Bug#806675: hmmer: nhmmer fails with fatal exception on armhf

2015-12-02 Thread Andreas Tille
On Wed, Dec 02, 2015 at 06:17:52PM +, Edmund Grimley Evans wrote: > > Presumably you can manually configure it to use the "dummy" > > implementation on an Intel processor. Does that work? > > It appears not to. The 3 failures that occurred on armhf can be > obtained on amd64 thus: > > ./confi

Bug#806675: hmmer: nhmmer fails with fatal exception on armhf

2015-12-02 Thread Edmund Grimley Evans
> Presumably you can manually configure it to use the "dummy" > implementation on an Intel processor. Does that work? It appears not to. The 3 failures that occurred on armhf can be obtained on amd64 thus: ./configure --enable-dummy make make check

Bug#806675: hmmer: nhmmer fails with fatal exception on armhf

2015-12-02 Thread Edmund Grimley Evans
ftp://selab.janelia.org/pub/software/hmmer3/3.1b2/Userguide.pdf says: """ Processor: HMMER depends on vector parallelization methods that are supported on most modern processors. H3 requires either an x86-compatible (IA32, IA64, or Intel64) processor that supports the SSE2 vector instruction set,

Bug#806675: hmmer: nhmmer fails with fatal exception on armhf

2015-12-01 Thread Andreas Tille
Hi Sean, thanks for the fast clarification. It would be great if you could keep me informed in case you would enhance the number of architectures to make sure we will follow this move. Kind regards Andreas. On Wed, Dec 02, 2015 at 01:21:25AM +, Eddy, Sean wrote: > HMMER3 is currently

Bug#806675: hmmer: nhmmer fails with fatal exception on armhf

2015-12-01 Thread Andreas Tille
Hi Sean, I'd like to forward this issue to you as the hmmer author. Since in Debian packages are usually build on several different architectures sometimes hidden bugs are detected. Since arm64 and ppc64el might become relevant in bioinformatics in the not to distant future I'd consider this iss

Bug#806675: hmmer: nhmmer fails with fatal exception on armhf

2015-12-01 Thread Edmund Grimley Evans
A lot of the test failures seen in https://buildd.debian.org/status/fetch.php?pkg=hmmer&arch=arm64&ver=3.1b2-1&stamp=1436134634 are not easily reproducible. For example, when I tried cd testsuite/ touch tmp ; rm tmp* ; ./i9-optional-annotation.pl .. .. tmp it gave "ok" most of the time,

Bug#806675: hmmer: nhmmer fails with fatal exception on armhf

2015-11-30 Thread Sascha Steinbiss
Hi Andreas, > would you mind contacting upstream or arm porters about this since you > seem to have done a quite detailed research on the issue ? Sure, I will contact both and see if they know more. Best, Sascha > > On Sun, Nov 29, 2015 at 10:20:54PM +, Sascha Steinbiss wrote: >> Source: h

Bug#806675: hmmer: nhmmer fails with fatal exception on armhf

2015-11-29 Thread Andreas Tille
Hi Sascha, would you mind contacting upstream or arm porters about this since you seem to have done a quite detailed research on the issue ? Kind regards Andreas. On Sun, Nov 29, 2015 at 10:20:54PM +, Sascha Steinbiss wrote: > Source: hmmer > Severity: normal > > Dear Maintainer, >

Bug#806675: hmmer: nhmmer fails with fatal exception on armhf

2015-11-29 Thread Sascha Steinbiss
Source: hmmer Severity: normal Dear Maintainer, while reviewing the reproducible builds output for the barrnap package, which depends on nhmmer, I noticed that a nhmmer problem seems to break barrnap's post-build test run [1]. I'm suspecting this is platform related as it has never occured befor