing residue
ERROR:root:Residue 493 out of range for (1-350)
ERROR:root:Missing residue
ERROR:root:Res…
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I was getting a similar problem before the fix #1849 where if residue numbers were in a Chimera type of set up then I would get an error while trying to load using `traj = mdtraj.load("traj.dcd", top=…
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This happens when using "**Residues Embedded in membrane**" selector on 1BNA or other structures without protein units
this is the trace
```
TypeError: Cannot read properties of undefined (readi…
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After a successful run, the "temp" directory is not removed. It should be if indeed it is a temporary directory.
Even better, use an actual temporary directory in the platform $TEMP directory.
Ad…