Re: [galaxy-dev] Error when executing cleanup scripts

[Scott Szakonyi]

Hi Dannon,

That absolutely did the trick. Thanks so much for your assistance.

Best,

Scott

On Fri, May 20, 2016 at 9:11 AM, Dannon Baker 
wrote:

> Hi Scott,
>
> The quick fix is to source your virtualenv first and you should be good to
> go.
>
> -Dannon
>
> On Fri, May 20, 2016 at 9:07 AM Scott Szakonyi 
> wrote:
>
>> Hi all,
>>
>> I'm getting an error when executing the cleanup scripts in Galaxy 16.01.
>> It appears the script is unable to import sqlalchemy, but my understanding
>> is that Galaxy can't function without it, so I'm at a loss to explain.
>> Here's the error I'm getting:
>>
>> $ sh scripts/cleanup_datasets/delete_userless_histories.sh
>> Traceback (most recent call last):
>>   File "./scripts/cleanup_datasets/cleanup_datasets.py", line 13, in
>> 
>> import sqlalchemy as sa
>> ImportError: No module named sqlalchemy
>>
>>
>> We have relatively limited space on our storage server, so it's
>> imperative that I be able to execute these scripts and be able to clean up
>> deleted material. I welcome any suggestions.
>>
>> Best regards,
>>
>> --
>> Scott B. Szakonyi
>> Research Programmer
>>
>> *Center for Research Computing*
>> 107 Information Technology Center
>> Notre Dame, IN 46556
>> http://crc.nd.edu
>> ___
>> Please keep all replies on the list by using "reply all"
>> in your mail client.  To manage your subscriptions to this
>> and other Galaxy lists, please use the interface at:
>>   https://lists.galaxyproject.org/
>>
>> To search Galaxy mailing lists use the unified search at:
>>   http://galaxyproject.org/search/mailinglists/
>
>


-- 
Scott B. Szakonyi
Research Programmer

*Center for Research Computing*
107 Information Technology Center
Notre Dame, IN 46556
http://crc.nd.edu
___
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
  https://lists.galaxyproject.org/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/mailinglists/

Re: [galaxy-dev] Error when executing cleanup scripts

[Dannon Baker]

Hi Scott,

The quick fix is to source your virtualenv first and you should be good to
go.

-Dannon

On Fri, May 20, 2016 at 9:07 AM Scott Szakonyi 
wrote:

> Hi all,
>
> I'm getting an error when executing the cleanup scripts in Galaxy 16.01.
> It appears the script is unable to import sqlalchemy, but my understanding
> is that Galaxy can't function without it, so I'm at a loss to explain.
> Here's the error I'm getting:
>
> $ sh scripts/cleanup_datasets/delete_userless_histories.sh
> Traceback (most recent call last):
>   File "./scripts/cleanup_datasets/cleanup_datasets.py", line 13, in
> 
> import sqlalchemy as sa
> ImportError: No module named sqlalchemy
>
>
> We have relatively limited space on our storage server, so it's imperative
> that I be able to execute these scripts and be able to clean up deleted
> material. I welcome any suggestions.
>
> Best regards,
>
> --
> Scott B. Szakonyi
> Research Programmer
>
> *Center for Research Computing*
> 107 Information Technology Center
> Notre Dame, IN 46556
> http://crc.nd.edu
> ___
> Please keep all replies on the list by using "reply all"
> in your mail client.  To manage your subscriptions to this
> and other Galaxy lists, please use the interface at:
>   https://lists.galaxyproject.org/
>
> To search Galaxy mailing lists use the unified search at:
>   http://galaxyproject.org/search/mailinglists/
___
Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:
  https://lists.galaxyproject.org/

To search Galaxy mailing lists use the unified search at:
  http://galaxyproject.org/search/mailinglists/