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move write-trimmomatic into khmer-protocols OR eel-pond #32

Open ctb opened 10 years ago

ctb commented 10 years ago

not sure which...

LSheneman commented 10 years ago

I think all scripts should be in a central location, aka eel-pond.

ctb commented 10 years ago

On Tue, Feb 18, 2014 at 07:17:16PM -0800, LSheneman wrote:

I think all scripts should be in a central location, aka eel-pond.

Sure, but here's an alternative argument:

What about the kalamazoo protocol? And other protocols? Should those scripts be in eel-pond, or in their own repos?

Why aren't all these scripts in khmer-protocols, anyway?

And if the scripts are tied to specific versions of khmer (which they were -- maybe they're not now) then why weren't they in the khmer repo?

So, I think it's a complicated issue deserving of longer thought, and I see no reason to rush on this. So, I would like to wait until we have a bit more

stability in the protocols and also in khmer before moving on it.

C. Titus Brown, ctb@msu.edu

LSheneman commented 10 years ago

@ctb I believe @camillescott indicated they have decided to merge this into khmer 1.0

camillescott commented 10 years ago

I was referring to us changing the scripts that interact with partitioned fastas to use the Eel Pond key=value format. That may or may not include the rename script from Eel Pond; depends on you guys.

On Tue, Mar 18, 2014 at 9:04 AM, LSheneman notifications@github.com wrote:

@ctb https://github.com/ctb I believe @camillescotthttps://github.com/camillescottindicated they have decided to merge this into khmer 1.0

Reply to this email directly or view it on GitHubhttps://github.com/ged-lab/khmer-protocols/issues/32#issuecomment-37929696 .

Camille Scott

Department of Computer Science and Engineering Lab for Genomics, Evolution, and Development Michigan State University

camille.scott.w@gmail.com

LSheneman commented 10 years ago

Thanks for explaining