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build failure: pbcommand no longer offers pbparser_runner #72

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smoe opened this issue Mar 22, 2020 · 2 comments
Closed

build failure: pbcommand no longer offers pbparser_runner #72

smoe opened this issue Mar 22, 2020 · 2 comments

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@smoe
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smoe commented Mar 22, 2020

Hello,
The pbparser_runner is imported in three different files (see https://github.com/PacificBiosciences/kineticsTools/search?q=pbparser&unscoped_q=pbparser) but no longer offered by https://github.com/PacificBiosciences/pbcommand. That changed API together with the pb* packages not offering releases makes it all a bit difficult to install the right thing and affects the Debian package that I was about to update.
Are there suggestions on what to do? I added a comment on a somewhat related issue PacificBiosciences/pbcommand#190, you may have better ideas how to word that or whom to address.
Many thanks!
Steffen

@natechols
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Looks like the GitHub versions of our repos are out of sync - the tool contract/pbsmrtpipe support has been removed from pbcommand and everything has been ported to Python 3. I'll see if I can get this repo updated to the current code.

@natechols
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The current version has been pushed to the repo, hopefully this resolves the problem.

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