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comparison picard_EstimateLibraryComplexity.xml @ 6:4ff1e04010e6 draft

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author devteam
date Thu, 15 Jan 2015 15:37:04 -0500
parents 3d4f1fa26f0e
children 3a3234d7a2e8
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5:3d4f1fa26f0e 6:4ff1e04010e6
19 19
20 MIN_IDENTICAL_BASES="${min_identical_bases}" 20 MIN_IDENTICAL_BASES="${min_identical_bases}"
21 MAX_DIFF_RATE="${max_diff_rate}" 21 MAX_DIFF_RATE="${max_diff_rate}"
22 MIN_MEAN_QUALITY="${min_mean_quality}" 22 MIN_MEAN_QUALITY="${min_mean_quality}"
23 MAX_GROUP_RATIO="${max_group_ratio}" 23 MAX_GROUP_RATIO="${max_group_ratio}"
24 READ_NAME_REGEX="${read_name_regex}" 24 #import pipes
25 READ_NAME_REGEX=${ pipes.quote( str( $read_name_regex ) ) or "''" }
25 OPTICAL_DUPLICATE_PIXEL_DISTANCE="${optical_duplicate_pixel_distance}" 26 OPTICAL_DUPLICATE_PIXEL_DISTANCE="${optical_duplicate_pixel_distance}"
26 27
27 VALIDATION_STRINGENCY="${validation_stringency}" 28 VALIDATION_STRINGENCY="${validation_stringency}"
28 QUIET=true 29 QUIET=true
29 VERBOSITY=ERROR 30 VERBOSITY=ERROR