[Swift-user] Converting sites configuration

[David Kelly]

Hi Guilherme,

I'm not immediately sure it's failing to link inputs. Could you please send
a log file from when this happens so I can take a closer look?

Thanks,
David



On Thu, Apr 10, 2014 at 2:08 PM, Guilherme Gall <gmgall at lncc.br> wrote:

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> Em 04-04-2014 02:18, David Kelly escreveu:
> > Hi Guilherme,
> >
> > There was one setting (pe) that was undocumented and not yet in the
> > new config. I've just added this and updated the user guide. I've
> > attached a swift.properties file that I believe should work for you
> > with the latest 0.95 and trunk. Please let me know if you have any
> > issues.
> >
> > I will add something to the user guide soon that makes it easier
> > to translate settings directly from sites.xml to the new
> > swift.properties format.
> >
> > Thanks, David
> >
> >
>
> Hi David,
>
> The swift.properties that you sent me seems to work.
>
> But now I'm having another problem that wasn't happening before.
> Follows the error message that I receive sometimes:
>
> - ----------
> RunID: run011
> Progress: Qui, 10 abr 2014 14:58:18-0300
> Progress: Qui, 10 abr 2014 14:58:19-0300  Stage in:1
> Progress: Qui, 10 abr 2014 14:58:20-0300  Active:1
>
> Execution failed:
> Exception in generate_requests:
>     Arguments: [-o, teste.txt, --min_occurrences, 10, --map_list,
>
> workshop/Brasil_ASC/alt.asc,workshop/Brasil_ASC/bio12.asc,workshop/Brasil_ASC/bio2.asc,
> - -m, workshop/Brasil_ASC/bio9.asc, --output_format_file,
> workshop/Brasil_ASC/bio10.asc, --output_map_list,
> workshop/Brasil_ASC/alt.asc,workshop/Brasil_ASC/bio3.asc,
> - --output_mask_file, workshop/Brasil_ASC/bio8.asc]
>     Host: sunhpc
>     Directory:
> workflow-openmodeller-run011/jobs/b/generate_requests-b6u6c1pl
>         exception @ swift-int.k, line: 520
> Caused by: Failed to link input file workshop/Brasil_ASC/alt.asc
>         throw @ swift-int.k, line: 68
>
>         k:assign @ swift.k, line: 194
> Caused by: Exception in generate_requests:
>     Arguments: [-o, teste.txt, --min_occurrences, 10, --map_list,
>
> workshop/Brasil_ASC/alt.asc,workshop/Brasil_ASC/bio12.asc,workshop/Brasil_ASC/bio2.asc,
> - -m, workshop/Brasil_ASC/bio9.asc, --output_format_file,
> workshop/Brasil_ASC/bio10.asc, --output_map_list,
> workshop/Brasil_ASC/alt.asc,workshop/Brasil_ASC/bio3.asc,
> - --output_mask_file, workshop/Brasil_ASC/bio8.asc]
>     Host: sunhpc
>     Directory:
> workflow-openmodeller-run011/jobs/b/generate_requests-b6u6c1pl
>         exception @ swift-int.k, line: 520
> Caused by: Failed to link input file workshop/Brasil_ASC/alt.asc
>         throw @ swift-int.k, line: 68
>
> - ----------
>
> This is happening in 2 different environments with Swift installed.
> Both with recent code from trunk.  One of them is using revision 7758
> and another 7759 (both from April 2014).
>
> There is a third machine using Swift revision 7575 that works
> perfectly. That was the environment that I used to develop my Swift
> script[1]. It always worked fine there.
>
> Is there the possibility of a recent change has generated a bug?
>
> Best regasrds,
>
> [1]
>
> https://github.com/sibbr/sdm-workflows/blob/master/workflow-openmodeller.swift
> - --
> Guilherme Gall
> CSR/LNCC
> GPG Public Key ID: A65ED0D5
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