Re: 01/01: gnu: bedtools: Update to 2.27.0.

Re: 01/01: gnu: bedtools: Update to 2.27.0.

[Mark H Weaver]

Hi,

rekado@elephly.net (Ricardo Wurmus) writes:

> rekado pushed a commit to branch master
> in repository guix.
>
> commit 0d9824cc127f045d32c22d0c75df46d97cb61624
> Author: Ricardo Wurmus <rekado@elephly.net>
> Date:   Wed Dec 6 19:12:16 2017 +0100
>
>     gnu: bedtools: Update to 2.27.0.
>     
>     * gnu/packages/bioinformatics.scm (bedtools): Update to 2.27.0.
>     [arguments]: Remove custom "install" phase; specify prefix.

The standard 'install' phase seems to have failed on Hydra:

  https://hydra.gnu.org/build/2389354

--8<---------------cut here---------------start------------->8---
starting phase `install'
make: *** No rule to make target 'install'.  Stop.
phase `install' failed after 0.0 seconds
builder for `/gnu/store/fq59s5x7kxn8sq9wl62334bacpjgj1b3-bedtools-2.18.0.drv' failed with exit code 1
@ build-failed /gnu/store/fq59s5x7kxn8sq9wl62334bacpjgj1b3-bedtools-2.18.0.drv - 1 builder for `/gnu/store/fq59s5x7kxn8sq9wl62334bacpjgj1b3-bedtools-2.18.0.drv' failed with exit code 1
--8<---------------cut here---------------end--------------->8---

Any idea what happened here?

      Mark

Re: 01/01: gnu: bedtools: Update to 2.27.0.

[Ricardo Wurmus]

Mark H Weaver <mhw@netris.org> writes:

> Hi,
>
> rekado@elephly.net (Ricardo Wurmus) writes:
>
>> rekado pushed a commit to branch master
>> in repository guix.
>>
>> commit 0d9824cc127f045d32c22d0c75df46d97cb61624
>> Author: Ricardo Wurmus <rekado@elephly.net>
>> Date:   Wed Dec 6 19:12:16 2017 +0100
>>
>>     gnu: bedtools: Update to 2.27.0.
>>
>>     * gnu/packages/bioinformatics.scm (bedtools): Update to 2.27.0.
>>     [arguments]: Remove custom "install" phase; specify prefix.
>
> The standard 'install' phase seems to have failed on Hydra:
>
>   https://hydra.gnu.org/build/2389354
>
> --8<---------------cut here---------------start------------->8---
> starting phase `install'
> make: *** No rule to make target 'install'.  Stop.
> phase `install' failed after 0.0 seconds
> builder for `/gnu/store/fq59s5x7kxn8sq9wl62334bacpjgj1b3-bedtools-2.18.0.drv' failed with exit code 1
> @ build-failed /gnu/store/fq59s5x7kxn8sq9wl62334bacpjgj1b3-bedtools-2.18.0.drv - 1 builder for `/gnu/store/fq59s5x7kxn8sq9wl62334bacpjgj1b3-bedtools-2.18.0.drv' failed with exit code 1
> --8<---------------cut here---------------end--------------->8---

“builder for … 2.18.0”?  This should be version 2.27.0 and worked fine
on at least three machines here.

Is hydra confused?

--
Ricardo

GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
https://elephly.net

Re: 01/01: gnu: bedtools: Update to 2.27.0.

[Mark H Weaver]

Hi Ricardo,

Ricardo Wurmus <rekado@elephly.net> writes:

> Mark H Weaver <mhw@netris.org> writes:
>
>> rekado@elephly.net (Ricardo Wurmus) writes:
>>
>>> rekado pushed a commit to branch master
>>> in repository guix.
>>>
>>> commit 0d9824cc127f045d32c22d0c75df46d97cb61624
>>> Author: Ricardo Wurmus <rekado@elephly.net>
>>> Date:   Wed Dec 6 19:12:16 2017 +0100
>>>
>>>     gnu: bedtools: Update to 2.27.0.
>>>
>>>     * gnu/packages/bioinformatics.scm (bedtools): Update to 2.27.0.
>>>     [arguments]: Remove custom "install" phase; specify prefix.
>>
>> The standard 'install' phase seems to have failed on Hydra:
>>
>>   https://hydra.gnu.org/build/2389354
>>
>> --8<---------------cut here---------------start------------->8---
>> starting phase `install'
>> make: *** No rule to make target 'install'.  Stop.
>> phase `install' failed after 0.0 seconds
>> builder for `/gnu/store/fq59s5x7kxn8sq9wl62334bacpjgj1b3-bedtools-2.18.0.drv' failed with exit code 1
>> @ build-failed
>> /gnu/store/fq59s5x7kxn8sq9wl62334bacpjgj1b3-bedtools-2.18.0.drv - 1
>> builder for
>> `/gnu/store/fq59s5x7kxn8sq9wl62334bacpjgj1b3-bedtools-2.18.0.drv'
>> failed with exit code 1
>> --8<---------------cut here---------------end--------------->8---
>
> “builder for … 2.18.0”?  This should be version 2.27.0 and worked fine
> on at least three machines here.

I see now that there's a 'bedtools-2.18' package that inherits from the
main 'bedtools'.  'bedtools-2.18', apparently needed by 'ribotaper', was
broken by your changes to 'bedtools'.

       Mark

Re: 01/01: gnu: bedtools: Update to 2.27.0.

[Ricardo Wurmus]

Mark H Weaver <mhw@netris.org> writes:

>> “builder for … 2.18.0”?  This should be version 2.27.0 and worked fine
>> on at least three machines here.
>
> I see now that there's a 'bedtools-2.18' package that inherits from the
> main 'bedtools'.  'bedtools-2.18', apparently needed by 'ribotaper', was
> broken by your changes to 'bedtools'.

Thank you.  This is now fixed with commit 83b9d121a.

-- 
Ricardo

GPG: BCA6 89B6 3655 3801 C3C6  2150 197A 5888 235F ACAC
https://elephly.net