Re: [Debian-med-packaging] Problems building latest version of htsjdk
I fixed htsjdk and pushed my updates.
I can upload the package unless you want additional updates.
I gonna look at picard-tools
On 09/18/2018 09:24 AM, Olivier Sallou wrote:
>
> 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
gpg key id: 4096R/326D8438 (keyring.debian.org)
Key fingerprint = 5FB4 6F83 D3B9 5204 6335 D26D 78DC 68DB 326D 8438
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