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Hi Andreas, On 6/13/19 1:03 AM, Andreas Tille
wrote:
What directory has to be built and what files need to be installed? Run: make bin/arb_pt_server and make lib/arb_tcp.dat
That should do it. I think you have all files required.
I'd make it a sepearate package, something like arb-pt-server, with
arb-pt-server.install: bin/arb_pt_server usr/bin lib/arb_tcp.dat /etc/arb
arb-pt-server.links: etc/arb/arb_tcp.dat usr/lib/${DEB_HOST_MULTIARCH}/arb For the moment for me the take away message from the paragraph above is that we need arb_tcp.dat from the original arb tarball. Anything else? For backround: the "pt server" is a sequence search engine. It's very fast, but a memory hog. It was implemented as a daemon so that multiple users can share the index (which used to take hours to load). Not really common any more, but back in the day when 32MB was a ton of memory that was different.
If you can package the arb_pt_server binary as above, the tests for SINA should run fine. If you cannot, you could just delete the file "SINA/tests/accuracy.tests" and then run "make check-filtered P=^tests" instead of "make check". The accuracy.tests file contains integration
tests checking overall accuracy with the PT server. There is a
second file that does the same tests with the internal engine.
So not running it is fine. The check-filtered call avoids
running the unit tests, calling only the integration tests on
the fully built binary. That should be fine for packaging - you
don't need to have 100% code coverage, you need to know that the
build isn't broken. I would prefer the solution with tested
arb_pt_server support. If I was to add a "no pt server support"
flag to SINA it would have to disable the support as well, not
just the tests. I can do that, it's going to be quite a bit of
work though. This is perfectly understood and to prove this I have updated Apologies, I was just trying to make sure no time got wasted on
it. Supporting old versions is a luxury I have to keep minimized.
Thanks! :) I'm sorry that help from "upstream" is required. For good software, that should not be necessary.Thanks a lot for your contribution which is very motivating
W.r.t. the build log - this is where it failed first:
configure:14608: checking arbdb.h usability Check that /usr/lib/x86_64-linux-gnu/arb/INCLUDE/arbdb.h exists.
Perhaps I messed up the patch for libarb-dev. INCLUDE should point
to /usr/include/arb.
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