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nsalomonis / altanalyze

AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-use precompiled graphical user-interface versions available from our website.
http://www.altanalyze.org
Apache License 2.0
99 stars 30 forks source link

Downloading and installing a species-specific database via command-line requires version #27

Closed GoogleCodeExporter closed 4 years ago

GoogleCodeExporter commented 9 years ago 
What steps will reproduce the problem?
1.Executing...
<python AltAnalyze.py --species Hs --update Official>
2.Gives error...
<Finished downloading the latest configuration files.
Species name to update: Homo sapiens
Ensembl version current
Traceback (most recent call last):
  File "AltAnalyze.py", line 7198, in runCommandLineVersion
    commandLineRun()
  File "AltAnalyze.py", line 6825, in commandLineRun
    for ad in db_versions_vendors[db_version]:
KeyError: 'current'>
3.Executing...
<python AltAnalyze.py --species Hs --update Official --version EnsMart65>
4.Completes successfully

What is the expected output? What do you see instead?
It appears that the default "current" value substituted when a version isn't 
provided isn't being handled correctly.

What version of the product are you using? On what operating system?
Version 2.0.8 on Ubuntu x64 12.10

Please provide any additional information below.

Original issue reported on code.google.com by fabio.li...@gmail.com on 6 Jan 2014 at 12:27

GoogleCodeExporter commented 9 years ago 
Thank you for notifying us of this. The software does not know what the current 
official database is until it explicitly checks. I will look into this and see 
about defaulting this to the current version rather than specifying a version.

Original comment by nsalomo...@gmail.com on 13 Jan 2014 at 9:07