mutations_caller_pipeline 0.0.5 → 0.0.6
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- data/bin/mutations_caller_pipeline +2 -2
- metadata +1 -1
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@@ -2,7 +2,7 @@
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require 'mutations_caller_pipeline'
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require 'optparse'
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require 'rubygems'
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require '
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require 'yaml'
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usage =<<EOF
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_________________________________________________________________________________________________
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@@ -139,4 +139,4 @@ GatkCaller.recalibrate_bam(log_file, options[:gatk], options[:index_fa], options
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GatkCaller.table_calibration(log_file, options[:gatk], options[:index_fa], realigned_bam, recal_bam, recal_file)
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# GATK: finding mutations
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GatkCaller.call(log_file, options[:gatk], options[:index_fa], recal_bam, options[:vcf])
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GatkCaller.call(log_file, options[:gatk], options[:index_fa], recal_bam, options[:vcf])
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