split command loses helix assignments

[jhe@…]

The following bug report has been submitted:
Platform:        Darwin-18.6.0-x86_64-i386-64bit
ChimeraX Version: 0.91 (2019-07-16)
Description
The split command loses all helix assignments.  Helices are shown as coil after 4v68 is split.  Initially reported by Jing He.

Log:
UCSF ChimeraX version: 0.91 (2019-07-16)  
© 2016-2019 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open 4v68 format mmCIF fromDatabase pdb

Summary of feedback from opening 4v68 fetched from pdb  
---  
warning | Unable to infer polymer connectivity due to unspecified label_seq_id
for residue "PHA" near line 170882  
  
4v68 title:  
T. thermophilus 70S ribosome in complex with mRNA, tRNAs and EF-
Tu.GDP.kirromycin ternary complex, fitted to a 6.4 A Cryo-EM map. [more
info...]  
  
Chain information for 4v68 #1  
---  
Chain | Description  
A0 | MRNA codon  
AA | 16S rRNA  
AB | 30S ribosomal protein S2  
AC | 30S ribosomal protein S3  
AD | 30S ribosomal protein S4  
AE | 30S ribosomal protein S5  
AF | 30S ribosomal protein S6  
AG | 30S ribosomal protein S7  
AH | 30S ribosomal protein S8  
AI | 30S ribosomal protein S9  
AJ | 30S ribosomal protein S10  
AK | 30S ribosomal protein S11  
AL | 30S ribosomal protein S12  
AM | 30S ribosomal protein S13  
AN | 30S ribosomal protein S14  
AO | 30S ribosomal protein S15  
AP | 30S ribosomal protein S16  
AQ | 30S ribosomal protein S17  
AR | 30S ribosomal protein S18  
AS | 30S ribosomal protein S19  
AT | 30S ribosomal protein S20  
AU | 30S ribosomal protein Thx  
AV | P-site TRNA  
AW | E-site TRNA  
AX | synthetic MRNA  
AY | At-site TRNA  
AZ | Elongation factor Tu-A  
B0 | 50S ribosomal protein L27  
B1 | 50S ribosomal protein L28  
B2 | 50S ribosomal protein L29  
B3 | 50S ribosomal protein L30  
B4 | 50S ribosomal protein L31  
B5 | 50S ribosomal protein L32  
B6 | 50S ribosomal protein L33  
B7 | 50S ribosomal protein L34  
B8 | 50S ribosomal protein L35  
B9 | 50S ribosomal protein L36  
BA | 23S rRNA  
BB | 5S rRNA  
BC | 50S ribosomal protein L1  
BD | 50S ribosomal protein L2  
BE | 50S ribosomal protein L3  
BF | 50S ribosomal protein L4  
BG | 50S ribosomal protein L5  
BH | 50S ribosomal protein L6  
BI | 50S ribosomal protein L9  
BL | 50S ribosomal protein L11  
BN | 50S ribosomal protein L13  
BO | 50S ribosomal protein L14  
BP | 50S ribosomal protein L15  
BQ | 50S ribosomal protein L16  
BR | 50S ribosomal protein L17  
BS | 50S ribosomal protein L18  
BT | 50S ribosomal protein L19  
BU | 50S ribosomal protein L20  
BV | 50S ribosomal protein L21  
BW | 50S ribosomal protein L22  
BX | 50S ribosomal protein L23  
BY | 50S ribosomal protein L24  
BZ | 50S ribosomal protein L25  
  
Non-standard residues in 4v68 #1  
---  
BME — β-mercaptoethanol  
MAU — N-methyl kirromycin (aurodox; 1-methylmocimycin; antibiotic X-5108;
goldinodox; goldinomycin)  
  
  

> split #1

Chain information for 4v68 A0 #1.1  
---  
Chain | Description  
A0 | No description available  
  
Chain information for 4v68 AA #1.2  
---  
Chain | Description  
AA | No description available  
  
Chain information for 4v68 AB #1.3  
---  
Chain | Description  
AB | No description available  
  
Chain information for 4v68 AC #1.4  
---  
Chain | Description  
AC | No description available  
  
Chain information for 4v68 AD #1.5  
---  
Chain | Description  
AD | No description available  
  
Chain information for 4v68 AE #1.6  
---  
Chain | Description  
AE | No description available  
  
Chain information for 4v68 AF #1.7  
---  
Chain | Description  
AF | No description available  
  
Chain information for 4v68 AG #1.8  
---  
Chain | Description  
AG | No description available  
  
Chain information for 4v68 AH #1.9  
---  
Chain | Description  
AH | No description available  
  
Chain information for 4v68 AI #1.10  
---  
Chain | Description  
AI | No description available  
  
Chain information for 4v68 AJ #1.11  
---  
Chain | Description  
AJ | No description available  
  
Chain information for 4v68 AK #1.12  
---  
Chain | Description  
AK | No description available  
  
Chain information for 4v68 AL #1.13  
---  
Chain | Description  
AL | No description available  
  
Chain information for 4v68 AM #1.14  
---  
Chain | Description  
AM | No description available  
  
