Re: [galaxy-dev] Problem with LWR (input size limitation)

On Wed, Nov 19, 2014 at 12:58 PM, Misharl Monsoor <mmonsoor(a)sb-roscoff.fr&gt; wrote: > Hi John , > > First all, thank you very much for your quick reply. I will test your > suggestion about pycurl, and tell you if it has worked. For the second > question, i was wondering if it is possible with LWR to define a path (where > are located the inputs) as an input (string input in the wrapper xml). Still not certain I understand - but I do not believe this is possible for datasets - this is something that must be configured for the LWR itself. If you have inputs to the tool that are not datasets - such as reference or index data - those could potentially be specified this way as just <data type="text"... in your tool. Those parameters will be passed through on the command-line just like any other parameter. Hope this helps. -John > Thank you again for your help, > > Misharl Monsoor. > > > > > > Le 19/11/2014 15:30, John Chilton a écrit : > >> If you install pycurl (globally or in a Galaxy's virtualenv) and set >> LWR_CURL_TRANSPORT=1 in Galaxy's environment than the LWR will stream >> large files with CURL instead of the mmap hack. >> >> I don't understand your second question - the LWR should stream >> whatever data inputs are selected by the user. If you want the tool to >> be able to take many inputs you can use multiple="true" on your data >> parameter or use a repeat block. >> (https://wiki.galaxyproject.org/Admin/Tools/ToolConfigSyntax). >> >> Hope this helps, >> -John >> >> >> On Mon, Nov 17, 2014 at 3:04 AM, Misharl Monsoor <mmonsoor(a)sb-roscoff.fr&gt; >> wrote: >>> Hi everybody, >>> >>> In our lab, we are trying to connect our Galaxy instance to a Windows 7 >>> 64 >>> bits server, in order to executes programs that need to be run within >>> Windows. However we have a problem concerning the size of the input that >>> is >>> uploaded to the Windows server, it doesn't accept inputs with a size > >>> 1.3 >>> Gb ? We have the following problem with mmap function: >>> >>> data = mmap.mmap(input.fileno(), 0, access=mmap.ACCESS_READ) >>> error: [Errno 12] Cannot allocate memory >>> >>> >>> I have another question concerning the inputs, is there a way to use >>> several >>> inputs that be uploaded to a Windows Server? >>> >>> Thank you very much in advance, >>> >>> Bests regards, >>> >>> Cheers, >>> >>> Misharl Monsoor >>> ___________________________________________________________ >>> 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: >>> http://lists.bx.psu.edu/ >>> >>> To search Galaxy mailing lists use the unified search at: >>> http://galaxyproject.org/search/mailinglists/ >