Parser interprets empty read as end-of-file about jellyfish HOT 12 CLOSED

Indeed, that is not good. I'll fix it ASAP.

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Can you try the develop branch? The issue should be fixed.

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That was fast! I'll test it out as soon as I get into work.

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Here I betray my strong CMake bias — what magical invocations must I make to generate a proper configure script? I tried aclocal && autoconf && automake --add-missing.

from jellyfish.

The magic call is:

echo abracadabra; autoreconf -fi

from jellyfish.

ahhh, see I was missing the abracadabra incantation! Any interest in building a tagged tarball (i.e. with a stable GitHub url) that already has the ./configure script ready to go? Right now I'm pulling from https://github.com/gmarcais/Jellyfish/archive/develop.zip , which, I imagine, is subject to change in content ;P.

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I will do that. I was hoping to get a feed back from you that it indeed fixed the problem before generating a new version and upload it to the releases.

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I can confirm that this does, indeed, fix the problem (using Rory's test data). The parser now returns (and RapMap now reports) having observed 5 reads, instead of 0, which is correct.

from jellyfish.

OK, the new distribution tarball is ready in the releases(https://github.com/gmarcais/Jellyfish/releases).

Thanks for the bug report.

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Fantastic. Thanks, Guillaume!

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Thanks!

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Is it known how far back this bug has existed?

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