Hi Andreas,
after routine-update dh_missing failed due to compat level 13 which defaults to fail if some files are not installed.
Yep, encountered that in other places as well when updating a few (old!) things.
This made me aware that upstream in principle installs a test suite we could use for an autopkgtest. I also realised that you onceadded debian/ltrsift-examples.examples - so you probably had such a package in mind.
Well, upstream is me ;) At least the original upstream, I don't think anyone at my former organization has adopted it in the meantime and I do not have the time to still care for it. But... since LTRsift is a purely graphical tool, there is no automated test suite I know of. The files in samqqple_data are basically just quickstart examples for the accompanying paper to provide a realistic data set to preprocess, manually load and do first clicky analysis steps with, I think.
Since I have no idea what reasons you had not to use this file I'll leave the final decision to you.
Interesting to see that there is no ltrsift-examples package indeed. But I must have had my reasons back then... Anyway, to be honest I don't see much long-term future for LTRsift. I am actually surprised to see it still in Debian and not dropped out of testing as it depends on GTK2, which I assumed was gone from Debian already [0, 1]. I'd be happy with introducing an examples package but I don't think there is going to be a usable autopkgtest to gain, sorry.
(Please note: Somehow a copy of ltrsift_code ends up in the examples dir - I did not yet investigated why this is happening. Before I have no clear picture about your intentions I'll left this for later investigation.)
That is a result of lines 62-65 in the Makefile, which make sure that there is a copy of the executable in that directory, for the paper reviewer's convenience I think (same as why we have the the static build). I think this can be safely patched out as the prepare_encseqs script in the sample_data directory also tries to run ltrsift_encode from the $PATH. ltrsift_encode, BTW, is just a script that prepares the input data and is actually just a wrapper around another tool from GenomeTools, which we wanted to have in here for convenience. I have pushed some changes and can upload soon. Cheers Sascha[0] Apparently not, but it's dead upstream: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=947713
[1] https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=967603
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