Chain information for 4v68 AN #1.15  
---  
Chain | Description  
AN | No description available  
  
Chain information for 4v68 AO #1.16  
---  
Chain | Description  
AO | No description available  
  
Chain information for 4v68 AP #1.17  
---  
Chain | Description  
AP | No description available  
  
Chain information for 4v68 AQ #1.18  
---  
Chain | Description  
AQ | No description available  
  
Chain information for 4v68 AR #1.19  
---  
Chain | Description  
AR | No description available  
  
Chain information for 4v68 AS #1.20  
---  
Chain | Description  
AS | No description available  
  
Chain information for 4v68 AT #1.21  
---  
Chain | Description  
AT | No description available  
  
Chain information for 4v68 AU #1.22  
---  
Chain | Description  
AU | No description available  
  
Chain information for 4v68 AV #1.23  
---  
Chain | Description  
AV | No description available  
  
Chain information for 4v68 AW #1.24  
---  
Chain | Description  
AW | No description available  
  
Chain information for 4v68 AX #1.25  
---  
Chain | Description  
AX | No description available  
  
Chain information for 4v68 AY #1.26  
---  
Chain | Description  
AY | No description available  
  
Chain information for 4v68 AZ #1.27  
---  
Chain | Description  
AZ | No description available  
  
Chain information for 4v68 B0 #1.28  
---  
Chain | Description  
B0 | No description available  
  
Chain information for 4v68 B1 #1.29  
---  
Chain | Description  
B1 | No description available  
  
Chain information for 4v68 B2 #1.30  
---  
Chain | Description  
B2 | No description available  
  
Chain information for 4v68 B3 #1.31  
---  
Chain | Description  
B3 | No description available  
  
Chain information for 4v68 B4 #1.32  
---  
Chain | Description  
B4 | No description available  
  
Chain information for 4v68 B5 #1.33  
---  
Chain | Description  
B5 | No description available  
  
Chain information for 4v68 B6 #1.34  
---  
Chain | Description  
B6 | No description available  
  
Chain information for 4v68 B7 #1.35  
---  
Chain | Description  
B7 | No description available  
  
Chain information for 4v68 B8 #1.36  
---  
Chain | Description  
B8 | No description available  
  
Chain information for 4v68 B9 #1.37  
---  
Chain | Description  
B9 | No description available  
  
Chain information for 4v68 BA #1.38  
---  
Chain | Description  
BA | No description available  
  
Chain information for 4v68 BB #1.39  
---  
Chain | Description  
BB | No description available  
  
Chain information for 4v68 BC #1.40  
---  
Chain | Description  
BC | No description available  
  
Chain information for 4v68 BD #1.41  
---  
Chain | Description  
BD | No description available  
  
Chain information for 4v68 BE #1.42  
---  
Chain | Description  
BE | No description available  
  
Chain information for 4v68 BF #1.43  
---  
Chain | Description  
BF | No description available  
  
Chain information for 4v68 BG #1.44  
---  
Chain | Description  
BG | No description available  
  
Chain information for 4v68 BH #1.45  
---  
Chain | Description  
BH | No description available  
  
Chain information for 4v68 BI #1.46  
---  
Chain | Description  
BI | No description available  
  
Chain information for 4v68 BL #1.47  
---  
Chain | Description  
BL | No description available  
  
Chain information for 4v68 BN #1.48  
---  
Chain | Description  
BN | No description available  
  
Chain information for 4v68 BO #1.49  
---  
Chain | Description  
BO | No description available  
  
Chain information for 4v68 BP #1.50  
---  
Chain | Description  
BP | No description available  
  
Chain information for 4v68 BQ #1.51  
---  
Chain | Description  
BQ | No description available  
  
Chain information for 4v68 BR #1.52  
---  
Chain | Description  
BR | No description available  
  
Chain information for 4v68 BS #1.53  
---  
Chain | Description  
BS | No description available  
  
Chain information for 4v68 BT #1.54  
---  
Chain | Description  
BT | No description available  
  
Chain information for 4v68 BU #1.55  
---  
Chain | Description  
BU | No description available  
  
Chain information for 4v68 BV #1.56  
---  
Chain | Description  
BV | No description available  
  
Chain information for 4v68 BW #1.57  
---  
Chain | Description  
BW | No description available  
  
Chain information for 4v68 BX #1.58  
---  
Chain | Description  
BX | No description available  
  
Chain information for 4v68 BY #1.59  
---  
Chain | Description  
BY | No description available  
  
Chain information for 4v68 BZ #1.60  
---  
Chain | Description  
BZ | No description available  
  
Split 4v68 (#1) into 60 models  

> hide selAtoms

> show selAtoms ribbons




OpenGL version: 4.1 ATI-2.9.26
OpenGL renderer: AMD Radeon Pro 580 OpenGL Engine
OpenGL vendor: ATI Technologies Inc.

[Tom Goddard]

Fixed.

Code was setting residue is_helix and is_strand attributes, and setting is_strand = False cleared the helix assignment. Switched to setting ss_type.