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nmdp-bioinformatics / pipeline

Consensus assembly and allele interpretation pipeline.
GNU Lesser General Public License v3.0
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Suggest allowing user to specify reference region in place of default full genome reference. #44

Closed ybolon-nmdp closed 9 years ago

janders3-nmdp commented 9 years ago

would you prefer a command-line flag for this? or an environment variable? Currently, the shell script can be edited, but that's a generally unattractive solution on many levels.

ybolon-nmdp commented 9 years ago

I was thinking command-line flag but could defer to the more attractive solution....

ghost commented 9 years ago

Can we mark this issue as WontFix?

ybolon-nmdp commented 9 years ago

That's fine, I can modify as needed in the bash script and likely best to use the whole genome anyway.

Yung-Tsi Bolon, Ph.D. Principal Scientist, Laboratory Services Laboratory and Biorepository Services 3001 Broadway St. NE Suite 100 Minneapolis, MN 55413 Phone: (612) 351-5742 Cell: (612) 704-1611 Toll Free: 1 (800) 526-7809 Ext 5742 National Marrow Donor Program BeTheMatch.orghttp://BeTheMatch.org

On Jan 14, 2015, at 3:51 PM, Michael Heuer (NMDP) notifications@github.com<mailto:notifications@github.com> wrote:

Can we mark this issue as WontFix?

— Reply to this email directly or view it on GitHubhttps://github.com/nmdp-bioinformatics/pipeline/issues/44#issuecomment-69999234.

ghost commented 9 years ago

Thanks, closing as WontFix