Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

move sweep-reads3.py and assemstats3.py into scripts/ #187

Open
ctb opened this issue Oct 21, 2013 · 6 comments
Open

move sweep-reads3.py and assemstats3.py into scripts/ #187

ctb opened this issue Oct 21, 2013 · 6 comments
Labels
Python
Milestone
1.4

Comments

@ctb
Copy link
Member

ctb commented Oct 21, 2013

next up on the hit list... ;)
@ghost ghost assigned ctb Oct 21, 2013
@ctb
Copy link
Member Author

ctb commented Oct 22, 2013

Also filter-below-abund, fastq-to-fasta.

@mr-c mr-c modified the milestones: 1.0.2+ Release, unscheduled May 8, 2014
@ctb ctb mentioned this issue Jun 12, 2014
Closed
@mr-c
Copy link
Contributor

mr-c commented Jul 11, 2014

Steps to promote filter-below-abund.py to scripts:
(use filter-abund.py as a reference)

  • test coverage 95%+
  • argparse
  • configure # of threads via CLI (default 1)
  • configure the cutoff via CLI (default 50)
  • help text in argparse

@mr-c mr-c mentioned this issue Aug 11, 2014
Open
@mr-c
Copy link
Contributor

mr-c commented Aug 11, 2014

I'm going to upgrade filter-below-abund.py as it is used in Kalamazoo and the upgrade is needed to wrap it for Galaxy. That tool upgrade is now being tracked in #576

@SensibleSalmon
Copy link
Contributor

I could take this on, unless there are other suggestions.

Also, kalamazoo?

@ctb
Copy link
Member Author

ctb commented Sep 30, 2014

I think this is a legacy issue that needs to be updated; let's
chat later.

On Tue, Sep 30, 2014 at 07:57:47AM -0700, bocajnotnef wrote:

I could take this on, unless there are other suggestions.

Also, kalamazoo?

Reply to this email directly or view it on GitHub:

#187 (comment)

C. Titus Brown, [email protected]

@mr-c
Copy link
Contributor

mr-c commented Sep 30, 2014

Kalamazoo is https://khmer-protocols.readthedocs.org/en/latest/metagenomics/index.html

@ctb ctb removed their assignment Jun 12, 2015
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
Python
Projects
None yet
Milestone
1.4
Development

No branches or pull requests
3 participants
@ctb @mr-c @SensibleSalmon