Cannot save PIR

[andrea.graziadei@…]

The following bug report has been submitted:
Platform:        Linux-4.15.0-72-generic-x86_64-with-debian-buster-sid
ChimeraX Version: 1.0 (2020-06-04 23:15:07 UTC)
Description
Sequence alignment save pir format not working.

If i click on a sequence and do file->save as NBRF/PIR the command does not work.
the log shows the command as 
save /home/andrea/Dropbox/Cullin_Andrea/build_missing/test.pir format NBRF/PIR alignment full.fa-3

when i believe it should be

save  /home/andrea/Dropbox/Cullin_Andrea/build_missing/test.pir format pir alignment full.fa-3


Log:
Startup Messages  
---  
note | available bundle cache has not been initialized yet  
  
UCSF ChimeraX version: 1.0 (2020-06-04)  
© 2016-2020 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open full.fa alignment false

Summary of feedback from opening full.fa  
---  
notes | Alignment identifier is full.fa-1  
Alignment identifier is full.fa-2  
Alignment identifier is full.fa-3  
Alignment identifier is full.fa-4  
Alignment identifier is full.fa-5  
  
Opened 5 sequences from full.fa  

> open /home/andrea/Dropbox/Cullin_Andrea/build_missing/state-3_fit-chains.pdb

Chain information for state-3_fit-chains.pdb #1  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
D | No description available  
G | No description available  
  
Associated state-3_fit-chains.pdb chain G to CUL4 with 0 mismatches  
Associated state-3_fit-chains.pdb chain B to DCAF1 with 3 mismatches  
Associated state-3_fit-chains.pdb chain D to ROC1 with 0 mismatches  
Associated state-3_fit-chains.pdb chain C to Vpr with 0 mismatches  

> sequence associate /A full.fa-3:1

Associated state-3_fit-chains.pdb chain A to DDB1 with 8 mismatches and/or
gaps  

> save /home/andrea/Dropbox/Cullin_Andrea/build_missing/test.pir format
> NBRF/PIR alignment full.fa-3

Invalid "format" argument: Should be one of 'bmp image', 'brix', 'cmap',
'dcd', 'fasta', 'gif image', 'gltf', 'imagic', 'jpeg image', 'markers',
'mmcif', 'mol2', 'mrc', 'obj', 'pdb', 'pir', 'png image', 'ppm image',
'pseudobonds', 'rsf', 'segger', 'session', 'stl', 'tiff image', 'vtk', or
'x3d'  

> save /home/andrea/Dropbox/Cullin_Andrea/build_missing/test format NBRF/PIR
> alignment full.fa-3

Invalid "format" argument: Should be one of 'bmp image', 'brix', 'cmap',
'dcd', 'fasta', 'gif image', 'gltf', 'imagic', 'jpeg image', 'markers',
'mmcif', 'mol2', 'mrc', 'obj', 'pdb', 'pir', 'png image', 'ppm image',
'pseudobonds', 'rsf', 'segger', 'session', 'stl', 'tiff image', 'vtk', or
'x3d'  

> save /home/andrea/Dropbox/Cullin_Andrea/build_missing/test.pir format pir
> alignment full_fa

Invalid "alignment" argument: No known alignment with ID: 'full_fa'  

> save /home/andrea/Dropbox/Cullin_Andrea/build_missing/test.pir format pir
> alignment full.fa

Invalid "alignment" argument: No known alignment with ID: 'full.fa'  

> save /home/andrea/Dropbox/Cullin_Andrea/build_missing/test.pir format pir
> alignment full.fa-3




OpenGL version: 3.3.0 NVIDIA 440.64
OpenGL renderer: GeForce GTX 1050 Ti/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: PC Specialist LTD
Model: OptimusIX 15
OS: Linux Mint 19.1 tessa
Architecture: 64bit ELF
CPU: 12 Intel(R) Core(TM) i7-8750H CPU @ 2.20GHz
Cache Size: 9216 KB
Memory:
	              total        used        free      shared  buff/cache   available
	Mem:            31G        4.6G         20G        183M        5.7G         25G
	Swap:           31G          0B         31G

Graphics:
	00:02.0 VGA compatible controller [0300]: Intel Corporation Device [8086:3e9b]	
	Subsystem: CLEVO/KAPOK Computer Device [1558:852b]	
	Kernel driver in use: i915
PyQt version: 5.12.3
Compiled Qt version: 5.12.4
Runtime Qt version: 5.12.8

[pett]

Hi Andrea,

Thanks for reporting this problem. It is fixed now and the fix will be in the next daily build.

--Eric

Eric Pettersen
UCSF Computer Graphics Lab