restructure and rename output directory.

blab · Jul 10, 2017 · d50c704 · d50c704
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diff --git a/output_data/consensus-genomes/README.md → output/consensus-genomes/README.md b/output_data/consensus-genomes/README.md → output/consensus-genomes/README.md
diff --git a/...mes/VI1-minion-miseq-comparison-aln.fasta → ...mes/VI1-minion-miseq-comparison-aln.fasta b/...mes/VI1-minion-miseq-comparison-aln.fasta → ...mes/VI1-minion-miseq-comparison-aln.fasta
diff --git a/...mes/VI4-minion-miseq-comparison-aln.fasta → ...mes/VI4-minion-miseq-comparison-aln.fasta b/...mes/VI4-minion-miseq-comparison-aln.fasta → ...mes/VI4-minion-miseq-comparison-aln.fasta
diff --git a/...ta/consensus-genomes/ZIKA_USVI_good.fasta → ...ut/consensus-genomes/ZIKA_USVI_good.fasta b/...ta/consensus-genomes/ZIKA_USVI_good.fasta → ...ut/consensus-genomes/ZIKA_USVI_good.fasta
diff --git a/...consensus-genomes/ZIKA_USVI_partial.fasta → ...consensus-genomes/ZIKA_USVI_partial.fasta b/...consensus-genomes/ZIKA_USVI_partial.fasta → ...consensus-genomes/ZIKA_USVI_partial.fasta
diff --git a/...ta/consensus-genomes/ZIKA_USVI_poor.fasta → ...ut/consensus-genomes/ZIKA_USVI_poor.fasta b/...ta/consensus-genomes/ZIKA_USVI_poor.fasta → ...ut/consensus-genomes/ZIKA_USVI_poor.fasta
diff --git a/output_data/depth-coverage/README.md → output/depth-coverage/README.md b/output_data/depth-coverage/README.md → output/depth-coverage/README.md
diff --git a/...i-library1/Coverage-Overlap-NB01-NB07.png → ...i-library1/Coverage-Overlap-NB01-NB07.png b/...i-library1/Coverage-Overlap-NB01-NB07.png → ...i-library1/Coverage-Overlap-NB01-NB07.png
diff --git a/...i-library1/Coverage-Overlap-NB02-NB08.png → ...i-library1/Coverage-Overlap-NB02-NB08.png b/...i-library1/Coverage-Overlap-NB02-NB08.png → ...i-library1/Coverage-Overlap-NB02-NB08.png
diff --git a/...i-library1/Coverage-Overlap-NB03-NB09.png → ...i-library1/Coverage-Overlap-NB03-NB09.png b/...i-library1/Coverage-Overlap-NB03-NB09.png → ...i-library1/Coverage-Overlap-NB03-NB09.png
diff --git a/...i-library1/Coverage-Overlap-NB04-NB10.png → ...i-library1/Coverage-Overlap-NB04-NB10.png b/...i-library1/Coverage-Overlap-NB04-NB10.png → ...i-library1/Coverage-Overlap-NB04-NB10.png
diff --git a/...i-library1/Coverage-Overlap-NB05-NB11.png → ...i-library1/Coverage-Overlap-NB05-NB11.png b/...i-library1/Coverage-Overlap-NB05-NB11.png → ...i-library1/Coverage-Overlap-NB05-NB11.png
diff --git a/...i-library1/Coverage-Overlap-NB06-NB12.png → ...i-library1/Coverage-Overlap-NB06-NB12.png b/...i-library1/Coverage-Overlap-NB06-NB12.png → ...i-library1/Coverage-Overlap-NB06-NB12.png
diff --git a/...i-library3/Coverage-Overlap-NB01-NB07.png → ...i-library3/Coverage-Overlap-NB01-NB07.png b/...i-library3/Coverage-Overlap-NB01-NB07.png → ...i-library3/Coverage-Overlap-NB01-NB07.png
diff --git a/...i-library3/Coverage-Overlap-NB02-NB08.png → ...i-library3/Coverage-Overlap-NB02-NB08.png b/...i-library3/Coverage-Overlap-NB02-NB08.png → ...i-library3/Coverage-Overlap-NB02-NB08.png
diff --git a/...i-library3/Coverage-Overlap-NB03-NB09.png → ...i-library3/Coverage-Overlap-NB03-NB09.png b/...i-library3/Coverage-Overlap-NB03-NB09.png → ...i-library3/Coverage-Overlap-NB03-NB09.png
diff --git a/...i-library3/Coverage-Overlap-NB04-NB10.png → ...i-library3/Coverage-Overlap-NB04-NB10.png b/...i-library3/Coverage-Overlap-NB04-NB10.png → ...i-library3/Coverage-Overlap-NB04-NB10.png
diff --git a/...i-library3/Coverage-Overlap-NB05-NB11.png → ...i-library3/Coverage-Overlap-NB05-NB11.png b/...i-library3/Coverage-Overlap-NB05-NB11.png → ...i-library3/Coverage-Overlap-NB05-NB11.png
diff --git a/...i-library3/Coverage-Overlap-NB06-NB12.png → ...i-library3/Coverage-Overlap-NB06-NB12.png b/...i-library3/Coverage-Overlap-NB06-NB12.png → ...i-library3/Coverage-Overlap-NB06-NB12.png
diff --git a/...h-coverage/refs/ZikaReferenceGenome.fasta → ...h-coverage/refs/ZikaReferenceGenome.fasta b/...h-coverage/refs/ZikaReferenceGenome.fasta → ...h-coverage/refs/ZikaReferenceGenome.fasta
diff --git a/...verage/refs/ZikaReferenceGenome.fasta.amb → ...verage/refs/ZikaReferenceGenome.fasta.amb b/...verage/refs/ZikaReferenceGenome.fasta.amb → ...verage/refs/ZikaReferenceGenome.fasta.amb
diff --git a/...verage/refs/ZikaReferenceGenome.fasta.ann → ...verage/refs/ZikaReferenceGenome.fasta.ann b/...verage/refs/ZikaReferenceGenome.fasta.ann → ...verage/refs/ZikaReferenceGenome.fasta.ann
diff --git a/...verage/refs/ZikaReferenceGenome.fasta.bwt → ...verage/refs/ZikaReferenceGenome.fasta.bwt b/...verage/refs/ZikaReferenceGenome.fasta.bwt → ...verage/refs/ZikaReferenceGenome.fasta.bwt
diff --git a/...verage/refs/ZikaReferenceGenome.fasta.pac → ...verage/refs/ZikaReferenceGenome.fasta.pac b/...verage/refs/ZikaReferenceGenome.fasta.pac → ...verage/refs/ZikaReferenceGenome.fasta.pac
diff --git a/...overage/refs/ZikaReferenceGenome.fasta.sa → ...overage/refs/ZikaReferenceGenome.fasta.sa b/...overage/refs/ZikaReferenceGenome.fasta.sa → ...overage/refs/ZikaReferenceGenome.fasta.sa