Hi Dave,

This problem persists (or has reoccured),

This tool dependency's required tool dependency samtools version
0.1.19 has status Error.

Did you discover anymore last week? Sorry for the lag in my reply, I busy
with other things.

Thanks,

Peter

On Mon, Apr 21, 2014 at 2:24 PM, Dave Bouvier <d...@bx.psu.edu> wrote:
> Peter,
>
> From what I've been able to determine, samtools' failure was due to an error
> in the testing environment startup process, which in turn caused errors in a
> number of tool dependency packages. I've fixed the initial error, and the
> next test run should result in a successful samtools installation.
>
>   --Dave B.
>
>
> On Mon 21 Apr 2014 06:52:50 AM EDT, Peter Cock wrote:
>>
>> Hi all,
>>
>> This samtools dependency error is now showing for all my
>> Test ToolShed repositories using the samtools package:
>>
>> http://testtoolshed.g2.bx.psu.edu/view/peterjc/samtools_idxstats
>> http://testtoolshed.g2.bx.psu.edu/view/peterjc/samtools_depad
>> http://testtoolshed.g2.bx.psu.edu/view/peterjc/mira4_assembler
>>
>> Looking at the package itself, it looks like a ncurses (or curses)
>> library dependency problem - perhaps something changed on
>> the ToolShed server configuration?
>>
>> http://testtoolshed.g2.bx.psu.edu/view/iuc/package_samtools_0_1_19
>>
>> Regards,
>>
>> Peter
>>
>>
>> On Wed, Apr 16, 2014 at 11:43 AM, Peter Cock
>> <p.j.a.c...@googlemail.com <mailto:p.j.a.c...@googlemail.com>> wrote:
>>
>>     Hi all,
>>
>>     I'm working on a new wrapper for "samtools depad" (which I
>>     have been using with MIRA v4 output), now on the Test ToolShed:
>>
>>     http://testtoolshed.g2.bx.psu.edu/view/peterjc/samtools_depad
>>
>>     The unit tests work for me locally and via TravisCI.
>>
>>     The nightly ToolShed tests are failing - something seems to have gone
>>     wrong with the samtools dependency ("status Error") event though
>>     the samtools package is listed as a successful installation. Odd...
>>
>>     Any thoughts?
>>
>>     Thanks,
>>
>>     Peter
>>
>>     --
>>
>>     Automated tool test results
>>
>>     Automated test environment
>>     *Time tested:* 2014-04-16 05:07:24
>>     *System:* Linux 3.8.0-30-generic
>>     *Architecture:* x86_64
>>     *Python version:* 2.7.4
>>     *Galaxy revision:* 13078:6f698dec5895
>>     *Galaxy database version:* 118
>>     *Tool shed revision:* 13018:e20408b06d65
>>     *Tool shed database version:* 22
>>     *Tool shed mercurial version:* 2.2.3
>>
>>
>>     Installation errors
>>     Tool dependencies
>>     Type        Name    Version
>>     samtools    package         0.1.19
>>     Error
>>     This tool dependency's required tool dependency samtools version
>>     0.1.19 has status Error.
>>
>>     Successful installations
>>     Repository dependencies/- installation of these additional
>>     repositories is required/
>>
>>     Tool shed   Name    Owner   Changeset revision
>>     testtoolshed.g2.bx.psu.edu <http://testtoolshed.g2.bx.psu.edu>
>>     package_samtools_0_1_19     iuc     36aa94676939
>>
>>
>>
>>
>>
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>> galaxy-...@lists.bx.psu.edu
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