Yes I found a workaround.
Initially I had problems because I was using SQLite and I had lock problems
that led to ugly SQLAlchemy errors.
After changing to Postgres SQL I got rid of lock errors but I had same
So I tried to create a simple script (my workflow has 14 processes)
from common import submit
and same issue, after the 4th or 5th submit call, the HTTP response of of
the call to the api takes ages (minutes) to return (or never returns)
However, if I run separate threads each calling submit, everything works
I know it does not make much sense but before implementing threads I did
first experiments in serial and it was failing
so I did not even try in parallel... but it works.
I've been doing some debugging and API seems to work fine, and I think this
is some issue with Paste HTTP server
but I couldn't be bothered investigating further.
On Mon, Jun 23, 2014 at 8:43 AM, Gildas Le Corguille <
> We had this behavior when we used the default SQLite.
> Since we switched on MySQL, it fixed this :P
> Maybe a clue for you ?
> Le 18/06/2014 18:33, Carlos del Ojo a écrit :
> Hi All,
> I am using the API (posting to 'http://localhost:8080/api/workflows' )
> and running 8 workflows in a row.
> I use submit function imported from common.
> First call to submit takes few seconds to return from submit()
> second takes a few more seconds, but in the fifth submit it gets hanged.
> However if I start stopping all workflows via the web interface fifth
> submit() ends goes on with 6th 7th and 8th.
> I am not sure if there is a limit of workflows running in parallel but
> if a run them manually through the GUI they work fine (the eight)
> does anyone know why API calls get blocked? Is it maybe something to do
> with the Paste HTTP server used by galaxy?
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