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add -single file output option to ADAM2Vcf #1102

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jpdna opened this Issue Aug 7, 2016 · 1 comment

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jpdna commented Aug 7, 2016

Add a -single option to ADAM2Vcf to output a single VCF file.
I assume this can be done similarly to how it is done currently for BAM output.

@fnothaft - let us know what you think the best approach is here. I am willing to work on porting over to VCF, but I know this was a finicky bit of code, so if you'd rather do it or if you have suggestions let me know.

My near term goal here is to examine the VCF transformations/roundtrips using each of Parquet and HBase data stores, both of which can make use of this same code for VCF output.

@fnothaft fnothaft added the duplicate label Aug 8, 2016

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fnothaft Aug 8, 2016

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I'm going to close this as a dupe of #1009. Thanks for opening it; it gave me the impetus to get back to fixing this. I should have a PR tomorrow.

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fnothaft commented Aug 8, 2016

I'm going to close this as a dupe of #1009. Thanks for opening it; it gave me the impetus to get back to fixing this. I should have a PR tomorrow.

@fnothaft fnothaft closed this Aug 8, 2016

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