[Chimera-users] Blast not working

[Elaine Meng]

At least in my own test case just now, I can confirm that running Blast from the Sequence tool works in both the 1.16 release and today's 1.17 daily build.
Best,
Elaine
-----
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On May 31, 2022, at 10:07 PM, Tom Goddard via Chimera-users <chimera-users at cgl.ucsf.edu> wrote:
> 
> Hi Antonio,
> 
> The error "ImportError: No module named replyobj" means Chimera cannot find its message logging module called "replyobj".  That suggests that your Chimera installation is broken, and does not appear to be a problem specifically with BLAST.  I would suggest installing the current Chimera version 1.16.
> 
> If that does not fix it, use the Report a Bug... button that should appear when this error message is shown.  Or if that button does not appear use Chimera menu entry Help / Report a Bug....
> 
> 	Tom
> 
> 
>> On May 31, 2022, at 8:05 AM, Antonio Díaz Quintana via Chimera-users <chimera-users at cgl.ucsf.edu> wrote:
>> 
>> Dear all, 
>> 
>> Recently, I stopped being able to perform a BLAST search from the SEQUENCE tool in UCSF Chimera. Is there anything I could do to fix this?
>> 
>> Log message follows:
>> 
>> Web Service: BlastProtein2 is a Python wrapper that calls blastp to search nr or pdb for sequences similar to the given protein sequence
>> Opal service URL: http://webservices.rbvi.ucsf.edu/opal2/services/BlastProtein2Service
>> Opal job URL: http://webservices.rbvi.ucsf.edu/appBlastProtein2Service16540092552761301435050
>> Traceback (most recent call last):
>>   File "C:\Program Files\Chimera 1.15rc\share\chimera\tasks.py", line 179, in runStatusCB
>>     task.statusCBList[0]()
>>   File "C:\Program Files\Chimera 1.15rc\share\blastpdb\ParserBlastP.py", line 434, in _statusCB
>>     self.finishCB(self.params, output)
>>   File "C:\Program Files\Chimera 1.15rc\share\blastpdb\gui.py", line 424, in _finish
>>     self.fetchColumnValues()
>>   File "C:\Program Files\Chimera 1.15rc\share\blastpdb\gui.py", line 449, in fetchColumnValues
>>     info = fetch_pdb_info(pdb_ids)
>>   File "C:\Program Files\Chimera 1.15rc\share\blastpdb\pdbinfo.py", line 151, in fetch_pdb_info
>>     import replyobj
>> ImportError: No module named replyobj
>> 
>> Best,
>> 
>> Antonio
>> 
>> -- 
>> Dr. Antonio J. Díaz Quintana
>> Instituto de Investigaciones Químicas
>> Universidad de Sevilla - CSIC
>> Avda. Americo Vespucio 49
>> 41092 Sevilla
>> Spain
>> 
>> Phone: +34 954 48 9631
>> 
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