Re: [Debian-med-packaging] Problems building latest version of htsjdk

[Olivier Sallou <olivier.sallou@irisa.fr>]

On 09/18/2018 09:15 AM, Olivier Sallou wrote:
>
> On 09/17/2018 05:36 PM, Andreas Tille wrote:
>> On Mon, Sep 17, 2018 at 04:55:50PM +0200, Olivier Sallou wrote:
>>> I can't find any git update on salsa for htsjdk (last update 1 month
>>> ago), forgot to push?
>> Ups, please check again.
> better, but getting errors:
>
> ...
> gbp:info: Creating /opt/debian/build-area/htsjdk_2.16.1+dfsg.orig.tar.xz
> gbp:error: Error creating htsjdk_2.16.1+dfsg.orig.tar.xz: Pristine-tar
> couldn't checkout "htsjdk_2.16.1+dfsg.orig.tar.xz": fatal: Path
> 'htsjdk_2.16.1+dfsg.orig.tar.xz.delta' does not exist in
> 'refs/heads/pristine-tar'

sorry, was an update issue....
>
>> BTW, regarding picard-tools.
>>
>> The patch
>>
>> --- build.gradle
>> +++ build.gradle
>> @@ -68,13 +64,14 @@
>>          exclude module: 'htsjdk'
>>      }
>>      compile 'com.google.guava:guava:15.0'
>> +    compile 'org.broadinstitute:gatk-native-bindings:debian'
>>      compile 'com.github.samtools:htsjdk:' + htsjdkVersion
>>      compile 'org.broadinstitute:barclay:2.0.0'
>>      compileOnly googleNio
>>
>>      // javadoc utilities; compile/test only to prevent redistribution of sdk jars
>>
>>
>> did not applied.  It seemed to me that upstream found some replacement.
>> I also tried adding it with no change of the issue.
>>
>> Kind regards
>>
>>        Andreas.
>>

-- 
Olivier Sallou
Univ Rennes, Inria, CNRS, IRISA
Irisa, Campus de Beaulieu
F-35042 RENNES - FRANCE
Tel: 02.99.84.71.95

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