On 18 April 2014 18:06, Peter Cock <p.j.a.c...@googlemail.com> wrote:
> On Fri, Apr 18, 2014 at 11:47 AM, Saket Choudhary <sake...@gmail.com> wrote:
>> On 18 April 2014 14:59, Peter Cock <p.j.a.c...@googlemail.com> wrote:
>>> Very strange. Adding "ls test-data" to the TravisCI list worked,
>>> and showed the input file condel_input.tabular was present:
>>> https://github.com/saketkc/galaxy_tools/commit/c04ff946db0182de9aca4f6dc36ff194404cae05
>>> https://s3.amazonaws.com/archive.travis-ci.org/jobs/23239476/log.txt
>>> https://s3.amazonaws.com/archive.travis-ci.org/jobs/23239477/log.txt
>>>
>>> How about replacing that with "ls -l test-data/condel_input.tabular"
>>> to verify the ownership and permissions (although if that was
>>> the upload problem, Galaxy could give a clearer error).
>>>
>>
>> Thanks, tried it: 
>> https://travis-ci.org/saketkc/galaxy_tools/jobs/23270454#L530
>>
>
> I see, that looks fine:
>
> $ ls -l test-data/condel_input.tabular
> -rwxrwxr-x 1 travis travis 110 Apr 18 10:28 test-data/condel_input.tabular
>
>> This happens irrespective of using ftype. and the plce where ERROR
>> occurs is this:
>>
>> ...
>>
>> so my dataset state is set to ERROR, essentially upload failed. But
>> why, is what it doesn't tell me.
>
> If this were a systematic problem other people should have seen
> it - but I have tests using tabular input files which still work fine.
>
> I wonder where exactly in the process it is failing... perhaps in the
> metadata processing which would be consistent with it being some
> oddity in your sample file which is causing trouble?
>
> Can you upload this file condel_input.tabular into Galaxy via the
> UI without error?
>

Yes, the upload works fine with 'Auto-Detect'. It sets the type to be
'interval'. I am also able to upload if I manually set it to
'tabular', which is anyway expected.

Just to double check I tested it with 'filter1_test5.tab' that comes
with galaxy-central and that is failing too:
https://travis-ci.org/saketkc/galaxy_tools/jobs/23277155#L1283

I am going to clone your repository and try pushing in my tools to the
clone to see if that helps.


> Peter
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